Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A05
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: 102776486
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2328156 characters in sequence are not A, C, G, or T
File 177 of 325
Found at i:55699845 original size:18 final size:20
Alignment explanation
Indices: 55699814--55699860 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
55699804 AAGAATATGT
*
55699814 TATATCATCAAAATAATCACA
1 TATAT-ATCAAATTAATCACA
*
55699835 TA-ATATCAAATTATTCACA
1 TATATATCAAATTAATCACA
55699854 TATATAT
1 TATATAT
55699861 GCTTACAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAATTAATCACA
Found at i:55701973 original size:15 final size:14
Alignment explanation
Indices: 55701953--55701998 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
55701943 AAACTAGGAT
*
55701953 TAAGAAGTCCAAGA
1 TAAGAAATCCAAGA
*
55701967 TAGAGAAATCTAAGA
1 TA-AGAAATCCAAGA
55701982 TAAGGAAATCCAAGA
1 TAA-GAAATCCAAGA
55701997 TA
1 TA
55701999 CAATATCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 24 0.89
ACGTcount: A:0.52, C:0.11, G:0.20, T:0.17
Consensus pattern (14 bp):
TAAGAAATCCAAGA
Found at i:55701974 original size:30 final size:30
Alignment explanation
Indices: 55701940--55701998 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
55701930 ATAGATAATA
* *
55701940 AGAAAACTAGGATTAA-GAAGTCCAAGATAG
1 AGAAAACTAAGA-TAAGGAAATCCAAGATAG
*
55701970 AGAAATCTAAGATAAGGAAATCCAAGATA
1 AGAAAACTAAGATAAGGAAATCCAAGATA
55701999 CAATATCATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.53, C:0.10, G:0.20, T:0.17
Consensus pattern (30 bp):
AGAAAACTAAGATAAGGAAATCCAAGATAG
Found at i:55705860 original size:27 final size:27
Alignment explanation
Indices: 55705830--55706007 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55705820 ATATTGAGTC
* * * *
55705830 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55705857 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55705884 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55705912 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55705939 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55705966 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55705993 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55706008 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55705969 original size:82 final size:81
Alignment explanation
Indices: 55705851--55706006 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55705841 TGCTATATAA
* *
55705851 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55705916 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55705933 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55705997 CACTTAGTGC
65 CACTTAGTGC
55706007 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55713883 original size:27 final size:27
Alignment explanation
Indices: 55713853--55714030 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
55713843 ATATTGAGTC
* * * *
55713853 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
55713880 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55713907 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
55713935 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
55713962 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
55713989 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
55714016 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
55714031 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:55713992 original size:82 final size:81
Alignment explanation
Indices: 55713874--55714029 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55713864 TGCTATATAA
* *
55713874 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
55713939 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
55713956 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55714020 CACTTAGTGC
65 CACTTAGTGC
55714030 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:55717226 original size:50 final size:50
Alignment explanation
Indices: 55717161--55717441 Score: 391
Period size: 50 Copynumber: 5.6 Consensus size: 50
55717151 ACCGATGCTC
* * * * * * *
55717161 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* *
55717211 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
55717261 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* * * * *
55717311 TCTGATACACGTAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* * *
55717361 TCTGGTACACATAGTAGCCTGCACTTAGAACTACACACATGACTTAACCA
1 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
* *
55717411 TCTGATACACGTAGTAGCTTGCACTTAGTAC
1 TCTGATACACATAGTAGCCTGCACTTAGTAC
55717442 CTATCAATCT
Statistics
Matches: 205, Mismatches: 26, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 205 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (50 bp):
TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCA
Found at i:55717314 original size:100 final size:100
Alignment explanation
Indices: 55717161--55717490 Score: 441
Period size: 100 Copynumber: 3.4 Consensus size: 100
55717151 ACCGATGCTC
* * * * * * *
55717161 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
* *
55717226 AGCCTGCACTTAGTACTACACACGTGACTTAACCA
66 AGCCTGCACTTAGTACTACACACGTGACCTAACAA
*
55717261 TCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
* *
55717326 AGCCTGCACTTAGTACTACACATGTGACCTATCAA
66 AGCCTGCACTTAGTACTACACACGTGACCTAACAA
* *
55717361 TCTGGTACACATAGTAGCCTGCACTTAGAACTACACACATGACTTAACCATCTGATACACGTAGT
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
*
55717426 AGCTTGCACTTAG---T--AC-C-T-A--T--CAA
66 AGCCTGCACTTAGTACTACACACGTGACCTAACAA
55717449 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA
55717491 ATCACAACGG
Statistics
Matches: 211, Mismatches: 19, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
88 43 0.20
90 1 0.00
92 1 0.00
93 1 0.00
95 2 0.01
97 1 0.00
100 162 0.77
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (100 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACTTAACCATCTGATACACGTAGT
AGCCTGCACTTAGTACTACACACGTGACCTAACAA
Found at i:55717398 original size:150 final size:150
Alignment explanation
Indices: 55717172--55717441 Score: 486
Period size: 150 Copynumber: 1.8 Consensus size: 150
55717162 CTGGTACGCA
*
55717172 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCACTT
* *
55717237 AGTACTACACACGTGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTG
66 AGAACTACACACATGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTG
55717302 ACTTAACCATCTGATACACG
131 ACTTAACCATCTGATACACG
*
55717322 TAGTAGCCTGCACTTAGTACTACACATGTGACCTATCAATCTGGTACACATAGTAGCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCACTT
* *
55717387 AGAACTACACACATGACTTAACCATCTGATACACGTAGTAGCTTGCACTTAGTAC
66 AGAACTACACACATGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTAC
55717442 CTATCAATCT
Statistics
Matches: 114, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
150 114 1.00
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (150 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCTGGTACACATAGTAGCCTGCACTT
AGAACTACACACATGACTTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTG
ACTTAACCATCTGATACACG
Found at i:55717870 original size:19 final size:20
Alignment explanation
Indices: 55717840--55717886 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
55717830 AAGAACATGT
55717840 TATATCATCAAAATAATCACA
1 TATAT-ATCAAAATAATCACA
* *
55717861 TA-ATATCAAATTATTCACA
1 TATATATCAAAATAATCACA
55717880 TATATAT
1 TATATAT
55717887 ACTTGCAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 6 0.26
21 2 0.09
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.36
Consensus pattern (20 bp):
TATATATCAAAATAATCACA
Found at i:55721104 original size:22 final size:22
Alignment explanation
Indices: 55721079--55721136 Score: 82
Period size: 21 Copynumber: 2.6 Consensus size: 22
55721069 TTTTTAATTT
55721079 ATTTTAGAATTTTTTATTGAAA
1 ATTTTAGAATTTTTTATTGAAA
*
55721101 ATTTGA-AATTTTTTATTGAAA
1 ATTTTAGAATTTTTTATTGAAA
*
55721122 ATTTTATGTATTTTT
1 ATTTTA-GAATTTTT
55721137 AAATATTTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 20 0.65
22 5 0.16
23 6 0.19
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (22 bp):
ATTTTAGAATTTTTTATTGAAA
Found at i:55722282 original size:23 final size:23
Alignment explanation
Indices: 55722256--55722300 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
55722246 TAGAAATCGG
55722256 CTGTAACCAACGATCCAATCACA
1 CTGTAACCAACGATCCAATCACA
55722279 CTGTAACCAACGATCCAATCAC
1 CTGTAACCAACGATCCAATCAC
55722301 CATTCTCATC
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:0.38, C:0.36, G:0.09, T:0.18
Consensus pattern (23 bp):
CTGTAACCAACGATCCAATCACA
Found at i:55730705 original size:28 final size:26
Alignment explanation
Indices: 55730650--55730761 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
55730640 AGCATGGCTG
* *
55730650 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
55730676 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
* *
55730704 CCAGAACAGATATATGTGGGAGATCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
55730731 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
55730758 CCAG
1 CCAG
55730762 GACACTTCCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.69
28 17 0.23
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:55730714 original size:54 final size:54
Alignment explanation
Indices: 55730650--55730761 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
55730640 AGCATGGCTG
55730650 CCAGAACAGATA-ATGTGACAGAGT-CACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGA-TCCACCAGAT-CAGATAATCGTGGCAGAGCCA
** * *
55730704 CCAGAACAGATATATGTGGGAGATCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGATCCACCAGATCAGATAATCGTGGCAGAGCCA
55730758 CCAG
1 CCAG
55730762 GACACTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
54 36 0.69
55 16 0.31
ACGTcount: A:0.37, C:0.22, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGATCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:55733202 original size:46 final size:45
Alignment explanation
Indices: 55733124--55733220 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 45
55733114 AAATGCTTAT
* * ** *
55733124 GACCATAGTTGAAAGACATTATGCCATTATACCAAAGAATAAATAA
1 GACCATAGTTAAAAGACACTATGCCACCATACCAAA-AACAAATAA
*
55733170 GACCATAGTTAAAAGACACTATGGCACCATACCAAAAACAAATAA
1 GACCATAGTTAAAAGACACTATGCCACCATACCAAAAACAAATAA
55733215 GACCAT
1 GACCAT
55733221 GACTGAAAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
45 14 0.31
46 31 0.69
ACGTcount: A:0.48, C:0.20, G:0.12, T:0.20
Consensus pattern (45 bp):
GACCATAGTTAAAAGACACTATGCCACCATACCAAAAACAAATAA
Found at i:55733238 original size:45 final size:45
Alignment explanation
Indices: 55733200--55733289 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 45
55733190 ATGGCACCAT
55733200 ACCA-AAAACAAATAAGACCATGACTGAAAGATGTTATGG-AATC
