Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 162 of 189
Found at i:48593571 original size:44 final size:44
Alignment explanation
Indices: 48593482--48593641 Score: 135
Period size: 44 Copynumber: 3.6 Consensus size: 44
48593472 ACGTTAACCC
* * ** * *
48593482 GCTCCACTACAACCTCAGGGAGATAGGATTAT-CAACTTCAATCT
1 GCTCCACTACAACCTTAGGGAGATAAGATT-TGCTTCCTCAGTCT
48593526 GCTCCACTACAACCTTAGGGAGATAAGATTTGCTTCCTCAGTCT
1 GCTCCACTACAACCTTAGGGAGATAAGATTTGCTTCCTCAGTCT
* *** * * * *
48593570 GCCCCACTGTGA-CTTCAGGGGGATAAGACTTGTTTTCTCAGTCT
1 GCTCCACTACAACCTT-AGGGAGATAAGATTTGCTTCCTCAGTCT
* * *
48593614 GCTCCGCTGCAACTTTAGGGAGATAAGA
1 GCTCCACTACAACCTTAGGGAGATAAGA
48593642 CCCGATGTGA
Statistics
Matches: 93, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
43 4 0.04
44 87 0.94
45 2 0.02
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.28
Consensus pattern (44 bp):
GCTCCACTACAACCTTAGGGAGATAAGATTTGCTTCCTCAGTCT
Found at i:48593642 original size:44 final size:44
Alignment explanation
Indices: 48593523--48593642 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
48593513 TCAACTTCAA
* * *
48593523 TCTGCTCCACTACAACCTTAGGGAGATAAGATTTGCTTCCTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTTCCTCAG
* ** * * * *
48593567 TCTGCCCCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTCAG
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTTCCTCAG
*
48593611 TCTGCTCCGCTGCAACTTTAGGGAGATAAGAC
1 TCTGCTCCACTGCAACTTTAGGGAGATAAGAC
48593643 CCGATGTGAT
Statistics
Matches: 60, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
44 60 1.00
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGCTTCCTCAG
Found at i:48602576 original size:21 final size:21
Alignment explanation
Indices: 48602547--48602601 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
48602537 CATGGTCATA
48602547 TGGCTACTCCACACGT-TCGTG
1 TGGCTACTCCACACGTCT-GTG
*
48602568 TGTCTACTCCACACGTCTGTG
1 TGGCTACTCCACACGTCTGTG
*
48602589 TGGCTATTCCACA
1 TGGCTACTCCACA
48602602 TGCCCATGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 29 0.97
22 1 0.03
ACGTcount: A:0.16, C:0.33, G:0.20, T:0.31
Consensus pattern (21 bp):
TGGCTACTCCACACGTCTGTG
Found at i:48607137 original size:25 final size:25
Alignment explanation
Indices: 48607107--48607165 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
48607097 CCATACAAAG
*
48607107 CTTCGTACAATACCATTTTAATGTT
1 CTTCGTACAATACCATTTTAATGCT
* **
48607132 GTTCGTACAATGTCATTTTAATGCT
1 CTTCGTACAATACCATTTTAATGCT
48607157 CTTCGTACA
1 CTTCGTACA
48607166 GCAACGGAGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.25, C:0.20, G:0.12, T:0.42
Consensus pattern (25 bp):
CTTCGTACAATACCATTTTAATGCT
Found at i:48625116 original size:45 final size:45
Alignment explanation
Indices: 48625007--48625355 Score: 387
Period size: 45 Copynumber: 7.8 Consensus size: 45
48624997 AACAGATCAG
* * * *
48625007 TGAAGATTGCAAATCCTATCTCCCTGAAGTTGTAG-TGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAGAT
* * * *
48625051 TGAAGATAACAAGTCTTATCTCCCTGAAGTTGCAGCGGAGTAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAGAT
* ** *
48625096 TGAAGATAGCAAATCCTATCTCCCTAAAGTTATAGTGGAGT-GCAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAG-AT
* * * * * *
48625141 TGAAGATAGCAAGTCTTATCTCCCTGAATTTGCAGCAGAGCAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAGAT
* * * *
48625186 TGAAGATAGCAAATTCTATCTCCCTGAAGTTACAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAGAT
* * * * *
48625231 TGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTGGAT
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAGAT
* * * *
48625276 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGAC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAGAT
*
48625321 TGAAGATAGCAAATCCTATCTCCCTGAAGTGGCAG
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAG
48625356 TAGAGTGGAT
Statistics
Matches: 253, Mismatches: 49, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
44 31 0.12
45 221 0.87
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
TGAAGATAGCAAATCCTATCTCCCTGAAGTTGCAGCGGAGTAGAT
Found at i:48625168 original size:90 final size:90
Alignment explanation
Indices: 48625007--48625355 Score: 466
Period size: 90 Copynumber: 3.9 Consensus size: 90
48624997 AACAGATCAG
* ** *
48625007 TGAAGATTGCAAATCCTATCTCCCTGAAGTTGTAGT-GAGTGGATTGAAGATAACAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
48625071 TCCCTGAAGTTGCAGCGGAGTAGAC
66 TCCCTGAAGTTGCAGCGGAGTAGAC
* * *
48625096 TGAAGATAGCAAATCCTATCTCCCTAAAGTTATAGTGGAGTGCATTGAAGATAGCAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
* * *
48625161 TCCCTGAATTTGCAGCAGAGCAGAC
66 TCCCTGAAGTTGCAGCGGAGTAGAC
* *
48625186 TGAAGATAGCAAATTCTATCTCCCTGAAGTTACAGTGGAGTGGATTGAAAATAGCAAGTCTTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
* * *
48625251 TCCCTGAAGTTGCAGTGGAGTGGAT
66 TCCCTGAAGTTGCAGCGGAGTAGAC
* * * * ** * * *
48625276 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATC
1 TGAAGATAGCAAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
*
48625341 TCCCTGAAGTGGCAG
66 TCCCTGAAGTTGCAG
48625356 TAGAGTGGAT
Statistics
Matches: 228, Mismatches: 31, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
89 33 0.14
90 195 0.86
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (90 bp):
TGAAGATAGCAAATCCTATCTCCCTGAAGTTACAGTGGAGTGGATTGAAGATAGCAAGTCTTATC
TCCCTGAAGTTGCAGCGGAGTAGAC
Found at i:48625251 original size:135 final size:135
Alignment explanation
Indices: 48625007--48625372 Score: 473
Period size: 135 Copynumber: 2.7 Consensus size: 135
48624997 AACAGATCAG
* * * * * ** * * * *
48625007 TGAAGATTGCAAATCCTATCTCCCTGAAGTTGTAG-TGAGTGGATTGAAGATAACAAGTCTTATC
1 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATCCTATC
* * * * *
48625071 TCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATCCTATCTCCCTAAAGTTATAGTGGAG
66 TCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAATCCTATCTCCCTAAAGTTACAGTGGAG
48625136 TGCAT
131 TGCAT
* *
48625141 TGAAGATAGCAAGTCTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAGCAAATTCTATC
1 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATCCTATC
* * * * *
48625206 TCCCTGAAGTTACAGTGGAGTGGATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
66 TCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAATCCTATCTCCCTAAAGTTACAGTGGAG
*
48625271 TGGAT
131 TGCAT
*
48625276 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATC
1 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATCCTATC
* * *
48625341 TCCCTGAAGTGGCAGTAGAGTGGATTAAAAAT
66 TCCCTGAAGTTGCAGTGGAGTGGATTGAAAAT
48625373 GACGGATCTT
Statistics
Matches: 200, Mismatches: 31, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
134 30 0.15
135 170 0.85
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (135 bp):
TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCAGAGCAGACTGAAGATAGCAAATCCTATC
TCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAATCCTATCTCCCTAAAGTTACAGTGGAG
TGCAT
Found at i:48625383 original size:135 final size:134
Alignment explanation
Indices: 48625007--48625461 Score: 451
Period size: 135 Copynumber: 3.4 Consensus size: 134
48624997 AACAGATCAG
* * * * * ** * * * *
48625007 TGAAGATTGCAAATCCTATCTCCCTGAAGTTGTAG-TGAGTGGATTGAAGATAACAAGTCTTATC
1 TGAAGATAGCAAGTCTTATCTCCCTGAA-TTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATC
** * * * * * * **
48625071 TCCCTGAAGTTG-CAGCGGAGTAGACTGAAGATAGCAAATCCTATCTCCCTAAAGTTATAGTGGA
65 TCCCTGAAG-TGACAGTAGAGTGGATTAAAAATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGA
*
48625135 GTGCAT
129 GTGGAT
* *
48625141 TGAAGATAGCAAGTCTTATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAGCAAATTCTATC
1 TGAAGATAGCAAGTCTTATCTCCCTGAA-TTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATC
* * * *
48625206 TCCCTGAAGTTACAGTGGAGTGGATTGAAAATAGCAAGTCTTATCTCCCTGAAGTTGCAGTGGAG
65 TCCCTGAAGTGACAGTAGAGTGGATTAAAAATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAG
48625271 TGGAT
130 TGGAT
48625276 TGAAGATAGCAAGTCTTATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATC
1 TGAAGATAGCAAGTCTTATCTCCCTGAA-TTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATC
* * * *
48625341 TCCCTGAAGTGGCAGTAGAGTGGATTAAAAAT-G-ACGGATCTTATCTCTCTAAAGTTGCAGTAG
65 TCCCTGAAGTGACAGTAGAGTGGATTAAAAATAGCA-AG-TCTTATCTCCCTAAAGTTGCAGTGG
**
48625404 AGCAGAT
128 AGTGGAT
* * * *
48625411 CG--CAT--CAAGTCTTATCTCCCTG-ATTGCAGTGGAGAAGACTGAAGATAGCAA
1 TGAAGATAGCAAGTCTTATCTCCCTGAATTGCAGCGGAGCAGACTGAAGATAGCAA
48625462 GTTTTATCTC
Statistics
Matches: 276, Mismatches: 41, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
129 26 0.09
130 1 0.00
131 17 0.06
133 3 0.01
134 33 0.12
135 196 0.71
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (134 bp):
TGAAGATAGCAAGTCTTATCTCCCTGAATTGCAGCGGAGCAGACTGAAGATAGCAAATCCTATCT
CCCTGAAGTGACAGTAGAGTGGATTAAAAATAGCAAGTCTTATCTCCCTAAAGTTGCAGTGGAGT
GGAT
Found at i:48625386 original size:45 final size:45
Alignment explanation
Indices: 48625023--48625484 Score: 386
Period size: 45 Copynumber: 10.4 Consensus size: 45
48625013 TTGCAAATCC
* * *
48625023 TATCTCCCTGAAGTTGTAGT-GAGTGGATTGAAGATAACAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
* * * * * *
48625067 TATCTCCCTGAAGTTGCAGCGGAGTAGACTGAAGATAGCAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
* ** * *
48625112 TATCTCCCTAAAGTTATAGTGGAGTGCATTGAAGATAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
* ** ** * * *
48625157 TATCTCCCTGAATTTGCAGCAGAGCAGACTGAAGATAGCAAAT-T
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
*
48625201 CTATCTCCCTGAAGTTACAGTGGAGTGGATTGAAAATAGCAAGTCT
1 -TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
*
48625247 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAGATAGCAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
* ** * * * *
48625292 TATCTCCCTGAAGTTGCAGCGGAGCAGACTGAAGATAGCAAATCC
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
* * * *
48625337 TATCTCCCTGAAGTGGCAGTAGAGTGGATTAAAAAT-G-ACGGATCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCA-AG-TCT
* * * ** * *
48625382 TATCTCTCTAAAGTTGCAGTAGAGCAGATCG--CAT--CAAGTCT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
** * * *
48625423 TATCTCCCTG-A-TTGCAGTGGAGAAGACTGAAGATAGCAAGTTT
1 TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
* *
48625466 TATCTCTCTCAAGTTGCAG
1 TATCTCCCTGAAGTTGCAG
48625485 AGAGCAGATC
Statistics
Matches: 332, Mismatches: 74, Indels: 23
0.77 0.17 0.05
Matches are distributed among these distances:
39 14 0.04
40 1 0.00
41 13 0.04
42 1 0.00
43 18 0.05
44 21 0.06
45 263 0.79
46 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (45 bp):
TATCTCCCTGAAGTTGCAGTGGAGTGGATTGAAAATAGCAAGTCT
Found at i:48626811 original size:22 final size:24
Alignment explanation
Indices: 48626764--48626814 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
48626754 GGTTGCAAGT
48626764 AAAATGGGGTTTCATTTAGGGTTTG
1 AAAATGGGGTTTCATTTA-GGTTTG
*
48626789 AAAA-GGGGTTTTATTT-GGTTTG
1 AAAATGGGGTTTCATTTAGGTTTG
48626811 AAAA
1 AAAA
48626815 ACGACGCCGT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 10 0.40
24 11 0.44
25 4 0.16
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.39
Consensus pattern (24 bp):
AAAATGGGGTTTCATTTAGGTTTG
Found at i:48630687 original size:12 final size:12
Alignment explanation
Indices: 48630672--48630704 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
48630662 TCAGTAGAAA
48630672 TGGCAGTGGTAG
1 TGGCAGTGGTAG
48630684 TGGCA-TCGGTAG
1 TGGCAGT-GGTAG
48630696 TGGCAGTGG
1 TGGCAGTGG
48630705 CTTGCTCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 1 0.05
12 17 0.89
13 1 0.05
ACGTcount: A:0.15, C:0.12, G:0.48, T:0.24
Consensus pattern (12 bp):
TGGCAGTGGTAG
Found at i:48638256 original size:12 final size:12
Alignment explanation
Indices: 48638239--48638269 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
48638229 TCTACCTACC
48638239 TCAACCACCAAA
1 TCAACCACCAAA
48638251 TCAACCACCAAA
1 TCAACCACCAAA
48638263 TCAACCA
1 TCAACCA
48638270 TGAATAGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.48, C:0.42, G:0.00, T:0.10
Consensus pattern (12 bp):
TCAACCACCAAA
Found at i:48643272 original size:98 final size:97
Alignment explanation
Indices: 48643103--48643285 Score: 303
Period size: 98 Copynumber: 1.9 Consensus size: 97
48643093 TTGTGCGAAG
* *
48643103 AAAACTCTTAGTTGTGCCCAAATCTCCCGCAATGAAACAAACCATAGGTAAGGATTCATACTCGA
1 AAAACTCTCAGTTATGCCCAAATCTCCCGCAATGAAACAAACCATAGGTAAGGATTCATACTCGA
48643168 AACATTGAGTTTTCCCATCGATTTGTGTGGAC
66 AACATTGAGTTTTCCCATCGATTTGTGTGGAC
* * *
48643200 AAAACTCTCGGTTATGCCCAAATCTTCCGCAATCGAAGCAAACCATAGGTAAGGATTCATACTCG
1 AAAACTCTCAGTTATGCCCAAATCTCCCGCAAT-GAAACAAACCATAGGTAAGGATTCATACTCG
*
48643265 ACACATTGAGTTTTCCCATCG
65 AAACATTGAGTTTTCCCATCG
48643286 TTTTTAACTT
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
97 29 0.37
98 50 0.63
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.27
Consensus pattern (97 bp):
AAAACTCTCAGTTATGCCCAAATCTCCCGCAATGAAACAAACCATAGGTAAGGATTCATACTCGA
AACATTGAGTTTTCCCATCGATTTGTGTGGAC
Found at i:48644526 original size:16 final size:16
Alignment explanation
Indices: 48644507--48644540 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48644497 TTTATTTTGC
* *
48644507 TTTGGCTGCATGGCAT
1 TTTGACTGCATGACAT
48644523 TTTGACTGCATGACAT
1 TTTGACTGCATGACAT
48644539 TT
1 TT
48644541 CATTATAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.18, G:0.24, T:0.41
Consensus pattern (16 bp):
TTTGACTGCATGACAT
Found at i:48645008 original size:19 final size:19
Alignment explanation
Indices: 48644984--48645028 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
48644974 AACGTCTCTT
*
48644984 TTTGCATT-CATTTCATGCA
1 TTTGCATTACATTACAT-CA
48645003 TTTGCATTACATTACATCA
1 TTTGCATTACATTACATCA
*
48645022 TATGCAT
1 TTTGCAT
48645029 CAAAGACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (19 bp):
TTTGCATTACATTACATCA
Found at i:48649286 original size:135 final size:135
Alignment explanation
Indices: 48649056--48649857 Score: 1058
Period size: 135 Copynumber: 6.0 Consensus size: 135
48649046 GGAGCAGGTT
* * * *
48649056 GAAGATACCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATCGAAGATAACAGATCTTGTCT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
* * *
48649121 TCTTGTATTGGCAACGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
66 TCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
48649186 AGATC
131 AGATC
*
48649191 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAATATAGCAGATCTTGTCT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
* * * *
48649256 TCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGT
66 TCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
48649321 AGATC
131 AGATC
* * * *
48649326 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATTTAAA-ATAGCAGATCTGGTC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGA-TCAAAGATAGCAGATCTTGTC
* * * ** *
48649390 TTCCTATATTGGTAGTGAAGTAGATCGAAGATAATAGATCTTGTCTTCTTATATTGGTAGTGAAG
65 TTCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAG
48649455 TAGATC
130 TAGATC
* * * * * *
48649461 GAAGATAACAGATCTTGTCTTCTTATAATGGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
*
48649526 TCCTATATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
66 TCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
48649591 AGATC
131 AGATC
* *
48649596 GAAGATAACAGATCTTGTCTTCCTGTATT---AGC-----AG--C---GA-AACAGATCTTGTCT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
* * * * * *
48649647 TCCTATATTGGTAGCGAAATAGATCGAAGATAGCAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
66 TCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
48649712 AGATC
131 AGATC
* * * * *
48649717 AAAGATAACAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGATCAAGGATAGCAGATCTTATCT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
* * * ** *
48649782 TCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCTATATTGGCAACGAAGA
66 TCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
48649847 AGATC
131 AGATC
48649852 GAAGAT
1 GAAGAT
48649858 TGCATCCAGT
Statistics
Matches: 595, Mismatches: 56, Indels: 32
0.87 0.08 0.05
Matches are distributed among these distances:
121 107 0.18
122 2 0.00
124 3 0.01
125 1 0.00
127 2 0.00
129 2 0.00
131 1 0.00
132 2 0.00
134 5 0.01
135 466 0.78
136 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (135 bp):
GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCT
TCCTATATTGGCAGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGT
AGATC
Found at i:48649640 original size:31 final size:31
Alignment explanation
Indices: 48649602--48649671 Score: 104
Period size: 31 Copynumber: 2.3 Consensus size: 31
48649592 GATCGAAGAT
*
48649602 AACAGATCTTGTCTTCCTGTATTAGCAGCGA
1 AACAGATCTTGTCTTCCTATATTAGCAGCGA
* *
48649633 AACAGATCTTGTCTTCCTATATTGGTAGCGA
1 AACAGATCTTGTCTTCCTATATTAGCAGCGA
*
48649664 AATAGATC
1 AACAGATC
48649672 GAAGATAGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (31 bp):
AACAGATCTTGTCTTCCTATATTAGCAGCGA
Found at i:48649640 original size:45 final size:45
Alignment explanation
Indices: 48649056--48649624 Score: 841
Period size: 45 Copynumber: 12.6 Consensus size: 45
48649046 GGAGCAGGTT
* *
48649056 GAAGATACCAGATCTTGTCTTCCTATATTGGTAGCGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* * * **
48649101 GAAGATAACAGATCTTGTCTTCTTGTATTGGCAACGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* *
48649146 AAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* *
48649191 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* * *
48649236 AAATATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
48649281 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* * ** *
48649326 GAAGATAACAGATCTTGTCTTCCTGTATTGGCAACGAAGTAGATT
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* * * *
48649371 TAAAATAGCAGATCTGGTCTTCCTATATTGGTAGTGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* *