1 ACCATAAAACAAATAAGACCATGACTGAAAGATGTTATGGCAATC
* ** * *
55733243 ACGATTCTATCAAGTAAGACCATGACTGAAAGATGTTATGGC-ATC
1 ACCA-TAAAACAAATAAGACCATGACTGAAAGATGTTATGGCAATC
55733288 AC
1 AC
55733290 AATTCTATCG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
43 3 0.08
45 36 0.92
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (45 bp):
ACCATAAAACAAATAAGACCATGACTGAAAGATGTTATGGCAATC
Found at i:55733295 original size:45 final size:45
Alignment explanation
Indices: 55733212--55733381 Score: 218
Period size: 45 Copynumber: 3.8 Consensus size: 45
55733202 CAAAAACAAA
* * * *
55733212 TAAGACCATGACTGAAAGATGTTATGGAATCACGATTCTATCAAG
1 TAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATCGAG
*
55733257 TAAGACCATGACTGAAAGATGTTATGGCATCACAATTCTATCGAG
1 TAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATCGAG
* * *
55733302 TAAGACCATGATTGAAAGGCGTTA-GAGCATCACGATTCTATCGAG
1 TAAGACCATGACTGAAAGACGTTATG-GCATCACAATTCTATCGAG
* *
55733347 TAAGACCAT-AGCTAAAAGACGCTATGGCATCACAA
1 TAAGACCATGA-CTGAAAGACGTTATGGCATCACAA
55733382 ATAAAACGAA
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
44 2 0.02
45 107 0.97
46 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.21, T:0.24
Consensus pattern (45 bp):
TAAGACCATGACTGAAAGACGTTATGGCATCACAATTCTATCGAG
Found at i:55733396 original size:90 final size:90
Alignment explanation
Indices: 55733167--55733411 Score: 262
Period size: 90 Copynumber: 2.7 Consensus size: 90
55733157 AAAGAATAAA
* * * * * * *
55733167 TAAGACCATAGTTAAAAGACACTATGGCACCATACCA-AAAACAAATAAGACCATGACTGAAAGA
1 TAAGACCATAGCTAAAAGACGCTATGGCATCACA-AATAAAACGAATAAGACCATGATTGAAAGA
*
55733231 TGTTATGGAATCACGATTCTATCAAG
65 CGTTATGGAATCACGATTCTATCAAG
* * * * ** * * *
55733257 TAAGACCAT-GACTGAAAGATGTTATGGCATCACAATTCTATCGAGTAAGACCATGATTGAAAGG
1 TAAGACCATAG-CTAAAAGACGCTATGGCATCACAAATAAAACGAATAAGACCATGATTGAAAGA
* *
55733321 CGTTA-GAGCATCACGATTCTATCGAG
65 CGTTATG-GAATCACGATTCTATCAAG
*
55733347 TAAGACCATAGCTAAAAGACGCTATGGCATCACAAATAAAACGAATAAGACCATGGTTGAAAGAC
1 TAAGACCATAGCTAAAAGACGCTATGGCATCACAAATAAAACGAATAAGACCATGATTGAAAGAC
55733412 ACTATGGCAA
Statistics
Matches: 122, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
89 2 0.02
90 119 0.98
91 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (90 bp):
TAAGACCATAGCTAAAAGACGCTATGGCATCACAAATAAAACGAATAAGACCATGATTGAAAGAC
GTTATGGAATCACGATTCTATCAAG
Found at i:55733449 original size:46 final size:46
Alignment explanation
Indices: 55733347--55733512 Score: 201
Period size: 45 Copynumber: 3.7 Consensus size: 46
55733337 TTCTATCGAG
* * * * * * *
55733347 TAAGACCATAGCTAAAAGACGCTATGGCATCAC-AAATAAAACGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACAGAAAATGAA
*
55733392 TAAGACCATGGTTGAAAGACACTATGGCAACACGACAGAAAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACAGAAAATGAA
* * * *
55733438 TAACACCATGGTTGAAAGACACTATAGCATCAAGAC-GAGAATGAA
1 TAAGACCATGGTTGAAAGACACTATGGCATCACGACAGAAAATGAA
*
55733483 TAAGACCATGGTTGAAAGACACCATGGCAT
1 TAAGACCATGGTTGAAAGACACTATGGCAT
55733513 GCTCCGATCA
Statistics
Matches: 104, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
45 63 0.61
46 41 0.39
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.17
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGACACTATGGCATCACGACAGAAAATGAA
Found at i:55733496 original size:45 final size:46
Alignment explanation
Indices: 55733384--55733504 Score: 181
Period size: 46 Copynumber: 2.7 Consensus size: 46
55733374 CATCACAAAT
* * *
55733384 AAAACGAATAAGACCATGGTTGAAAGACACTATGGCAACACGACAG
1 AAAATGAATAAGACCATGGTTGAAAGACACTATAGCAACAAGACAG
* *
55733430 AAAATGAATAACACCATGGTTGAAAGACACTATAGCATCAAGAC-G
1 AAAATGAATAAGACCATGGTTGAAAGACACTATAGCAACAAGACAG
*
55733475 AGAATGAATAAGACCATGGTTGAAAGACAC
1 AAAATGAATAAGACCATGGTTGAAAGACAC
55733505 CATGGCATGC
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
45 29 0.43
46 39 0.57
ACGTcount: A:0.46, C:0.17, G:0.21, T:0.16
Consensus pattern (46 bp):
AAAATGAATAAGACCATGGTTGAAAGACACTATAGCAACAAGACAG
Found at i:55736874 original size:34 final size:34
Alignment explanation
Indices: 55736830--55736900 Score: 133
Period size: 34 Copynumber: 2.1 Consensus size: 34
55736820 GTAGCCTATT
*
55736830 TATGATGCACATTATTCAAATTGACTCAAAATCA
1 TATGACGCACATTATTCAAATTGACTCAAAATCA
55736864 TATGACGCACATTATTCAAATTGACTCAAAATCA
1 TATGACGCACATTATTCAAATTGACTCAAAATCA
55736898 TAT
1 TAT
55736901 TTTCACAAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.41, C:0.18, G:0.08, T:0.32
Consensus pattern (34 bp):
TATGACGCACATTATTCAAATTGACTCAAAATCA
Found at i:55739055 original size:17 final size:15
Alignment explanation
Indices: 55738997--55739069 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
55738987 TAGATATGGT
*
55738997 AAGAAAACCAA-ATA
1 AAGAAATCCAAGATA
* * * *
55739011 AAGTAGTCCGAGACA
1 AAGAAATCCAAGATA
55739026 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
*
55739041 AAGAAACTCCCAAGATT
1 AAGAAA-T-CCAAGATA
*
55739058 CAGAAATCCAAG
1 AAGAAATCCAAG
55739070 TTACAATACC
Statistics
Matches: 45, Mismatches: 11, Indels: 5
0.74 0.18 0.08
Matches are distributed among these distances:
14 7 0.16
15 24 0.53
16 2 0.04
17 12 0.27
ACGTcount: A:0.53, C:0.19, G:0.15, T:0.12
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:55744008 original size:18 final size:18
Alignment explanation
Indices: 55743967--55744009 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 18
55743957 CCCTAACCAC
55743967 TCAAATTTAATTTTCATA
1 TCAAATTTAATTTTCATA
*
55743985 TACAAATTTCA-TTTCATGA
1 T-CAAATTTAATTTTCAT-A
55744004 TCAAAT
1 TCAAAT
55744010 GTAGCAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 12 0.55
19 10 0.45
ACGTcount: A:0.40, C:0.14, G:0.02, T:0.44
Consensus pattern (18 bp):
TCAAATTTAATTTTCATA
Found at i:55750544 original size:13 final size:12
Alignment explanation
Indices: 55750524--55750600 Score: 73
Period size: 13 Copynumber: 6.1 Consensus size: 12
55750514 ACATTTCCAA
55750524 TTTCTTTTTCTT
1 TTTCTTTTTCTT
* *
55750536 TATTGTTTTTGTT
1 T-TTCTTTTTCTT
*
55750549 TTTGTTTTTCGTT
1 TTTCTTTTTC-TT
55750562 CTTTCTTTTTCTT
1 -TTTCTTTTTCTT
*
55750575 TATTCTTTTTGTT
1 T-TTCTTTTTCTT
*
55750588 TTTATTTTTCTT
1 TTTCTTTTTCTT
55750600 T
1 T
55750601 CTTTCTTTCT
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
12 20 0.37
13 25 0.46
14 9 0.17
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.79
Consensus pattern (12 bp):
TTTCTTTTTCTT
Found at i:55750575 original size:39 final size:39
Alignment explanation
Indices: 55750524--55750608 Score: 143
Period size: 39 Copynumber: 2.2 Consensus size: 39
55750514 ACATTTCCAA
* *
55750524 TTTCTTTTTCTTTATTGTTTTTGTTTTTGTTTTTCGTTC
1 TTTCTTTTTCTTTATTCTTTTTGTTTTTATTTTTCGTTC
*
55750563 TTTCTTTTTCTTTATTCTTTTTGTTTTTATTTTTCTTTC
1 TTTCTTTTTCTTTATTCTTTTTGTTTTTATTTTTCGTTC
55750602 TTTCTTT
1 TTTCTTT
55750609 CTGTGTTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 43 1.00
ACGTcount: A:0.04, C:0.12, G:0.06, T:0.79
Consensus pattern (39 bp):
TTTCTTTTTCTTTATTCTTTTTGTTTTTATTTTTCGTTC
Found at i:55750582 original size:7 final size:6
Alignment explanation
Indices: 55750524--55750600 Score: 73
Period size: 6 Copynumber: 12.2 Consensus size: 6
55750514 ACATTTCCAA
* * *
55750524 TTTCTT TTTCTT TATTGTT TTTGTT TTTGTT TTTCGTT CTTTCTT TTTCTT
1 TTTCTT TTTCTT T-TTCTT TTTCTT TTTCTT TTTC-TT -TTTCTT TTTCTT
* *
55750575 TATTCTT TTTGTT TTTATT TTTCTT T
1 T-TTCTT TTTCTT TTTCTT TTTCTT T
55750601 CTTTCTTTCT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
6 43 0.69
7 15 0.24
8 4 0.06
ACGTcount: A:0.04, C:0.10, G:0.06, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:55760861 original size:132 final size:131
Alignment explanation
Indices: 55760694--55761784 Score: 1181
Period size: 132 Copynumber: 8.3 Consensus size: 131
55760684 TCATTCTACA
* * *
55760694 CCACTGCAACTTTAGGG-GCATAAGATTAGTAGCTTC-ATCTTGTTCCACTACAACTTCAAGGAG
1 CCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTCAATC-TGCTCCACTACAACTTCAAGGAG
** * * * *
55760757 ATAAGACTTGTAG-TTTCAATCTGCTTTACTACAACTTTAGGGAGATAATATTTGTAACTTCAAT
64 ATAAGA-TTGTAGCTTT-AATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAAT
*
55760821 CTACT
127 CTGCT
* * * *
55760826 CCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTTCTCCACTGCAACTTC-AGG-GGT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
* **
55760889 ATAGAATTTGTAGCTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTCATAG-TTTCAAT
66 A-AG-A-TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTT-AAT
55760953 CTGCT
127 CTGCT
* * * * *
55760958 CCATTACAACTTCACGAAGATAAGATTTGTAGCTTTAATCTGCTCCACTACAACTTCAAGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
* * * *
55761023 AAGATTTCTAGCTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATATC
66 AAGA-TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTG
55761088 CT
130 CT
* * * * * * * *
55761090 CTACTGTAACTTCAAGGAGATAAGATTTGTAACTTCAATATGCTCTATTACAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
* * * * *
55761155 AAGATTCATAGCTTCAATCTGCTCTACTGCAACTTCAAGGG-GATAAGATTTGTAGTTTTAATCT
66 AAGATT-GTAGCTTTAATCTGCTCCACTGCAACTT-TAGGGAGATAAGATTTGTAGCTTTAATCT
*
55761219 ACT
129 GCT
* *** *
55761222 CCACTGCAACTTCAGAGAGATAAGATTCAAAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
* * * * *
55761287 AAGACTTGTAGCTATAATCTGCTCCACTACAACTTCAGGGAGACAAGATTTCTAGCTTTAATCTG
66 AAGA-TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTG
55761352 CT
130 CT
* * ** * * * * *
55761354 CCATTACAACTTCA-GGAGGATAAGATTTGTATTTTCAATCTACTCCACTATAGCTTTAGGGAGA
1 CCACTGCAACTTCAGGGA-GATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGA
* * * * *
55761418 TAAGATTCGTACCTTCAATATGCTCCACTGAAACTTTAGGGAGATAAGATTTGTAGCTTCAATCT
65 TAAGATT-GTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCT
55761483 GCT
129 GCT
* * * * * *
55761486 CCACTGCAACTTCAGAGAGATAAGATTCGTAGCCTCAATTTGCTCTACTATAACTTCAAGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
* * * *
55761551 AAGATTTGTAGCTTTAATCTACTCTACTGCAACCTTAGGGAGATAAGATTTGTAGCTTTAATATG
66 AAGA-TTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTG
55761616 CT
130 CT
* * * *
55761618 CCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTATAACTTCAGGGAGAT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
* * * * *
55761683 AAGATTCGTAGCTTCAAACTGCTCCATTGCAACTTCAGGGAGATAAGATTTTTAGCTTTAATCTG
66 AAGATT-GTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTG
*
55761748 CA
130 CT
* * * * *
55761750 CTACTGTAACTTTAAGGAGACAAGATTTGTAGCTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTT
55761785 TAATTGCAAC
Statistics
Matches: 799, Mismatches: 142, Indels: 36
0.82 0.15 0.04
Matches are distributed among these distances:
130 3 0.00
131 19 0.02
132 749 0.94
133 25 0.03
134 3 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (131 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCTCCACTACAACTTCAAGGAGAT
AAGATTGTAGCTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATCTGC
T
Found at i:55761777 original size:176 final size:176
Alignment explanation
Indices: 55760651--55761788 Score: 1218
Period size: 176 Copynumber: 6.4 Consensus size: 176
55760641 GCTCTGCAGA
* * * *
55760651 AACTTCAGGGAGATAAGATTTGTGACTGCAACTTCATTCTACACCACTGCAACTTT-AGGGGCAT
1 AACTTCAGGGAGATAAGATTTGT-A--G---CTTTAATCTACTCCACTGCAACTTTAAGGAG-AT
* * * * * *
55760715 AAGATTAGTAGC-TTCATCTTGTTCCACTACAACTTCAAGGAGATAAGACTTGTAGTTTCAATCT
59 AAGATTTGTAGCTTTAAT-ATGCTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCT
** * * * * * *
55760779 GCTTTACTACAACTTTAGGGAGATAATATTTGTAACTTCAATCTACTCCACTGC
123 GCTCCACTACAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTAC
* * * * *
55760833 AACTTTAGGGAGATAAGATTTGTAGCTTCAATCTTCTCCACTGCAAC-TTCAGG-GGTATAGAAT
1 AACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTTAAGGAGATA-AG-AT
* * * * * ** *
55760896 TTGTAGCTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTCATAGTTTCAATCTGCTCCA
64 TTGTAGCTTTAATATGCTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCA
* * * * *
55760961 TTACAACTTCACGAAGATAAGATTTGTAGCTTTAATCTGCTCCACTAC
129 CTACAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTAC
* * *
55761009 AACTTCAAGGAGATAAGATTTCTAGCTTTAATCTACTCCACTGCAACTTTAGGGAGATAAGATTT
1 AACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTTAAGGAGATAAGATTT
* * ** * * * *
55761074 GTAGCTTTAATATCCTCTACTGTAACTTCAAGGAGATAAGATTTGTAACTTCAATATGCTCTATT
66 GTAGCTTTAATATGCTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACT
* * *
55761139 ACAACTTCAGGGAGATAAGATTCATAGCTTCAATCTGCTCTACTGC
131 ACAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTAC
* *
55761185 AACTTCAAGGG-GATAAGATTTGTAGTTTTAATCTACTCCACTGCAAC-TTCAGAGAGATAAGAT
1 AACTTC-AGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTTAAG-GAGATAAGAT
*** * * * *
55761248 TCAAAGCTTCAATCTGCTCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTAT-AATCTGCTCC
64 TTGTAGCTTTAATATGCTCCACTACAACTTCAAGGAGATAAGATTTGTAGCT-TCAATCTGCTCC
* * *
55761312 ACTACAACTTCAGGGAGACAAGATTTC-TAGCTTTAATCTGCTCCATTAC
128 ACTACAACTTCAGGGAGATAAGA-TTCGTAGCTTCAATCTGCTCCACTAC
* ** * *
55761361 AACTTCA-GGAGGATAAGATTTGTA-TTTTCAATCTACTCCACTATAGCTTTAGGGAGATAAGAT
1 AACTTCAGGGA-GATAAGATTTGTAGCTTT-AATCTACTCCACTGCAACTTTAAGGAGATAAGAT
* * * * *
55761424 TCGTACCTTCAATATGCTCCACTGA-AACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGCTCC
64 TTGTAGCTTTAATATGCTCCACT-ACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCC
* * * * * *
55761488 ACTGCAACTTCAGAGAGATAAGATTCGTAGCCTCAATTTGCTCTACTAT
128 ACTACAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTAC
* * * *
55761537 AACTTCAAGGAGATAAGATTTGTAGCTTTAATCTACTCTACTGCAACCTTAGGGAGATAAGATTT
1 AACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTTAAGGAGATAAGATTT
55761602 GTAGCTTTAATATGCTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACT
66 GTAGCTTTAATATGCTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACT
* * * *
55761667 ATAACTTCAGGGAGATAAGATTCGTAGCTTCAAACTGCTCCATTGC
131 ACAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTAC
* * * * * *
55761713 AACTTCAGGGAGATAAGATTTTTAGCTTTAATCTGCACTACTGTAACTTTAAGGAGACAAGATTT
1 AACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTTAAGGAGATAAGATTT
55761778 GTAGCTTTAAT
66 GTAGCTTTAAT
55761789 TGCAACTTCA
Statistics
Matches: 808, Mismatches: 128, Indels: 46
0.82 0.13 0.05
Matches are distributed among these distances:
174 4 0.00
175 18 0.02
176 733 0.91
177 26 0.03
178 3 0.00
179 1 0.00
181 1 0.00
182 22 0.03
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (176 bp):
AACTTCAGGGAGATAAGATTTGTAGCTTTAATCTACTCCACTGCAACTTTAAGGAGATAAGATTT
GTAGCTTTAATATGCTCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGCTCCACT
ACAACTTCAGGGAGATAAGATTCGTAGCTTCAATCTGCTCCACTAC
Found at i:55761785 original size:44 final size:44
Alignment explanation
Indices: 55760599--55761788 Score: 1054
Period size: 44 Copynumber: 26.9 Consensus size: 44
55760589 TCCAATTCAA
* * * *
55760599 TCCACTGCAACTTCAAGGATATAGGATTTGTAGC-CTCATCTTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATC-TGC
** * * * * * *
55760643 TCTGCAGAAACTTCAGGGAGATAAGATTTGTGACTGCAACTTCATTCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGT-A--G---CTTTAATCTGC
* * * * * *
55760693 ACCACTGCAACTT-TAGGGGCATAAGATTAGTAGC-TTCATCTTGT
1 TCCACTGCAACTTCAAGGAG-ATAAGATTTGTAGCTTTAATC-TGC
* *
55760737 TCCACTACAACTTCAAGGAGATAAGACTTGTAG-TTTCAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTT-AATCTGC
** * * * * * * *
55760781 TTTACTACAACTTTAGGGAGATAATATTTGTAACTTCAATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * *
55760825 TCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTTC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* *
55760869 TCCACTGCAACTTC-AGG-GGTATAGAATTTGTAGCTTTAATCTAC
1 TCCACTGCAACTTCAAGGAGATA-AG-ATTTGTAGCTTTAATCTGC
* * **
55760913 TCCACTGCAACTTTAGGGAGATAAGATTCATAG-TTTCAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTT-AATCTGC
* * * *
55760957 TCCATTACAACTTCACGAAGATAAGATTTGTAGCTTTAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * *
55761001 TCCACTACAACTTCAAGGAGATAAGATTTCTAGCTTTAATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * *
55761045 TCCACTGCAACTTTAGGGAGATAAGATTTGTAGCTTTAATATCC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * * *
55761089 TCTACTGTAACTTCAAGGAGATAAGATTTGTAACTTCAATATGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * * ** *
55761133 TCTATTACAACTTCAGGGAGATAAGATTCATAGCTTCAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * *
55761177 TCTACTGCAACTTCAAGGGGATAAGATTTGTAGTTTTAATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
*** *
55761221 TCCACTGCAACTTC-AGAGAGATAAGATTCAAAGCTTCAATCTGC
1 TCCACTGCAACTTCAAG-GAGATAAGATTTGTAGCTTTAATCTGC
* *
55761265 TCCACTGCAACTTCAAGGAGATAAGACTTGTAGCTATAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * *
55761309 TCCACTACAACTTCAGGGAGACAAGATTTCTAGCTTTAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * *
55761353 TCCATTACAACTTC-AGGAGGATAAGATTTGTA-TTTTCAATCTAC
1 TCCACTGCAACTTCAAGGA-GATAAGATTTGTAGCTTT-AATCTGC
** * * * * * * *
55761397 TCCACTATAGCTTTAGGGAGATAAGATTCGTACCTTCAATATGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * *
55761441 TCCACTGAAACTTTAGGGAGATAAGATTTGTAGCTTCAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * *
55761485 TCCACTGCAACTTC-AGAGAGATAAGATTCGTAGCCTCAATTTGC
1 TCCACTGCAACTTCAAG-GAGATAAGATTTGTAGCTTTAATCTGC
* ** *
55761529 TCTACTATAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTAC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * *
55761573 TCTACTGCAACCTT-AGGGAGATAAGATTTGTAGCTTTAATATGC
1 TCCACTGCAA-CTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* *
55761617 TCCACTACAACTTCAAGGAGATAAGATTTGTAGCTTCAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
** * * * *
55761661 TCCACTATAACTTCAGGGAGATAAGATTCGTAGCTTCAAACTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * *
55761705 TCCATTGCAACTTCAGGGAGATAAGATTTTTAGCTTTAATCTGC
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
* * * * *
55761749 ACTACTGTAACTTTAAGGAGACAAGATTTGTAGCTTTAAT
1 TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAAT
55761789 TGCAACTTCA
Statistics
Matches: 930, Mismatches: 187, Indels: 58
0.79 0.16 0.05
Matches are distributed among these distances:
42 3 0.00
43 22 0.02
44 844 0.91
45 29 0.03
46 3 0.00
47 2 0.00
49 4 0.00
50 21 0.02
51 2 0.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Consensus pattern (44 bp):
TCCACTGCAACTTCAAGGAGATAAGATTTGTAGCTTTAATCTGC
Found at i:55763897 original size:24 final size:23
Alignment explanation
Indices: 55763845--55763899 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
55763835 CAACCGAATT
* *
55763845 TGCACACATAGTGCTCGTCACAC
1 TGCACACATAGTGCTAGTCAAAC
55763868 TCGCACACATAGTGCCATAGT-AAAC
1 T-GCACACATAGTG-C-TAGTCAAAC
55763893 TGCACAC
1 TGCACAC
55763900 TCAGTGCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
23 1 0.04
24 18 0.67
25 5 0.19
26 3 0.11
ACGTcount: A:0.31, C:0.33, G:0.16, T:0.20
Consensus pattern (23 bp):
TGCACACATAGTGCTAGTCAAAC
Found at i:55779809 original size:42 final size:42
Alignment explanation
Indices: 55779691--55779844 Score: 159
Period size: 42 Copynumber: 3.6 Consensus size: 42
55779681 TACCACACCA
* * ** *
55779691 ATGCCATATCCCAGATATGGTCTTATATGGGATCTCGT-TTCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATT-G
* ** *
55779733 ATGCCAATAGCCCA-ACTATGGTCTTATTCAAAATCTCATATTG
1 ATGCC-ATATCCCAGA-TATGGTCTTACACGAAATCTCATATTG
* *
55779776 ATGCCATATCCTAGATATGGTCTTACACGAAATCTCATAATG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
*
55779818 ATGCCATATCCTAGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
55779845 GATAGTCTCG
Statistics
Matches: 95, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
42 62 0.65
43 31 0.33
44 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATTG
Found at i:55783954 original size:19 final size:20
Alignment explanation
Indices: 55783932--55783982 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
55783922 GGGTATTTTT
*
55783932 ATGAAATTTAATGCAT-ATG-
1 ATGAAATGTAATG-ATGATGA
55783951 ATGAAATGTAATGATGATGA
1 ATGAAATGTAATGATGATGA
55783971 ATGAAATG-AATG
1 ATGAAATGTAATG
55783983 CAAAAAGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 19 0.66
20 8 0.28
ACGTcount: A:0.45, C:0.02, G:0.22, T:0.31
Consensus pattern (20 bp):
ATGAAATGTAATGATGATGA
Found at i:55791044 original size:16 final size:15
Alignment explanation
Indices: 55791023--55791053 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
55791013 AGACTGTTTA
55791023 TCTGTATTTGTATATT
1 TCTGTATTTG-ATATT
55791039 TCTGTATTTGATATT
1 TCTGTATTTGATATT
55791054 GGGGATGGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.19, C:0.06, G:0.13, T:0.61
Consensus pattern (15 bp):
TCTGTATTTGATATT
Found at i:55793950 original size:40 final size:40
Alignment explanation
Indices: 55793869--55794006 Score: 217
Period size: 40 Copynumber: 3.5 Consensus size: 40
55793859 AAACCAAGTA
* * *
55793869 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAACTG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
55793908 CCTTCGGGACTTAGCCCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55793948 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
55793988 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
55794007 TTATCATCCG
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
39 14 0.15
40 78 0.85
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:55801094 original size:40 final size:40
Alignment explanation
Indices: 55801014--55801146 Score: 198
Period size: 40 Copynumber: 3.4 Consensus size: 40
55801004 AACCAAGTAA
* * * *
55801014 CTTCGGGATTTAG-CCAGATATAGCT-ACTCGCTCAACTGC
1 CTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGC
*
55801053 CTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
55801093 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