48649416 GAAGATAATAGATCTTGTCTTCTTATATTGGTAGTGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* *
48649461 GAAGATAACAGATCTTGTCTTCTTATAATGGTAGTGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* * *
48649506 GAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAATAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
* *
48649551 AAAGATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
1 GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
*
48649596 GAAGATAACAGATCTTGTCTTCCTGTATT
1 GAAGATAACAGATCTTGTCTTCCTATATT
48649625 AGCAGCGAAA
Statistics
Matches: 465, Mismatches: 59, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 465 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (45 bp):
GAAGATAACAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATC
Found at i:48649669 original size:121 final size:126
Alignment explanation
Indices: 48649508--48649857 Score: 467
Period size: 121 Copynumber: 2.7 Consensus size: 126
48649498 AGTAGATCGA
48649508 AGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTC
1 AGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTC
* *
48649573 CTATATTGGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATT-AGC-AG-C
66 CTATATTGGCAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTAAGCAAGAC
* *
48649631 -GA-AACAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAGCAGATCTTGTCTTC
1 AGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTC
* *
48649694 CTGTATTGGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTGTATTGACAGCGAAGTAG
66 CTATATTGGCAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATT-A-AGC--A--AG
48649759 ATC
125 A-C
* * * * *
48649762 AAGGATAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATCTTGTCT
1 -A-GATAACAGATCTTGTCTTCCTATATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCT
* *
48649827 TCCTATATTGGCAACGAAGAAGATCGAAGAT
64 TCCTATATTGGCAGCGAAGTAGATCGAAGAT
48649858 TGCATCCAGT
Statistics
Matches: 196, Mismatches: 17, Indels: 16
0.86 0.07 0.07
Matches are distributed among these distances:
121 107 0.55
122 2 0.01
124 3 0.02
129 2 0.01
131 1 0.01
134 2 0.01
135 79 0.40
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (126 bp):
AGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAATAGATCAAAGATAGCAGATCTTGTCTTC
CTATATTGGCAGCGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTATTAAGCAAGAC
Found at i:48649701 original size:45 final size:45
Alignment explanation
Indices: 48649635--48649857 Score: 329
Period size: 45 Copynumber: 5.0 Consensus size: 45
48649625 AGCAGCGAAA
* * * *
48649635 CAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
*
48649680 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAA
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* *
48649725 CAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGATCAAGGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
*
48649770 CAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
* * * * *
48649815 CAAATCTTGTCTTCCTATATTGGCAACGAAGAAGATCGAAGAT
1 CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGAT
48649858 TGCATCCAGT
Statistics
Matches: 161, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 161 1.00
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.29
Consensus pattern (45 bp):
CAGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAG
Found at i:48649716 original size:76 final size:76
Alignment explanation
Indices: 48649559--48649709 Score: 266
Period size: 76 Copynumber: 2.0 Consensus size: 76
48649549 TCAAAGATAG
* *
48649559 CAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTGTAT
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAACAGATCTTGTCTTCCTGTAT
48649624 TAGCAGCGAAA
66 TAGCAGCGAAA
*
48649635 CAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAGCAGATCTTGTCTTCCTGTAT
1 CAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAACAGATCTTGTCTTCCTGTAT
*
48649700 TGGCAGCGAA
66 TAGCAGCGAA
48649710 GTAGATCAAA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (76 bp):
CAGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAACAGATCTTGTCTTCCTGTAT
TAGCAGCGAAA
Found at i:48649803 original size:211 final size:211
Alignment explanation
Indices: 48649425--48649844 Score: 624
Period size: 211 Copynumber: 2.0 Consensus size: 211
48649415 CGAAGATAAT
* * * *
48649425 AGATCTTGTCTTCTTATATTGGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCTTATAAT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAACAGATCTTGTCTTCCTATAAT
* * * *
48649490 GGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCTATATTGGCAGCGAAATAGATCAAAG
66 GGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGACAGCGAAATAGATCAAAG
* * * * *
48649555 ATAGCAGATCTTGTCTTCCTATATTGGTAGTGAAGTAGATCGAAGATAACAGATCTTGTCTTCCT
131 ATAGCAGATCTTATCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAACAAATCTTGTCTTCCT
* *
48649620 GTATTAGCAGCGAAAC
196 ATATTAGCAACGAAAC
* * *
48649636 AGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAGCAGATCTTGTCTTCCTGTATT
1 AGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAACAGATCTTGTCTTCCTATAAT
* * *
48649701 GGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTGTATTGACAGCGAAGTAGATCAAGG
66 GGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGACAGCGAAATAGATCAAAG
* *
48649766 ATAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCT
131 ATAGCAGATCTTATCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAACAAATCTTGTCTTCCT
*
48649831 ATATTGGCAACGAA
196 ATATTAGCAACGAA
48649845 GAAGATCGAA
Statistics
Matches: 185, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
211 185 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (211 bp):
AGATCTTGTCTTCCTATATTGGTAGCGAAATAGATCGAAGATAACAGATCTTGTCTTCCTATAAT
GGCAGCGAAGTAGATCAAAGATAACAGATCTTGTCTTCCTATATTGACAGCGAAATAGATCAAAG
ATAGCAGATCTTATCTTCCTATATTGGCAGCGAAGTAGATCAAAGATAACAAATCTTGTCTTCCT
ATATTAGCAACGAAAC
Found at i:48650025 original size:44 final size:44
Alignment explanation
Indices: 48649960--48650076 Score: 128