55801133 CTTCGGGACTTAGC
1 CTTCGGGACTTAGC
55801147 TCGGTTATCA
Statistics
Matches: 86, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
39 13 0.15
40 73 0.85
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
Found at i:55809025 original size:13 final size:13
Alignment explanation
Indices: 55809009--55809034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
55808999 TTCATATGAT
55809009 TATATTCAATTAA
1 TATATTCAATTAA
55809022 TATATTCAATTAA
1 TATATTCAATTAA
55809035 CTCATACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTCAATTAA
Found at i:55809784 original size:75 final size:72
Alignment explanation
Indices: 55809705--55809886 Score: 179
Period size: 70 Copynumber: 2.4 Consensus size: 72
55809695 ATTCATTTTC
* * * *
55809705 CAATTAAATTCAAATCACTAATTACTTTTCAATCAATATGCATTTCAAATACTCACATATTTTCT
1 CAATTAAATTCAAATCACT-ATTACTTTCCAATCAATATAC-TTTCAAATACTCACATA-ATTCA
*
55809770 TCATTCAATT
63 TAATTCAATT
* * *
55809780 CAATTTGATTCAATTCAAATCACTTTTAGTTTCCAATCAATATACTTTCAAATATTCACATAATT
1 CAA-TT-A---AATTCAAATCACTATTACTTTCCAATCAATATACTTTCAAATACTCACATAATT
55809845 CATAATTCAATT
61 CATAATTCAATT
* * *
55809857 -ACTT-AATTCAAATCACTTTTAATTTCCAAT
1 CAATTAAATTCAAATCACTATTACTTTCCAAT
55809887 TTGTTCACAT
Statistics
Matches: 92, Mismatches: 10, Indels: 15
0.79 0.09 0.13
Matches are distributed among these distances:
70 25 0.27
75 5 0.05
76 3 0.03
77 13 0.14
78 16 0.17
79 17 0.18
80 13 0.14
ACGTcount: A:0.37, C:0.19, G:0.02, T:0.42
Consensus pattern (72 bp):
CAATTAAATTCAAATCACTATTACTTTCCAATCAATATACTTTCAAATACTCACATAATTCATAA
TTCAATT
Found at i:55810196 original size:11 final size:11
Alignment explanation
Indices: 55810180--55810204 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
55810170 TTAAATTTTC
55810180 CTATTCAATTT
1 CTATTCAATTT
55810191 CTATTCAATTT
1 CTATTCAATTT
55810202 CTA
1 CTA
55810205 CCTTAAATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.20, G:0.00, T:0.52
Consensus pattern (11 bp):
CTATTCAATTT
Found at i:55811113 original size:5 final size:5
Alignment explanation
Indices: 55811105--55811152 Score: 53
Period size: 5 Copynumber: 9.6 Consensus size: 5
55811095 TTTATTTCAA
* * *
55811105 AATAT AATAT AATAT AATTAT AATAT AAT-T ATTAT AATTT AACAT AAT
1 AATAT AATAT AATAT AA-TAT AATAT AATAT AATAT AATAT AATAT AAT
55811153 TAAATTTATA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
4 3 0.09
5 27 0.77
6 5 0.14
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (5 bp):
AATAT
Found at i:55811128 original size:16 final size:16
Alignment explanation
Indices: 55811107--55811154 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
55811097 TATTTCAAAA
55811107 TATAATATAATATAAT
1 TATAATATAATATAAT
55811123 TATAATATAAT-T-AT
1 TATAATATAATATAAT
* *
55811137 TATAATTTAACATAAT
1 TATAATATAATATAAT
55811153 TA
1 TA
55811155 AATTTATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 11 0.39
15 2 0.07
16 15 0.54
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
TATAATATAATATAAT
Found at i:55821696 original size:5 final size:5
Alignment explanation
Indices: 55821686--55821720 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
55821676 AATTTGTGTG
*
55821686 TTATT TTATT TTTTCT TTATT TTATT TTATT TTAT
1 TTATT TTATT TTAT-T TTATT TTATT TTATT TTAT
55821721 CTTTTTCACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 23 0.85
6 4 0.15
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:55826215 original size:46 final size:46
Alignment explanation
Indices: 55826148--55826238 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
55826138 TATATATACA
** * **
55826148 CATCTCATACATGTCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATATC
* *
55826194 CATCTCATACACATTTCACATTAACCATTCAGCTTTCCCACATAT
1 CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATAT
55826239 ATACACATCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.32, G:0.05, T:0.34
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAACCATTCAGCTTTACCACATATC
Found at i:55826270 original size:47 final size:47
Alignment explanation
Indices: 55826232--55826543 Score: 453
Period size: 47 Copynumber: 6.6 Consensus size: 47
55826222 TCAGCTTTCC
** * * *
55826232 CACATATATACACATCCACGTTCATCACATTGGCCATTCTGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
55826279 CACATGTATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
55826326 CACATATATGCATGTTCATATTCTTCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
55826373 CACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
55826420 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
*
55826467 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGTCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * ** *
55826514 CACACAAAGGCATGTTCACATCCATCACAT
1 CACATATATACATGTTCACATTCATCACAT
55826544 AAAATCCTAA
Statistics
Matches: 242, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 242 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:55826281 original size:22 final size:22
Alignment explanation
Indices: 55826255--55826330 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
55826245 ATCCACGTTC
55826255 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
55826277 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
55826302 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
55826324 ATCACAT
1 ATCACAT
55826331 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:55826423 original size:22 final size:22
Alignment explanation
Indices: 55826396--55826471 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
55826386 GTTCACATTC
55826396 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
55826418 ATCACATATATACATGTTC-ACATT
1 ATCACAT-TGGCCA--TTCGGCCTT
55826442 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
55826465 ATCACAT
1 ATCACAT
55826472 ATATACATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.44
23 6 0.15
24 6 0.15
25 10 0.26
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:55830263 original size:26 final size:26
Alignment explanation
Indices: 55830228--55830277 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
55830218 AAATAAAAAG
*
55830228 GGGGTTGCTATGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
55830254 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
55830278 GATTAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:55830297 original size:102 final size:104
Alignment explanation
Indices: 55830046--55830310 Score: 410
Period size: 104 Copynumber: 2.6 Consensus size: 104
55830036 GTTGTACATA
** *
55830046 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
55830111 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
*
55830150 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
55830214 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATT-CCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
* * *
55830252 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
55830311 AATAACGGTT
Statistics
Matches: 148, Mismatches: 11, Indels: 6
0.90 0.07 0.04
Matches are distributed among these distances:
102 57 0.39
103 26 0.18
104 65 0.44
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (104 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCCC
Found at i:55836467 original size:14 final size:15
Alignment explanation
Indices: 55836443--55836471 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
55836433 ACGGAAAATT
55836443 TTCGTAAAAATTTCG
1 TTCGTAAAAATTTCG
55836458 TTCG-AAAAATTTCG
1 TTCGTAAAAATTTCG
55836472 ACGTTTGGGC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (15 bp):
TTCGTAAAAATTTCG
Found at i:55837648 original size:26 final size:26
Alignment explanation
Indices: 55837613--55837662 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
55837603 AATGTGAAAG
*
55837613 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
55837639 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
55837663 AGTTCATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.24, G:0.34, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:55837750 original size:26 final size:26
Alignment explanation
Indices: 55837715--55837764 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
55837705 AAATAAAAAG
*
55837715 GGGGTTGCTATGTGCTGATTCCCCAA
1 GGGGTTGCTAAGTGCTGATTCCCCAA
55837741 GGGGTTGCTAAGTGCTGATTCCCC
1 GGGGTTGCTAAGTGCTGATTCCCC
55837765 GATTAAGTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCAA
Found at i:55837776 original size:102 final size:103
Alignment explanation
Indices: 55837534--55837797 Score: 415
Period size: 102 Copynumber: 2.6 Consensus size: 103
55837524 GTTGTACATA
** *
55837534 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGATATCCACCGTATCT
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
* **
55837599 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCC
66 CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
*
55837637 GAGGGGTTGCTAAGTGCTGATTCCCC-AGTTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGA-TTCATTGGTGGTGCTAAGTGCGATATCCACCGTATC
55837701 TCTGAAAT-AAAAAGGGGGTTGCTATGTGCTGATTCCCC
65 TCTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
* * *
55837739 AAGGGGTTGCTAAGTGCTGATTCCCCGATTAAGTGGTGGTGCTAAGTGCGAGATCCACC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACC
55837798 AATAACGGTT
Statistics
Matches: 148, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
102 82 0.55
103 66 0.45
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCGTATCT
CTGAAATGAAAAAGGGGGTTGCTATGTGCTGATTCCCC
Found at i:55840360 original size:28 final size:27
Alignment explanation
Indices: 55840271--55840368 Score: 74
Period size: 28 Copynumber: 3.5 Consensus size: 27
55840261 GACTGATTTC
* *
55840271 GCACACATAGCGCTC-GATTAAAGAACTC
1 GCACACATAGTGCTCAG-TT-AAGAACTT
* **
55840299 GCACACATAGTGCCTCAATTACCAA-TAT
1 GCACACATAGTG-CTCAGTTAAGAACT-T
55840327 CGCACACATAGTGCTCAGTTGAAGAACTT
1 -GCACACATAGTGCTCAGTT-AAGAACTT
*
55840356 GCACACACAGTGC
1 GCACACATAGTGC
55840369 CTCATAACTC
Statistics
Matches: 55, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
27 1 0.02
28 32 0.58
29 21 0.38
30 1 0.02
ACGTcount: A:0.34, C:0.29, G:0.17, T:0.20
Consensus pattern (27 bp):
GCACACATAGTGCTCAGTTAAGAACTT
Found at i:55840451 original size:40 final size:40
Alignment explanation
Indices: 55840400--55840688 Score: 461
Period size: 40 Copynumber: 7.2 Consensus size: 40
55840390 CCTTCGAGGT
* * *
55840400 TTAGCCTGGATATATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
*
55840440 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
*
55840480 TTAGCCCGGATACATTACTAGCACGAATGCTCTTTGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
*
55840520 TTAGCCCAGATACATTACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
* **
55840560 TTAGCCCGGATACATCACTAGCACGAATGCTCTTTAGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
* * *