Period size: 44 Copynumber: 2.7 Consensus size: 44
48649950 CGGCAAATAT
* * *
48649960 TATCTCCCTGAAGTTGTAGTGGAGTAGATTAAAGCCAATA-ATCC
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAA-CCAATAGATCC
* * ** *
48650004 TATCTCTCTGAAGTTACAGTGGAGCGGATTAAACTGATAGATCT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAACCAATAGATCC
* *
48650048 TATCTCTCTGAAGTTGCAGTAGAACAGAT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGAT
48650077 CGAAGATAGC
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 4 0.07
44 56 0.93
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGATTAAACCAATAGATCC
Found at i:48651527 original size:5 final size:5
Alignment explanation
Indices: 48651508--48651542 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
48651498 TACATGTACA
48651508 TATTT TATTT ATATTT TATTT TATTAT TATTT TAT
1 TATTT TATTT -TATTT TATTT TATT-T TATTT TAT
48651543 CTTCACAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 18 0.64
6 10 0.36
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (5 bp):
TATTT
Found at i:48651529 original size:16 final size:16
Alignment explanation
Indices: 48651508--48651542 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
48651498 TACATGTACA
48651508 TATTTTATT-TATATTT
1 TATTTTATTAT-TATTT
48651524 TATTTTATTATTATTT
1 TATTTTATTATTATTT
48651540 TAT
1 TAT
48651543 CTTCACAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTATTATTATTT
Found at i:48651540 original size:11 final size:10
Alignment explanation
Indices: 48651508--48651542 Score: 52
Period size: 11 Copynumber: 3.3 Consensus size: 10
48651498 TACATGTACA
48651508 TATTTTATTT
1 TATTTTATTT
48651518 ATATTTTATTT
1 -TATTTTATTT
48651529 TATTATTATTT
1 TATT-TTATTT
48651540 TAT
1 TAT
48651543 CTTCACAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TATTTTATTT
Found at i:48660182 original size:13 final size:13
Alignment explanation
Indices: 48660164--48660225 Score: 79
Period size: 13 Copynumber: 4.8 Consensus size: 13
48660154 TTCTTCATTG
48660164 CTTTTGAAAAGTA
1 CTTTTGAAAAGTA
*
48660177 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
* *
48660190 CTGTGGAAAAGTA
1 CTTTTGAAAAGTA
* *
48660203 CTTTTGAGAAGTG
1 CTTTTGAAAAGTA
48660216 CTTTTGAAAA
1 CTTTTGAAAA
48660226 TTTTGAGTGT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.34, C:0.08, G:0.23, T:0.35
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:48660224 original size:26 final size:26
Alignment explanation
Indices: 48660162--48660225 Score: 101
Period size: 26 Copynumber: 2.5 Consensus size: 26
48660152 AATTCTTCAT
48660162 TGCTTTTGAAAAGTACTTTTGAAAAG
1 TGCTTTTGAAAAGTACTTTTGAAAAG
* * *
48660188 TGCTGTGGAAAAGTACTTTTGAGAAG
1 TGCTTTTGAAAAGTACTTTTGAAAAG
48660214 TGCTTTTGAAAA
1 TGCTTTTGAAAA
48660226 TTTTGAGTGT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.36
Consensus pattern (26 bp):
TGCTTTTGAAAAGTACTTTTGAAAAG
Found at i:48662372 original size:72 final size:73
Alignment explanation
Indices: 48662282--48662456 Score: 248
Period size: 72 Copynumber: 2.4 Consensus size: 73
48662272 AAAATCACAT
* *
48662282 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATATCTAAA
1 ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCCAAA
*
48662346 GACCAAAC
66 AACCAAAC
* * *
48662354 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAATATAAATTCAATATCCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCCAA
48662417 AAACCAAAC
65 AAACCAAAC
* *
48662426 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
48662457 TTGTTGTTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
71 1 0.01
72 85 0.96
73 3 0.03
ACGTcount: A:0.54, C:0.13, G:0.06, T:0.27
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCACAAAAATAAGTAGAATATAAATTCAATATCCAAA
AACCAAAC
Found at i:48662900 original size:18 final size:18
Alignment explanation
Indices: 48662879--48662944 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
48662869 TCCATCAATT
48662879 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
48662897 TGAACATCATTTGAAATG
1 TGAACATCATTTGAAATG
*
48662915 TGAACATCATTTAAAATG
1 TGAACATCATTTGAAATG
48662933 TGAACATCATTT
1 TGAACATCATTT
48662945 CTCATATTTT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTGAAATG
Found at i:48663849 original size:15 final size:15
Alignment explanation
Indices: 48663829--48663881 Score: 74
Period size: 15 Copynumber: 3.6 Consensus size: 15
48663819 GGCACAAGTT
48663829 TGTAATTAATATTTA
1 TGTAATTAATATTTA
*
48663844 TGTAATT-ATAAGTT-
1 TGTAATTAAT-ATTTA
48663858 TGTAATTAATATTTA
1 TGTAATTAATATTTA
48663873 TGTAATTAA
1 TGTAATTAA
48663882 AAATAGTTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
14 12 0.36
15 21 0.64
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (15 bp):
TGTAATTAATATTTA
Found at i:48663858 original size:29 final size:30
Alignment explanation
Indices: 48663824--48663898 Score: 116
Period size: 29 Copynumber: 2.5 Consensus size: 30
48663814 TTATAGGCAC
*
48663824 AAGTTTGTAATTAATATTTATGTAATT-AT
1 AAGTTTGTAATTAATATTTATGTAATTAAA
48663853 AAGTTTGTAATTAATATTTATGTAATTAAAA
1 AAGTTTGTAATTAATATTTATGTAATT-AAA
48663884 ATAGTTTGTAATTAA
1 A-AGTTTGTAATTAA
48663899 GATGATTATT
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
29 27 0.64
31 2 0.05
32 13 0.31
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (30 bp):
AAGTTTGTAATTAATATTTATGTAATTAAA
Found at i:48663863 original size:14 final size:13
Alignment explanation
Indices: 48663824--48663882 Score: 55
Period size: 15 Copynumber: 4.2 Consensus size: 13
48663814 TTATAGGCAC
48663824 AAGTTTGTAATTA
1 AAGTTTGTAATTA
*
48663837 ATATTTATGTAATTA
1 A-AGTT-TGTAATTA
48663852 TAAGTTTGTAATTA
1 -AAGTTTGTAATTA
*
48663866 ATATTTATGTAATTA
1 A-AGTT-TGTAATTA
48663881 AA
1 AA
48663883 AATAGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.05
14 15 0.39
15 20 0.53
16 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (13 bp):
AAGTTTGTAATTA
Found at i:48664994 original size:14 final size:15