55840600 TTAGCTCGGATACATTACTAGCACAAATGCTCTTTGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
*
55840640 TTAGCCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
55840680 TTAGCCCGG
1 TTAGCCCGG
55840689 CTATATATCT
Statistics
Matches: 229, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 229 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (40 bp):
TTAGCCCGGATACATTACTAGCACGAATGCTCTTCGGAAC
Found at i:55842180 original size:46 final size:46
Alignment explanation
Indices: 55842127--55842216 Score: 126
Period size: 46 Copynumber: 2.0 Consensus size: 46
55842117 ATATATACAC
* * **
55842127 ATCTCATACATGTCTCACATTAGCCATTTGGCTTTACCACATATCT
1 ATCTCATACATATCTCACATTAACCATTCAGCTTTACCACATATCT
* *
55842173 ATCTCATACATATTTCACATTAACCATTCAGCTTTCCCACATAT
1 ATCTCATACATATCTCACATTAACCATTCAGCTTTACCACATAT
55842217 ATACACATCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.37
Consensus pattern (46 bp):
ATCTCATACATATCTCACATTAACCATTCAGCTTTACCACATATCT
Found at i:55842248 original size:47 final size:47
Alignment explanation
Indices: 55842210--55842521 Score: 453
Period size: 47 Copynumber: 6.6 Consensus size: 47
55842200 TCAGCTTTCC
** * * *
55842210 CACATATATACACATCCACGTTCATCACATTGGCCATTCTGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
55842257 CACATGTATGCATGTTCACATTTATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * *
55842304 CACATATATGCATGTTCATATTCTTCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* *
55842351 CACACATATGCATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
55842398 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
*
55842445 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGTCTTAT
1 CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
* * ** *
55842492 CACACAAAGGCATGTTCACATCCATCACAT
1 CACATATATACATGTTCACATTCATCACAT
55842522 AAAATCCTAA
Statistics
Matches: 242, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 242 1.00
ACGTcount: A:0.27, C:0.28, G:0.12, T:0.33
Consensus pattern (47 bp):
CACATATATACATGTTCACATTCATCACATTGGCCATTCGGCCTTAT
Found at i:55842259 original size:22 final size:22
Alignment explanation
Indices: 55842233--55842308 Score: 59
Period size: 22 Copynumber: 3.3 Consensus size: 22
55842223 ATCCACGTTC
55842233 ATCACATTGGCCATTCTGCCTT
1 ATCACATTGGCCATTCTGCCTT
*
55842255 ATCACATGTATG-CATGT-T-CACATTT
1 ATCACAT-T-GGCCAT-TCTGC-C--TT
*
55842280 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCTGCCTT
55842302 ATCACAT
1 ATCACAT
55842309 ATATGCATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 18
0.67 0.05 0.29
Matches are distributed among these distances:
22 17 0.40
23 8 0.19
24 7 0.17
25 10 0.24
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.36
Consensus pattern (22 bp):
ATCACATTGGCCATTCTGCCTT
Found at i:55842401 original size:22 final size:22
Alignment explanation
Indices: 55842374--55842449 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
55842364 GTTCACATTC
55842374 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
55842396 ATCACATATATACATGTTC-ACATT
1 ATCACAT-TGGCCA--TTCGGCCTT
55842420 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
55842443 ATCACAT
1 ATCACAT
55842450 ATATACATGT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 17 0.44
23 6 0.15
24 6 0.15
25 10 0.26
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:55866281 original size:24 final size:24
Alignment explanation
Indices: 55866249--55866297 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
55866239 TTATAAGTGG
*
55866249 TGATAGAGTCCCCTAAATGTTTCA
1 TGATAGAGTCCCCTAAATGTGTCA
55866273 TGATAGAGTCCCCTAAATGTGTCA
1 TGATAGAGTCCCCTAAATGTGTCA
55866297 T
1 T
55866298 AATCACAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (24 bp):
TGATAGAGTCCCCTAAATGTGTCA
Found at i:55866412 original size:17 final size:18
Alignment explanation
Indices: 55866392--55866425 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
55866382 TATTATGCAT
*
55866392 GAATTGT-TATTTTATGC
1 GAATTGTCTATTCTATGC
55866409 GAATTGTCTATTCTATG
1 GAATTGTCTATTCTATG
55866426 TGAACCGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.50
Consensus pattern (18 bp):
GAATTGTCTATTCTATGC
Found at i:55867414 original size:38 final size:38
Alignment explanation
Indices: 55867364--55867459 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 38
55867354 CCAACTCCGT
* * *
55867364 CCAA-CCTAACACACCATGTGGGGATAAAATCGACCCAC
1 CCAACCCT-ACACACCATATGGGGATAAAATCAAACCAC
* *
55867402 CCATCCCTACACACCAAATATGGGGATAAAATCAAACCAT
1 CCAACCCTACACACC--ATATGGGGATAAAATCAAACCAC
55867442 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
55867460 GAGTACTGTA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
38 13 0.27
39 3 0.06
40 33 0.67
ACGTcount: A:0.40, C:0.35, G:0.10, T:0.15
Consensus pattern (38 bp):
CCAACCCTACACACCATATGGGGATAAAATCAAACCAC
Found at i:55867429 original size:40 final size:40
Alignment explanation
Indices: 55867382--55867457 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
55867372 ACACACCATG
* * *
55867382 TGGGGATAAAATCGACCCACCCATCCCTACACACCAAATA
1 TGGGGATAAAATCAAACCACCCAACCCTACACACCAAATA
*
55867422 TGGGGATAAAATCAAACCATCCAACCCTACACACCA
1 TGGGGATAAAATCAAACCACCCAACCCTACACACCA
55867458 TAGAGTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.39, C:0.34, G:0.12, T:0.14
Consensus pattern (40 bp):
TGGGGATAAAATCAAACCACCCAACCCTACACACCAAATA
Found at i:55872893 original size:27 final size:28
Alignment explanation
Indices: 55872863--55872949 Score: 144
Period size: 27 Copynumber: 3.2 Consensus size: 28
55872853 GTGACGAAGT
55872863 CACCAGATACAGATA-TTGTGGCAGAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
55872890 CACCAGA-ACAGATATTTGTGGCAGAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
*
55872917 CACCAGAT-CAGATATTTGTGGCATAGC
1 CACCAGATACAGATATTTGTGGCAGAGC
55872944 CACCAG
1 CACCAG
55872950 GATGCTTCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
26 7 0.12
27 50 0.88
ACGTcount: A:0.32, C:0.24, G:0.24, T:0.20
Consensus pattern (28 bp):
CACCAGATACAGATATTTGTGGCAGAGC
Found at i:55874572 original size:26 final size:26
Alignment explanation
Indices: 55874533--55874640 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
55874523 TGAAATGCCC
* *
55874533 ATCATGGAACATTTACCTAAACTATT
1 ATCATGGAACATTTACCTAACCCATT
*
55874559 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
55874585 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
55874611 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55874637 ATCA
1 ATCA
55874641 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.34
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55880931 original size:26 final size:26
Alignment explanation
Indices: 55880900--55881007 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
55880890 TGAAATGCCC
*
55880900 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
55880926 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* * *
55880952 ATCATGAAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
55880978 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
55881004 ATCA
1 ATCA
55881008 ATTTGTACCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:55885128 original size:27 final size:26
Alignment explanation
Indices: 55885093--55885204 Score: 134
Period size: 27 Copynumber: 4.2 Consensus size: 26
55885083 AGCATGGCTG
* *
55885093 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
55885119 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
55885147 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
55885174 CCAGATCAGATAATTGTGGCATATCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
55885201 CCAG
1 CCAG
55885205 GACACTTCCT
Statistics
Matches: 75, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.08
27 52 0.69
28 17 0.23
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:55885157 original size:54 final size:54
Alignment explanation
Indices: 55885093--55885204 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
55885083 AGCATGGCTG
*
55885093 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
** * * *
55885147 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATATCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
55885201 CCAG
1 CCAG
55885205 GACACTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:55886648 original size:24 final size:24
Alignment explanation
Indices: 55886613--55886665 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
55886603 CCAACACTGT
55886613 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCCTAAATCC
*
55886637 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTAATCAGCTCCTAAATCC
55886661 TCTCC
1 TCTCC
55886666 TGACAGACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.21, C:0.43, G:0.04, T:0.32
Consensus pattern (24 bp):
TCTCCCTAATCAGCTCCTAAATCC
Found at i:55888216 original size:27 final size:26
Alignment explanation
Indices: 55888168--55888219 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
55888158 GCGAGGCTAC
*
55888168 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
55888194 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
55888220 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55890451 original size:29 final size:29
Alignment explanation
Indices: 55890417--55890490 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
55890407 TAATTAACCG
*
55890417 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
55890446 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
55890475 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
55890491 ATTTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:55898591 original size:29 final size:29
Alignment explanation
Indices: 55898557--55898630 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
55898547 TAATCAACCG
*
55898557 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
55898586 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
55898615 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
55898631 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:55900367 original size:27 final size:27
Alignment explanation
Indices: 55900332--55900617 Score: 313
Period size: 27 Copynumber: 10.6 Consensus size: 27
55900322 GGTAAATCGA
* *
55900332 TAATCCTACCCTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * * *
55900359 TATTTCTACCCTAAAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
55900386 TAATTCTCCCCTACAGGGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* **
55900413 TAATTCTACCCTATAGGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
55900440 TAATTCTACCTTATAGGGTTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* **
55900467 TAATTCTACTCTACAAAGGTATTTCAG
1 TAATTCTACCCTACAGGGGTATTTCAG
*
55900494 TAATTCTACCCTACAGGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* * *
55900521 TAATTCT-CCCTTATAGGGGAATTTTAG
1 TAATTCTACCC-TACAGGGGTATTTCAG
* * *
55900548 TAATTCTACCCTACAAGGGTAGTTCGG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
55900575 TAATTCTACCTTACAGGGGTATTTTAG
1 TAATTCTACCCTACAGGGGTATTTCAG
* *
55900602 TAATGCTAGCCTACAG
1 TAATTCTACCCTACAG
55900618 ATATGAGATT
Statistics
Matches: 210, Mismatches: 47, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
26 3 0.01
27 204 0.97
28 3 0.01
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCAG
Found at i:55900463 original size:81 final size:80
Alignment explanation
Indices: 55900332--55900605 Score: 350
Period size: 81 Copynumber: 3.4 Consensus size: 80
55900322 GGTAAATCGA
* * * * * *
55900332 TAATCCTACCCTACAGGGGTATTTTAGTATTTCTACCCTAAAAGGGTATTTCGGTAATTCTCCCC
1 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTA-CCTTATAGGGTATTTCAGTAATTCTACCC
*
55900397 TACAGGGGTATTTCAG
65 TACAAGGGTATTTCAG
* * *
55900413 TAATTCTACCCTATAGGGGTATTTTGGTAATTCTACCTTATAGGGTTATTTCAGTAATTCTACTC
1 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCTTATAGGG-TATTTCAGTAATTCTACCC
*
55900478 TACAAAGGTATTTCAG
65 TACAAGGGTATTTCAG
** * * *
55900494 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTCCCTTATAGGGGAATTTTAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCTTATA-GGGTATTTCAGTAATTCTACCC
* *
55900559 TACAAGGGTAGTTCGG
65 TACAAGGGTATTTCAG
*
55900575 TAATTCTACCTTACAGGGGTATTTTAGTAAT
1 TAATTCTACCCTACAGGGGTATTTTAGTAAT
55900606 GCTAGCCTAC
Statistics
Matches: 168, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 8 0.05
81 157 0.93
82 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (80 bp):
TAATTCTACCCTACAGGGGTATTTTAGTAATTCTACCTTATAGGGTATTTCAGTAATTCTACCCT
ACAAGGGTATTTCAG
Found at i:55997414 original size:79 final size:80
Alignment explanation
Indices: 55997249--55997427 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 80
55997239 CGTTCAAATA
* * *
55997249 CCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATTTA
1 CCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATA
* *
55997313 GTAACTCGCACCAATG
65 GTAACTAGCACCAAAG
** *
55997329 CCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATG
1 CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATA
*
55997392 GTCACTTAGCA-CAAAG
65 GTAAC-TAGCACCAAAG
*
55997408 CTTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
55997428 CATCATTCGA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
78 3 0.04
79 58 0.68
80 24 0.28
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAG
TAACTAGCACCAAAG
Found at i:55997427 original size:40 final size:40
Alignment explanation
Indices: 55997224--55997427 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
55997214 CGGAATTTAA
** * *
55997224 CCGGATATAGCT-ACTCGTTCAAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55997264 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
55997304 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
55997343 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
55997383 CCGGATATGGTCACTTAGCACAAA-GCTTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
55997423 CCGGA
1 CCGGA
55997428 CATCATTCGA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:56002456 original size:28 final size:28
Alignment explanation
Indices: 56002391--56002541 Score: 207
Period size: 28 Copynumber: 5.4 Consensus size: 28
56002381 GAGATTGGCG
* * * *
56002391 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
56002420 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
56002448 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
56002476 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
56002504 CTAAGTGTGCAAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
56002531 CTGAA-TGTGCG
1 CT-AAGTGTGCG
56002542 GACTTAATAT
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
27 21 0.19
28 77 0.68
29 15 0.13
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:56004642 original size:44 final size:41
Alignment explanation
Indices: 56004573--56004693 Score: 113
Period size: 44 Copynumber: 2.9 Consensus size: 41
56004563 CTGTAAGGGT
* * * *
56004573 TAGCCGAAGCTAAAATGATTCCGCACACTTAGTGCCATTTTA
1 TAGCCGAAGCT-ATATTAATCCGCACACTTAGTGCCATTATA
*
56004615 GTTAGCCGAAGCTA-AGTTAGTAT-CGCACACTTGGTGCC-TTATA
1 --TAGCCGAAGCTATA-TTA--ATCCGCACACTTAGTGCCATTATA
*
56004658 TCGCCGAAGCTATATTAATCCGCACACTTAGTGCCA
1 TAGCCGAAGCTATATTAATCCGCACACTTAGTGCCA
56004694 AGCATAGTCG
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
39 2 0.03
40 14 0.22
41 14 0.22
42 2 0.03
43 7 0.11
44 25 0.38
45 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (41 bp):
TAGCCGAAGCTATATTAATCCGCACACTTAGTGCCATTATA
Found at i:56009137 original size:15 final size:15
Alignment explanation
Indices: 56009119--56009150 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
56009109 TTTACAATTG
56009119 ACAATGGTACATAGT
1 ACAATGGTACATAGT
*
56009134 ACAATGGTACATGGT
1 ACAATGGTACATAGT
56009149 AC
1 AC
56009151 TAGTTCATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (15 bp):
ACAATGGTACATAGT
Found at i:56011031 original size:45 final size:43
Alignment explanation
Indices: 56010966--56011100 Score: 186
Period size: 45 Copynumber: 3.1 Consensus size: 43
56010956 CAATAGGCCT
* *
56010966 TATATAATACACCGGCATAAAGCCTGCTAGGCAATAAAGCCCGA
1 TATATAACACA-CGGCATAAAGCCTACTAGGCAATAAAGCCCGA
56011010 TAATATAACACACTGGCATAAAGCCTACTAGGCAATAAAGCCCGA
1 T-ATATAACACAC-GGCATAAAGCCTACTAGGCAATAAAGCCCGA
*
56011055 TATA-ATACAC-CGGCATAAAGCCTACTAGGTAATAAAGCCCGA
1 TATATA-ACACACGGCATAAAGCCTACTAGGCAATAAAGCCCGA
56011097 -ATAT
1 TATAT
56011101 CACTAATACA
Statistics
Matches: 84, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
41 3 0.04
42 30 0.36
43 2 0.02
44 9 0.11
45 40 0.48
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.19
Consensus pattern (43 bp):
TATATAACACACGGCATAAAGCCTACTAGGCAATAAAGCCCGA
Found at i:56011071 original size:42 final size:42
Alignment explanation
Indices: 56010910--56011096 Score: 213
Period size: 42 Copynumber: 4.4 Consensus size: 42
56010900 ATAAACTTTG
* * *
56010910 CTAGGC-ATAAAG-CCTAGTATAATACACCGGCACAGAA-CCTG
1 CTAGGCAATAAAGCCCGA-TATAATACACCGGCATA-AAGCCTA
* ** *
56010951 CTAGGCAAT-AGGCCTTATATAATACACCGGCATAAAGCCTG
1 CTAGGCAATAAAGCCCGATATAATACACCGGCATAAAGCCTA
56010992 CTAGGCAATAAAGCCCGATA-ATATAACACACTGGCATAAAGCCTA
1 CTAGGCAATAAAGCCCGATATA-AT-ACAC-C-GGCATAAAGCCTA
56011037 CTAGGCAATAAAGCCCGATATAATACACCGGCATAAAGCCTA
1 CTAGGCAATAAAGCCCGATATAATACACCGGCATAAAGCCTA
*
56011079 CTAGGTAATAAAGCCCGA
1 CTAGGCAATAAAGCCCGA
56011097 ATATCACTAA
Statistics
Matches: 129, Mismatches: 8, Indels: 17
0.84 0.05 0.11
Matches are distributed among these distances:
40 2 0.02
41 38 0.29
42 44 0.34
43 5 0.04
44 5 0.04
45 34 0.26
46 1 0.01
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (42 bp):
CTAGGCAATAAAGCCCGATATAATACACCGGCATAAAGCCTA
Found at i:56018214 original size:46 final size:46
Alignment explanation
Indices: 56018141--56018260 Score: 204
Period size: 46 Copynumber: 2.6 Consensus size: 46
56018131 AACTAGGCAT
*
56018141 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
* *
56018187 CCGAGCTCGTTGAGTTGAGTCCAAGTTCACTCATGGATGCGAATGC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
*
56018233 CCGAGCTCATTGAGTTGAGTCCGAGTTC
1 CCGAGCTCGTTGAGTTGAGTCCGAGTTC
56018261 GCTTATGGGC
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 69 1.00
ACGTcount: A:0.21, C:0.25, G:0.28, T:0.26
Consensus pattern (46 bp):
CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGC
Found at i:56021658 original size:42 final size:42
Alignment explanation
Indices: 56021493--56021681 Score: 161
Period size: 42 Copynumber: 4.5 Consensus size: 42
56021483 ACATAAACTT
* * *
56021493 TGCTAGGC-ATAAAG-CCTAGTATAATACACCGGCACAGAA-CC
1 TGCTAGGCAATAAAGCCCGA-TATAATACACCAGCATA-AAGCC
* **
56021534 TGCTAGGCAAT-AGGCCTTATATAATACACCAGCATAAAGCC
1 TGCTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCC
* * ** * *
56021575 TACTAGGCAAGAAAGACCAATAATATAACACACCGGCATAAAGCC
1 TGCTAGGCAATAAAG-CC--CGATATAATACACCAGCATAAAGCC
*
56021620 TGCTAGGCAATAAAGCCCGATATAATACACCAGTATAAAGCC
1 TGCTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCC
* * *
56021662 TACAAGGTAATAAAGCCCGA
1 TGCTAGGCAATAAAGCCCGA
56021682 ATATCACTAA
Statistics
Matches: 121, Mismatches: 20, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
40 2 0.02
41 36 0.30
42 44 0.36
43 2 0.02
44 2 0.02
45 35 0.29
ACGTcount: A:0.41, C:0.24, G:0.17, T:0.17
Consensus pattern (42 bp):
TGCTAGGCAATAAAGCCCGATATAATACACCAGCATAAAGCC
Found at i:56023380 original size:54 final size:54
Alignment explanation
Indices: 56023290--56023398 Score: 164
Period size: 54 Copynumber: 2.0 Consensus size: 54
56023280 TTGAAAACCT
* * *
56023290 TATTCCAAAAAACACCATTGTTCAAGGAGAAACTACTATTTACGGGGAGACTAC
1 TATTCCAAAAAACACCATTGTTAAAGGAGAAACTACTACTCACGGGGAGACTAC
* * *
56023344 TATTCCAAAAAACACCATTGTTAAAGGGGAAGCTACTACTCAGGGGGAGACTAC
1 TATTCCAAAAAACACCATTGTTAAAGGAGAAACTACTACTCACGGGGAGACTAC
56023398 T
1 T
56023399 GTCAAGAAGG
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.38, C:0.20, G:0.19, T:0.23
Consensus pattern (54 bp):
TATTCCAAAAAACACCATTGTTAAAGGAGAAACTACTACTCACGGGGAGACTAC
Found at i:56027046 original size:20 final size:20
Alignment explanation
Indices: 56027002--56027069 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
56026992 AAAATTACAA
*
56027002 AAAAAATTCAACATAATTTT
1 AAAAAATTCAAAATAATTTT
*
56027022 CAAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
* *
56027042 AAAAATTTCAAAATTTATATTT
1 AAAAAATTCAAAA-TAAT-TTT
56027064 AAAAAA
1 AAAAAA
56027070 ATTATAAAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 4 0.10
20 24 0.62
21 1 0.03
22 8 0.21
23 2 0.05
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:56027063 original size:24 final size:24
Alignment explanation
Indices: 56027034--56027081 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
56027024 AAAATTCAAA
*
56027034 ATATTTATAAAAATT-TCAAAATTT
1 ATATTTAAAAAAATTAT-AAAATTT
56027058 ATATTTAAAAAAATTATAAAATTT
1 ATATTTAAAAAAATTATAAAATTT
56027082 CAAAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
ATATTTAAAAAAATTATAAAATTT
Found at i:56027095 original size:18 final size:17
Alignment explanation
Indices: 56027051--56027096 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 17
56027041 TAAAAATTTC
*
56027051 AAAATTT-ATATTTAAA
1 AAAATTTAAAATTTAAA
56027067 AAAATTATAAAATTTCAAA
1 AAAATT-TAAAATTT-AAA
56027086 AAAATTTAAAA
1 AAAATTTAAAA
56027097 ATATATAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 6 0.23
17 1 0.04
18 10 0.38
19 9 0.35
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATTTAAAATTTAAA
Found at i:56027750 original size:59 final size:59
Alignment explanation
Indices: 56027638--56027769 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 59
56027628 ATTTGGGGCC
* *
56027638 TGAATTTTTTATTAGTCCAAGTTAGGCCTTAAACTTGACAATTATTTCCACATTGAGGCT
1 TGAATTTTTT-TTAATCCAAGTTAGGCCTTAAACTTGACAATTATTTCCACATTAAGGCT
* * * * * *
56027698 TGAACTTTTTTTAATCCAGGTTAGGCGTTGAACTTGACAATT-GTTCTTACATTAAGGCT