Alignment explanation
Indices: 48664959--48665000 Score: 68
Period size: 16 Copynumber: 2.8 Consensus size: 15
48664949 TATAATATCT
48664959 TTTGTTTCTTAAATA
1 TTTGTTTCTTAAATA
48664974 TTGTGTTTCTTAAATA
1 TT-TGTTTCTTAAATA
48664990 -TTGTTTCTTAA
1 TTTGTTTCTTAA
48665001 TCTGCAGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.38
15 3 0.12
16 13 0.50
ACGTcount: A:0.24, C:0.07, G:0.10, T:0.60
Consensus pattern (15 bp):
TTTGTTTCTTAAATA
Found at i:48667031 original size:19 final size:19
Alignment explanation
Indices: 48667007--48667045 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
48666997 GTGGTGGAGA
* *
48667007 AGAGGAACAAAGCACCAGC
1 AGAGGAAAAAAGAACCAGC
48667026 AGAGGAAAAAAGAACCAGC
1 AGAGGAAAAAAGAACCAGC
48667045 A
1 A
48667046 CCAGCAGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.21, G:0.26, T:0.00
Consensus pattern (19 bp):
AGAGGAAAAAAGAACCAGC
Found at i:48667045 original size:25 final size:25
Alignment explanation
Indices: 48667017--48667067 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
48667007 AGAGGAACAA
48667017 AGCACCAGCAGAGGAAAAAAGAACC
1 AGCACCAGCAGAGGAAAAAAGAACC
*
48667042 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAAAAAAGAACC
48667067 A
1 A
48667068 ATGTAACACC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.25, G:0.24, T:0.00
Consensus pattern (25 bp):
AGCACCAGCAGAGGAAAAAAGAACC
Found at i:48667716 original size:45 final size:46
Alignment explanation
Indices: 48667643--48667849 Score: 350
Period size: 46 Copynumber: 4.6 Consensus size: 46
48667633 TGCGTATGAT
* *
48667643 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
48667686 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
* *
48667732 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACT-AGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
48667777 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
48667823 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
48667850 AGTACTCAAA
Statistics
Matches: 154, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
43 10 0.06
44 5 0.03
45 63 0.41
46 76 0.49
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:48667796 original size:91 final size:91
Alignment explanation
Indices: 48667643--48667849 Score: 382
Period size: 91 Copynumber: 2.3 Consensus size: 91
48667633 TGCGTATGAT
* *
48667643 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
48667706 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
48667732 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
48667797 GATCAGATAAGTGTAGCTAAAGCTAC
66 GATCAGATAAGTGTAGCTAAAGCTAC
48667823 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
48667850 AGTACTCAAA
Statistics
Matches: 114, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
89 10 0.09
90 5 0.04
91 99 0.87
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (91 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAACTAGGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGTGTAGCTAAAGCTAC
Found at i:48673102 original size:10 final size:10
Alignment explanation
Indices: 48673075--48673134 Score: 50
Period size: 10 Copynumber: 5.8 Consensus size: 10
48673065 TTTTTAAATC
*
48673075 TTAAAAATAA
1 TTAAAAATTA
* *
48673085 ATATAAATTA
1 TTAAAAATTA
48673095 TTAAAAA-TA
1 TTAAAAATTA
48673104 TTAAAAATTA
1 TTAAAAATTA
*
48673114 TGTTAAAATATTT
1 --TTAAAA-ATTA
48673127 TTAAAAAT
1 TTAAAAAT
48673135 AAACATTATA
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 9 0.22
10 16 0.40
11 6 0.15
12 6 0.15
13 3 0.08
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
TTAAAAATTA
Found at i:48673216 original size:34 final size:33
Alignment explanation
Indices: 48673148--48673217 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 33
48673138 CATTATAAAT
* *
48673148 AAAAATTTATAAAAGTTCAAAATATATATGTAA
1 AAAAATTTATAAAAGTTCAAAAAAAATATGTAA
* *
48673181 AAAAATCTTA-AAAAGTTACAAAAAAAATCTTTAA
1 AAAAAT-TTATAAAAGTT-CAAAAAAAATATGTAA
48673215 AAA
1 AAA
48673218 TTTTATCAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (33 bp):
AAAAATTTATAAAAGTTCAAAAAAAATATGTAA
Found at i:48673596 original size:25 final size:25
Alignment explanation
Indices: 48673565--48673627 Score: 117
Period size: 25 Copynumber: 2.5 Consensus size: 25
48673555 TAATATATAT
*
48673565 AAAATATAAATTTGATTAAAAATAA
1 AAAATATATATTTGATTAAAAATAA
48673590 AAAATATATATTTGATTAAAAATAA
1 AAAATATATATTTGATTAAAAATAA
48673615 AAAATATATATTT
1 AAAATATATATTT
48673628 AATATATAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (25 bp):
AAAATATATATTTGATTAAAAATAA
Found at i:48675311 original size:11 final size:11
Alignment explanation
Indices: 48675285--48675335 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
48675275 AATTTTTTGA
*
48675285 ATTTTTAACAT
1 ATTTTTAATAT
48675296 AATTTTTAATAT
1 -ATTTTTAATAT
48675308 ATTTTTAATA-
1 ATTTTTAATAT
*
48675318 ATTTAT-ATAT
1 ATTTTTAATAT
48675328 -TTTTTAAT
1 ATTTTTAAT
48675336 TTTTTTAGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.21
10 7 0.21
11 10 0.29
12 10 0.29
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (11 bp):
ATTTTTAATAT
Found at i:48675335 original size:16 final size:17
Alignment explanation
Indices: 48675304--48675337 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
48675294 ATAATTTTTA
48675304 ATATATTTTTAATAATTT
1 ATATATTTTT-ATAATTT
48675322 ATATATTTTT-TAATTT
1 ATATATTTTTATAATTT
48675338 TTTTAGAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
18 10 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
ATATATTTTTATAATTT
Found at i:48675805 original size:49 final size:49
Alignment explanation
Indices: 48675733--48675831 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
48675723 TAAGGGTGGG
*
48675733 TTTGGAAGGCGATTGGGTGCAGTGCAGTGCATTTAGCTTATTTTTTGTC
1 TTTGGAAGGCGATTGGGTGCAGTGCAGAGCATTTAGCTTATTTTTTGTC
*
48675782 TTTGGAAGGCGATTGGGTGCAGTGCGGAGCATTTAGCTTATTTTTTGTC
1 TTTGGAAGGCGATTGGGTGCAGTGCAGAGCATTTAGCTTATTTTTTGTC
48675831 T
1 T