1 TGAATTTTTTTTAATCCAAGTTAGGCCTTAAACTTGACAATTATTTC-CACATTAAGGCT
56027757 TGAATTGTTTTTT
1 TGAATT-TTTTTT
56027770 TGTCCAAATT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
58 3 0.05
59 43 0.70
60 15 0.25
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.43
Consensus pattern (59 bp):
TGAATTTTTTTTAATCCAAGTTAGGCCTTAAACTTGACAATTATTTCCACATTAAGGCT
Found at i:56028940 original size:20 final size:19
Alignment explanation
Indices: 56028915--56028980 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
56028905 TACAAAATAA
56028915 TCAAAATAATTTTCAAAAAT
1 TCAAAATAATTTT-AAAAAT
* *
56028935 TGAAAATAATTTTTAAAAT
1 TCAAAATAATTTTAAAAAT
56028954 TCAAAAT-ATTTATAAAAAT
1 TCAAAATAATTT-TAAAAAT
56028973 TCCAAAAT
1 T-CAAAAT
56028981 TTGTATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.10
19 18 0.45
20 18 0.45
ACGTcount: A:0.55, C:0.08, G:0.02, T:0.36
Consensus pattern (19 bp):
TCAAAATAATTTTAAAAAT
Found at i:56034825 original size:39 final size:39
Alignment explanation
Indices: 56034771--56034849 Score: 158
Period size: 39 Copynumber: 2.0 Consensus size: 39
56034761 ATGCAAAGTA
56034771 AATCCATCAATATATAACTTAACCCCAAACATGTCTGTC
1 AATCCATCAATATATAACTTAACCCCAAACATGTCTGTC
56034810 AATCCATCAATATATAACTTAACCCCAAACATGTCTGTC
1 AATCCATCAATATATAACTTAACCCCAAACATGTCTGTC
56034849 A
1 A
56034850 CGAACAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.39, C:0.28, G:0.05, T:0.28
Consensus pattern (39 bp):
AATCCATCAATATATAACTTAACCCCAAACATGTCTGTC
Found at i:56036612 original size:42 final size:42
Alignment explanation
Indices: 56036553--56036632 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
56036543 TTAGTAGGCA
* *
56036553 GTTCCTGGCTACCATCTGCCTCAAAATTCTCAACTTTATCCG
1 GTTCCTGACCACCATCTGCCTCAAAATTCTCAACTTTATCCG
* *
56036595 GTTCCTGACCACCATCTGCCTCAAATTTCTCATCTTTA
1 GTTCCTGACCACCATCTGCCTCAAAATTCTCAACTTTA
56036633 CCTAACTCAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.21, C:0.34, G:0.10, T:0.35
Consensus pattern (42 bp):
GTTCCTGACCACCATCTGCCTCAAAATTCTCAACTTTATCCG
Found at i:56049388 original size:40 final size:40
Alignment explanation
Indices: 56049330--56049408 Score: 122
Period size: 40 Copynumber: 2.0 Consensus size: 40
56049320 CTTGTTATGA
* *
56049330 ACTTTGGGATATTTACCCTGTCTATGATAATTTCATATCC
1 ACTTTGGGATATTCACCCTGTCTATAATAATTTCATATCC
* *
56049370 ACTTTGGGATATTCACCCTGTTTGTAATAATTTCATATC
1 ACTTTGGGATATTCACCCTGTCTATAATAATTTCATATC
56049409 ATTGTAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.25, C:0.19, G:0.13, T:0.43
Consensus pattern (40 bp):
ACTTTGGGATATTCACCCTGTCTATAATAATTTCATATCC
Found at i:56057610 original size:41 final size:40
Alignment explanation
Indices: 56057475--56057619 Score: 157
Period size: 40 Copynumber: 3.6 Consensus size: 40
56057465 CTCGCACAAG
* * ** * * *
56057475 GCCTTCGGGTCTTAACCTGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
*
56057515 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCTCAAAT
1 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
* * * *
56057555 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCAGATATAGTCGC-TAGCACAAAT
56057596 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGACTTAGCCCAGATAT
56057620 CATTCGAGTA
Statistics
Matches: 86, Mismatches: 16, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 55 0.64
41 25 0.29
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
Found at i:56060702 original size:39 final size:40
Alignment explanation
Indices: 56060657--56060824 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
56060647 CGGGGTTTAG
* * *
56060657 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
56060696 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
56060736 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
56060776 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
56060817 CCGGATAT
1 CCGGATAT
56060825 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:56060807 original size:41 final size:40
Alignment explanation
Indices: 56060680--56060824 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
56060670 CTCGCACAAG
* * * * *
56060680 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
56060720 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56060760 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
56060801 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
56060825 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56067046 original size:46 final size:48
Alignment explanation
Indices: 56066995--56067125 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 48
56066985 ATGGTTGAGC
56066995 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T-G
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACTAG
* * * *
56067042 -TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTA-G
56067087 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 -ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
56067126 GCGGGTTCAA
Statistics
Matches: 69, Mismatches: 7, Indels: 13
0.78 0.08 0.15
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
45 3 0.04
46 29 0.42
47 29 0.42
48 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.30
Consensus pattern (48 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACTAG
Found at i:56071086 original size:13 final size:13
Alignment explanation
Indices: 56071068--56071092 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56071058 TGTGAGTGCA
56071068 CATGGCCGTGTCG
1 CATGGCCGTGTCG
56071081 CATGGCCGTGTC
1 CATGGCCGTGTC
56071093 TGTCTTCGTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.32, G:0.36, T:0.24
Consensus pattern (13 bp):
CATGGCCGTGTCG
Found at i:56076626 original size:36 final size:36
Alignment explanation
Indices: 56076586--56076654 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
56076576 TATTCCAACT
*
56076586 GAAACACACCAGATGCTCATAAGAGCTAGTCCAATC
1 GAAACACACCAGATGCTCATAAGAGCCAGTCCAATC
* *
56076622 GAAACACATCAGATGCTCATACGAGCCAGTCCA
1 GAAACACACCAGATGCTCATAAGAGCCAGTCCA
56076655 CCCAAAAACA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.38, C:0.29, G:0.17, T:0.16
Consensus pattern (36 bp):
GAAACACACCAGATGCTCATAAGAGCCAGTCCAATC
Found at i:56078628 original size:30 final size:30
Alignment explanation
Indices: 56078594--56078653 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
56078584 ATCAAAGGTG
56078594 ATAGAACGAAACATATTTCACAAAAATTAT
1 ATAGAACGAAACATATTTCACAAAAATTAT
56078624 ATAGAACGAAACATATTTCACAAAAATTAT
1 ATAGAACGAAACATATTTCACAAAAATTAT
56078654 TCTTCACCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.13, G:0.07, T:0.27
Consensus pattern (30 bp):
ATAGAACGAAACATATTTCACAAAAATTAT
Found at i:56079491 original size:14 final size:14
Alignment explanation
Indices: 56079472--56079504 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
56079462 TTGTTTAACT
*
56079472 GAAAATGGTTTCTA
1 GAAAATGATTTCTA
56079486 GAAAATGATTTCTA
1 GAAAATGATTTCTA
56079500 GAAAA
1 GAAAA
56079505 CGACTTACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:56083146 original size:27 final size:27
Alignment explanation
Indices: 56083098--56083346 Score: 234
Period size: 27 Copynumber: 9.2 Consensus size: 27
56083088 GAGGCAAAAT
* *
56083098 GGTAATTTTACCCAAC-GAGGGTATCT-
1 GGTAATTTTACCCTACAG-GGGTATTTC
*
56083124 GTGTAATTTTACCCTATAGGGGTATTTC
1 G-GTAATTTTACCCTACAGGGGTATTTC
*
56083152 GGT-ATTTCTACCCTACAAGGGTATTTC
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * * *
56083179 GGTAAATCTATCCTACAAGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
56083206 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * *
56083233 GGTAATTCTACCTTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
56083260 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* * * *
56083287 GGTAATTCTACCTTACAGGAGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
* ** * *
56083314 AGTAATCCTACCCTACAAGAGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
56083341 GATAAT
1 GGTAAT
56083347 GCTAGCCTAC
Statistics
Matches: 191, Mismatches: 27, Indels: 9
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.03
27 182 0.95
28 4 0.02
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:56083233 original size:81 final size:81
Alignment explanation
Indices: 56083126--56083341 Score: 272
Period size: 81 Copynumber: 2.7 Consensus size: 81
56083116 GGGTATCTGT
* * *
56083126 GTAATTTTACCCTATAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAAATCTATC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAAATCTA-C
56083191 C-TACAAGGGTATTTCA
65 CTTACAAGGGTATTTCA
* * * * *
56083207 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCTTATAGGGGTATTTCGGTAATTTTACC
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAAATCTACC
* *
56083272 TTACAGGGGTATTTCG
66 TTACAAGGGTATTTCA
* * ** * *
56083288 GTAATTCTACCTTACAGGAGTATTTTAGTAATCCTACCCTACAAGAGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCG
56083342 ATAATGCTAG
Statistics
Matches: 115, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
80 2 0.02
81 113 0.98
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (81 bp):
GTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAAATCTACC
TTACAAGGGTATTTCA
Found at i:56086242 original size:27 final size:27
Alignment explanation
Indices: 56086212--56086426 Score: 261
Period size: 27 Copynumber: 8.0 Consensus size: 27
56086202 TATCCTATGA
* * *
56086212 GGGTATCTCAGTAATTCTACCCTATAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* * * * *
56086239 GGGTATTTTGCT-ATTTTACCCCACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
56086265 GGGTATTTCGGTATTTCTACCCTACAA
1 GGGTATTTCGGTAATTCTACCCTACAG
*
56086292 GGGTATTTCGGTAATTCTATCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
56086319 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
*
56086346 GGGTATTTCGGTAATTCTACCTTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* **
56086373 GAGTATTTTAGTAATTCTACCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
* *
56086400 GGGTATTTCGGTAATGCTAGCCTACAG
1 GGGTATTTCGGTAATTCTACCCTACAG
56086427 ATATGAGATT
Statistics
Matches: 158, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 20 0.13
27 138 0.87
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGGTAATTCTACCCTACAG
Found at i:56087870 original size:46 final size:46
Alignment explanation
Indices: 56087784--56087871 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 46
56087774 CAGGGTCCTT
* *
56087784 CTTATACCATTGGTTCATAACTTGTTATAGAAATTTGGTCAAGTTC
1 CTTATACCATTGGTTCATAACTTGATATAGAAATTGGGTCAAGTTC
* * ** **
56087830 CTTATACCTTTGGTTCGTTTCTTGATATAGTTATTGGGTCAA
1 CTTATACCATTGGTTCATAACTTGATATAGAAATTGGGTCAA
56087872 TGTCTTTTTT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
46 34 1.00
ACGTcount: A:0.24, C:0.15, G:0.17, T:0.44
Consensus pattern (46 bp):
CTTATACCATTGGTTCATAACTTGATATAGAAATTGGGTCAAGTTC
Found at i:56094748 original size:17 final size:17