48675832 CACGCTACAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.16, C:0.12, G:0.31, T:0.40
Consensus pattern (49 bp):
TTTGGAAGGCGATTGGGTGCAGTGCAGAGCATTTAGCTTATTTTTTGTC
Found at i:48677563 original size:18 final size:18
Alignment explanation
Indices: 48677535--48677593 Score: 66
Period size: 18 Copynumber: 3.3 Consensus size: 18
48677525 ATTTGTATAA
*
48677535 TATATATTTTTATAAATT
1 TATATAATTTTATAAATT
* *
48677553 TATA-AGCTTTTATATATT
1 TATATA-ATTTTATAAATT
*
48677571 TATATAATTTTATAATTT
1 TATATAATTTTATAAATT
48677589 TATAT
1 TATAT
48677594 TTTATATGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
17 1 0.03
18 32 0.94
19 1 0.03
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATATAATTTTATAAATT
Found at i:48677566 original size:43 final size:43
Alignment explanation
Indices: 48677519--48677606 Score: 106
Period size: 43 Copynumber: 2.0 Consensus size: 43
48677509 ATAATATAAG
* *
48677519 TTATAAATTTGTATAA-TATATATTTTTATAAATTTATAAGCTT
1 TTATAAATTTATATAATTATATAATTTTAT-AATTTATAAGCTT
* * * *
48677562 TTATATATTTATATAATTTTATAATTTTATATTTTATATGCTT
1 TTATAAATTTATATAATTATATAATTTTATAATTTATAAGCTT
48677605 TT
1 TT
48677607 CAAAATAATA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 27 0.71
44 11 0.29
ACGTcount: A:0.35, C:0.02, G:0.03, T:0.59
Consensus pattern (43 bp):
TTATAAATTTATATAATTATATAATTTTATAATTTATAAGCTT
Found at i:48677576 original size:28 final size:26
Alignment explanation
Indices: 48677535--48677600 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 26
48677525 ATTTGTATAA
*
48677535 TATATATTTTTATAAATTTATAAGCTTT
1 TATATATTTATATAAATTTATAA--TTT
*
48677563 TATATATTTATATAATTTTATAATTT
1 TATATATTTATATAAATTTATAATTT
48677589 TATAT-TTTATAT
1 TATATATTTATAT
48677601 GCTTTTCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 7 0.19
26 8 0.22
28 21 0.58
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TATATATTTATATAAATTTATAATTT
Found at i:48684318 original size:21 final size:21
Alignment explanation
Indices: 48684292--48684345 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
48684282 CAACGGTGGT
*
48684292 GGTGAGATTAGTTACTGTAGC
1 GGTGAGATTAGATACTGTAGC
*
48684313 GGTGAGATTGGATACTGTAGC
1 GGTGAGATTAGATACTGTAGC
48684334 GGTGAGATTAGA
1 GGTGAGATTAGA
48684346 AACAATAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.26, C:0.07, G:0.37, T:0.30
Consensus pattern (21 bp):
GGTGAGATTAGATACTGTAGC
Found at i:48689655 original size:15 final size:16
Alignment explanation
Indices: 48689635--48689669 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
48689625 TTCTTATTAA
48689635 AAATTAGAAAAA-AAT
1 AAATTAGAAAAATAAT
*
48689650 AAATTATAAAAATAAT
1 AAATTAGAAAAATAAT
48689666 AAAT
1 AAAT
48689670 AATAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAATTAGAAAAATAAT
Found at i:48689666 original size:16 final size:15
Alignment explanation
Indices: 48689635--48689676 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
48689625 TTCTTATTAA
*
48689635 AAATTAGAAAAAAAT
1 AAATTATAAAAAAAT
48689650 AAATTATAAAAATAAT
1 AAATTATAAAAA-AAT
*
48689666 AAATAATAAAA
1 AAATTATAAAA
48689677 TTTAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 11 0.46
16 13 0.54
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (15 bp):
AAATTATAAAAAAAT
Found at i:48689750 original size:44 final size:43
Alignment explanation
Indices: 48689653--48689750 Score: 101
Period size: 45 Copynumber: 2.2 Consensus size: 43
48689643 AAAAAATAAA
* *
48689653 TTATAAAAATAATAAATAATAAAATTTAGAAAAATTATTAAATTT
1 TTATAAAAATAAAAAATAATAAAATTTACAAAAATTATT--ATTT
* *
48689698 TAATAAAAATATAAAAAT-ATAAAATTTATCAACAATTAATT-TTT
1 TTATAAAAATA-AAAAATAATAAAATTTA-CAAAAATT-ATTATTT
48689742 TTATAAAAA
1 TTATAAAAA
48689751 GCGTAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
44 11 0.24
45 20 0.44
46 11 0.24
47 3 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (43 bp):
TTATAAAAATAAAAAATAATAAAATTTACAAAAATTATTATTT
Found at i:48689763 original size:19 final size:19
Alignment explanation
Indices: 48689741--48689787 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
48689731 AATTAATTTT
48689741 TTTATAAAAAGCGTAAAAA
1 TTTATAAAAAGCGTAAAAA
* ** *
48689760 TTTAAAAAAATTGTAAAAT
1 TTTATAAAAAGCGTAAAAA
48689779 TTTATAAAA
1 TTTATAAAA
48689788 TTTATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.06, T:0.34
Consensus pattern (19 bp):
TTTATAAAAAGCGTAAAAA
Found at i:48689795 original size:19 final size:19
Alignment explanation
Indices: 48689754--48689802 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
48689744 ATAAAAAGCG
*
48689754 TAAAAATTTAAAAAAATTG
1 TAAAAATTTAAAAAAATTA
* * *
48689773 TAAAATTTTATAAAATTTA
1 TAAAAATTTAAAAAAATTA
*
48689792 TAAAAAATTAA
1 TAAAAATTTAA
48689803 CGACCTCTAG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAATTTAAAAAAATTA
Found at i:48696884 original size:14 final size:15
Alignment explanation
Indices: 48696865--48696905 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
48696855 AAACATCTTA
48696865 AATTAATTTT-AATT
1 AATTAATTTTCAATT
48696879 AATTAATTTTTCAATT
1 AATTAA-TTTTCAATT
*
48696895 AAATAATTTTC
1 AATTAATTTTC
48696906 TCAACTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 9 0.38
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
AATTAATTTTCAATT
Found at i:48698809 original size:22 final size:20
Alignment explanation
Indices: 48698762--48698816 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 20
48698752 GTAGGGGTCA
*
48698762 ACACGCCCATGTGGAGGGAC
1 ACACGCCCGTGTGGAGGGAC
*
48698782 ACACGCCCGTGTGGAAGGAGGC
1 ACACGCCCGTGTGG-AGG-GAC
*
48698804 ACACGCTCGTGTG
1 ACACGCCCGTGTG
48698817 ACCTAGGGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
20 13 0.43
21 3 0.10
22 14 0.47
ACGTcount: A:0.22, C:0.29, G:0.36, T:0.13
Consensus pattern (20 bp):
ACACGCCCGTGTGGAGGGAC
Found at i:48705968 original size:28 final size:28
Alignment explanation
Indices: 48705919--48705973 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
48705909 TGAGCAGCCT
**
48705919 AAATATCACAACTTGTGCGAGAAAATTC