Alignment explanation
Indices: 56094726--56094765 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
56094716 TTGGGCTAAT
*
56094726 TGGGCCATACGAGCGTA
1 TGGGCCACACGAGCGTA
56094743 TGGGCCACACGAGCGTA
1 TGGGCCACACGAGCGTA
56094760 TGGGCC
1 TGGGCC
56094766 TACTTGGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.20, C:0.28, G:0.38, T:0.15
Consensus pattern (17 bp):
TGGGCCACACGAGCGTA
Found at i:56102068 original size:37 final size:38
Alignment explanation
Indices: 56102013--56102166 Score: 220
Period size: 38 Copynumber: 4.0 Consensus size: 38
56102003 AGCACTCGAT
56102013 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
*
56102051 ATATATCC-GGTTAAGTCCCACAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
* *
56102088 ATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
* * * *
56102126 TTATATCCGAGCTTAAAGTCCCGCAAGCTTTGTGCTGGTA
1 ATATATCCG-GGTT-AAGTCCCGCAGGCTTCGTGCTGGTA
56102166 A
1 A
56102167 CTGGATTCGG
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
37 36 0.35
38 42 0.41
39 3 0.03
40 22 0.21
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
Found at i:56116318 original size:18 final size:17
Alignment explanation
Indices: 56116282--56116322 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
56116272 AAAGAAAGAG
56116282 AAAAGAAAGGAAAAGGA
1 AAAAGAAAGGAAAAGGA
* *
56116299 AAAAGAAGGAGAAAATGA
1 AAAAGAAAG-GAAAAGGA
56116317 AAAAGA
1 AAAAGA
56116323 GAAAAAAAGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (17 bp):
AAAAGAAAGGAAAAGGA
Found at i:56121148 original size:50 final size:49
Alignment explanation
Indices: 56121032--56121218 Score: 189
Period size: 50 Copynumber: 3.8 Consensus size: 49
56121022 TGAGGTCGCA
* * * * *
56121032 TGTGTAGTACTAAGTACAGGCTACTATGCGTACCCAAAAACTGT-GATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CC--AGACTGTAGGTCACG
** *
56121083 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGA-TGGTGAGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACT-GT-AGGTCACG
* * *
56121133 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
* * *
56121182 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCAGA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
56121219 TAGCTTCGGC
Statistics
Matches: 115, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
47 1 0.01
48 4 0.03
49 38 0.33
50 42 0.37
51 30 0.26
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTGTAGGTCACG
Found at i:56129726 original size:31 final size:31
Alignment explanation
Indices: 56129688--56129749 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
56129678 ACGATTTTGG
56129688 AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
1 AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
56129719 AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
1 AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
56129750 TGCATTTTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (31 bp):
AAGAAGTTAAAAGATGCTCTAGGTACTAAAC
Found at i:56131925 original size:43 final size:42
Alignment explanation
Indices: 56131813--56131925 Score: 99
Period size: 43 Copynumber: 2.7 Consensus size: 42
56131803 GAGATTCATG
* *
56131813 TGTAAGACCATGTCTGGGAC-TTCGGCATCGTATCTGATTTCA
1 TGTAAGACCACGTCTGGGACGTT-GGCATCGTATCTGATTACA
* * * *
56131855 TGCAAGACC-CTGTCTAGGAAAG-AGGCATCGATAT-TGAATTACA
1 TGTAAGACCAC-GTCT-GGGACGTTGGCATCG-TATCTG-ATTACA
56131898 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
56131926 TGTACTTTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 13
0.70 0.13 0.17
Matches are distributed among these distances:
42 25 0.46
43 28 0.52
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGTATCTGATTACA
Found at i:56135606 original size:48 final size:48
Alignment explanation
Indices: 56135512--56135745 Score: 344
Period size: 48 Copynumber: 4.9 Consensus size: 48
56135502 TATATATATG
***
56135512 TGTGGTAAAGCCGAATGGCGTGAATAAAAAATATGTATGAGATATGTACA
1 TGTGGTAAAGCCGAATGGC-T-AATGTGAAATATGTATGAGATATGTACA
56135562 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
* *
56135610 TGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
* * *
56135658 TATGGTAAAGCCGAATGG-TAGTGTGAAATATGTATGAGATATGTATA
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
* * *
56135705 TGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTAGGAGAT
1 TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGAT
56135746 GTGTGTATAT
Statistics
Matches: 172, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
47 43 0.25
48 109 0.63
49 1 0.01
50 19 0.11
ACGTcount: A:0.36, C:0.06, G:0.28, T:0.29
Consensus pattern (48 bp):
TGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTACA
Found at i:56135714 original size:95 final size:96
Alignment explanation
Indices: 56135503--56135755 Score: 346
Period size: 95 Copynumber: 2.6 Consensus size: 96
56135493 CAAGATAAAT
* * *** * *
56135503 ATATATATGTGTGGTAAAGCCGAATGGCGTGAATAAAAAATATGTATGAGATATGTACATGTGGT
1 ATATGTATATGTGGTAAAGCCGAATGGC-T-AATGTGAAATATGTATGAGATATGTATATATGGT
56135568 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
64 AAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
56135601 ATATGTACATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATATGTATATATGGTAA
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATGGTAA
*
56135666 AGCCGAATGG-TAGTGTGAAATATGTATGAG
66 AGCCGAATGGCTAATGTGAAATATGTATGAG
* * * * *
56135696 ATATGTATATGTGGTAAAGTCGAATGGCTAGTGTGAAATATGTAGGAGATGTGTGTATAT
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATAT
56135756 TGTGGCCGAA
Statistics
Matches: 138, Mismatches: 17, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
95 72 0.52
96 40 0.29
97 1 0.01
98 25 0.18
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (96 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGTATATATGGTAA
AGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:56135945 original size:37 final size:37
Alignment explanation
Indices: 56135886--56135988 Score: 143
Period size: 37 Copynumber: 2.8 Consensus size: 37
56135876 GGAAATATAT
* * *
56135886 TCCGGGTAAGATCTGATTACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
56135923 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
* *
56135960 TCCGGGAAAGGCCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATAACTACGTGTGG
56135989 GGACTATTCG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.23, C:0.18, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATAACTACGTGTGGAGATTATG
Found at i:56140407 original size:31 final size:31
Alignment explanation
Indices: 56140366--56140426 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
56140356 TTTCATATTT
*
56140366 CATATTTCATAACACTGGGCCGAAGCCTTTC
1 CATATCTCATAACACTGGGCCGAAGCCTTTC
**
56140397 CATATCTCATATTACTGGGCCGAAGCCTTT
1 CATATCTCATAACACTGGGCCGAAGCCTTT
56140427 ACTGTAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (31 bp):
CATATCTCATAACACTGGGCCGAAGCCTTTC
Found at i:56140671 original size:24 final size:24
Alignment explanation
Indices: 56140620--56140742 Score: 176
Period size: 25 Copynumber: 5.0 Consensus size: 24
56140610 GCTTTTTCAT
*
56140620 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
56140645 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
56140669 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
*
56140694 ATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TA
56140719 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56140743 CGCTTCCTCC
Statistics
Matches: 93, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
24 33 0.35
25 60 0.65
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:56140698 original size:49 final size:49
Alignment explanation
Indices: 56140620--56140742 Score: 178
Period size: 49 Copynumber: 2.5 Consensus size: 49
56140610 GCTTTTTCAT
*
56140620 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT-TA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTATA
* *
56140669 ATAACTGGGGCATAAGCCCTTTATCATAACTGGGGCATAAGCCCTTTATC
1 ATAACTGGGGCATAAGCCCTTT-TAATAACTGGGGCATAAGCCCTTTATA
56140719 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
56140743 CGCTTCCTCC
Statistics
Matches: 67, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
48 8 0.12
49 36 0.54
50 23 0.34
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (49 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTATA
Found at i:56140896 original size:25 final size:25
Alignment explanation
Indices: 56140854--56140901 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
56140844 ATATTTAAAC
* * *
56140854 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
56140879 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
56140902 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:56147733 original size:29 final size:29
Alignment explanation
Indices: 56147694--56147772 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
56147684 CTTAATAATC
*
56147694 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56147724 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
56147753 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56147773 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56151759 original size:27 final size:28
Alignment explanation
Indices: 56151675--56151772 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
56151665 TAAATTGTAC
*
56151675 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
56151703 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
56151731 AGCACTAAGTGTGCAAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
*
56151758 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56151773 GACTTAATAT
Statistics
Matches: 66, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
27 23 0.35
28 43 0.65
ACGTcount: A:0.28, C:0.12, G:0.28, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:56151783 original size:27 final size:27
Alignment explanation
Indices: 56151675--56151785 Score: 89
Period size: 28 Copynumber: 4.0 Consensus size: 27
56151665 TAAATTGTAC
** * *
56151675 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGC-AACTTGAATATAT
** *
56151703 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
* *
56151731 AGCACTAAGTGTGCAAGTTGATTATAT
1 AGCACTAAGTGTGCAACTTGAATATAT
* *
56151758 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-AACTTGAATATAT
56151785 A
1 A
56151786 CTTTTGAATC
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
27 31 0.41
28 44 0.59
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCAACTTGAATATAT
Found at i:56154984 original size:7 final size:7
Alignment explanation
Indices: 56154972--56154999 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
56154962 CTGTAGCCCT
56154972 TTTCATA
1 TTTCATA
56154979 TTTCATA
1 TTTCATA
56154986 TTTCATA
1 TTTCATA
56154993 TTTCATA
1 TTTCATA
56155000 ACACTGGGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.14, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTCATA
Done.