1 AAATATCACAACTCATGCGAGAAAATTC
* *
48705947 AAATATCACAGCTCATGTGAGAAAATT
1 AAATATCACAACTCATGCGAGAAAATT
48705974 GAATTATTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (28 bp):
AAATATCACAACTCATGCGAGAAAATTC
Found at i:48709097 original size:6 final size:6
Alignment explanation
Indices: 48709082--48709115 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
48709072 CTTAAGATTT
*
48709082 ACAACC ACAACT ACAACC ACAACC ACAACC ACAA
1 ACAACC ACAACC ACAACC ACAACC ACAACC ACAA
48709116 ATGCCTTGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.53, C:0.44, G:0.00, T:0.03
Consensus pattern (6 bp):
ACAACC
Found at i:48720631 original size:16 final size:17
Alignment explanation
Indices: 48720600--48720634 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48720590 ATTAATCAAA
48720600 CTAACTAAATTAATTTT
1 CTAACTAAATTAATTTT
*
48720617 CTAATTAAA-TAATTTT
1 CTAACTAAATTAATTTT
48720633 CT
1 CT
48720635 CAATCCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (17 bp):
CTAACTAAATTAATTTT
Found at i:48723996 original size:39 final size:40
Alignment explanation
Indices: 48723922--48723997 Score: 102
Period size: 39 Copynumber: 1.9 Consensus size: 40
48723912 TATCTGCATT
* *
48723922 CTGTATCTGATATGGGCCAAGGCCCTAATGTATTCTGAGA
1 CTGTATCAGATATGGGCCAAGGCCCAAATGTATTCTGAGA
*
48723962 CTGTATCAGA-ATGGGCTAAGGCCCAAACTG-ATTCTG
1 CTGTATCAGATATGGGCCAAGGCCCAAA-TGTATTCTG
48723998 TGATGGGCAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
39 21 0.66
40 11 0.34
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (40 bp):
CTGTATCAGATATGGGCCAAGGCCCAAATGTATTCTGAGA
Found at i:48731013 original size:44 final size:44
Alignment explanation
Indices: 48730960--48731053 Score: 172
Period size: 44 Copynumber: 2.2 Consensus size: 44
48730950 TTAATAGGTC
*
48730960 AAAC-AATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGGG
1 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGAG
48731003 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGAG
1 AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGAG
48731047 AAACTAA
1 AAACTAA
48731054 AAACATAGTT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
43 4 0.08
44 45 0.92
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.28
Consensus pattern (44 bp):
AAACTAATATTAAAATAACCTAAACTAATTAGAGTTTAAGTGAG
Found at i:48734939 original size:20 final size:21
Alignment explanation
Indices: 48734914--48734953 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
48734904 ACATGCTCAA
*
48734914 TATCAAA-ATCAGGTCATACT
1 TATCAAATATCAGGACATACT
48734934 TATCAAATATCAGGACATAC
1 TATCAAATATCAGGACATAC
48734954 ATAACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.42, C:0.20, G:0.10, T:0.28
Consensus pattern (21 bp):
TATCAAATATCAGGACATACT
Found at i:48737344 original size:63 final size:63
Alignment explanation
Indices: 48737263--48737452 Score: 308
Period size: 63 Copynumber: 3.0 Consensus size: 63
48737253 AATAAGAAGA
* *
48737263 AAATGGGCAGATTTGGTCAAATGATCCACGATGACCTAAACAGAATCTTACTTAGTGGGTGTT
1 AAATGGGCAGATTTGGTCAAATGATCTACGATGACCTAAACAGAATCTTTCTTAGTGGGTGTT
* * * *
48737326 AAATGGGAAAATTTGGTCAAATGATCTACAATGACTTAAACAGAATCTTTCTTAGTGGGTGTT
1 AAATGGGCAGATTTGGTCAAATGATCTACGATGACCTAAACAGAATCTTTCTTAGTGGGTGTT
* *
48737389 AAATGGGCAGATTTGGTCAAATGATCTATGATGACCTAAGCAGAATCTTTCTTAGTGGGTGTT
1 AAATGGGCAGATTTGGTCAAATGATCTACGATGACCTAAACAGAATCTTTCTTAGTGGGTGTT
48737452 A
1 A
48737453 GGGGCAACCC
Statistics
Matches: 115, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 115 1.00
ACGTcount: A:0.32, C:0.13, G:0.23, T:0.32
Consensus pattern (63 bp):
AAATGGGCAGATTTGGTCAAATGATCTACGATGACCTAAACAGAATCTTTCTTAGTGGGTGTT
Found at i:48742111 original size:31 final size:32
Alignment explanation
Indices: 48742065--48742125 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
48742055 CTCGTGTGAC
** * *
48742065 CCACACGGCTTAAATGGCC-AGCCCGTGTGGT
1 CCACACGGCCAAAATGACCTAGACCGTGTGGT
48742096 CCACACGGCCAAAATGACCTAGACCGTGTG
1 CCACACGGCCAAAATGACCTAGACCGTGTG
48742126 TCTCACATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
31 16 0.64
32 9 0.36
ACGTcount: A:0.25, C:0.33, G:0.26, T:0.16
Consensus pattern (32 bp):
CCACACGGCCAAAATGACCTAGACCGTGTGGT
Found at i:48743736 original size:27 final size:29
Alignment explanation
Indices: 48743688--48743741 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
48743678 ATTCAAAGAG
*
48743688 GAGAAAAAAAAGGAGAAAAAAAGAGAATA
1 GAGAAAAAAAAGGAGAAAAAAAAAGAATA
48743717 GAGAAAAAAAA-GA-AAAAAAAAAGAA
1 GAGAAAAAAAAGGAGAAAAAAAAAGAA
48743742 ACGTGAAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 11 0.46
28 2 0.08
29 11 0.46
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (29 bp):
GAGAAAAAAAAGGAGAAAAAAAAAGAATA
Found at i:48744075 original size:31 final size:30
Alignment explanation
Indices: 48744055--48744113 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 30
48744045 CAACCCTCAG
48744055 CCATTGAACCAAATTAAATTACTTAACACAA
1 CCATTGAACCAAATTAAATTAC-TAACACAA
48744086 CCATTGAACCAAATTAAATTACTTAACA
1 CCATTGAACCAAATTAAATTAC-TAACA
48744114 TACTTTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.27
Consensus pattern (30 bp):
CCATTGAACCAAATTAAATTACTAACACAA
Found at i:48757281 original size:23 final size:23
Alignment explanation
Indices: 48757255--48757319 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 23
48757245 AGATCCTCTG
*
48757255 AAGAGCTATAATGGGAAGCTCGC
1 AAGAGCTATAATGGGAAGCTCAC
* * *
48757278 AAGAACCATATAACGGGAAGCTCAT
1 AAG-AGC-TATAATGGGAAGCTCAC
*
48757303 GAGAGCTATTAATGGGA
1 AAGAGCTA-TAATGGGA
48757320 TTCTCTTTTG
Statistics
Matches: 32, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
23 5 0.16
24 11 0.34
25 16 0.50
ACGTcount: A:0.38, C:0.15, G:0.28, T:0.18
Consensus pattern (23 bp):
AAGAGCTATAATGGGAAGCTCAC
Found at i:48767224 original size:20 final size:21
Alignment explanation
Indices: 48767196--48767242 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
48767186 CTAGTAAGAC
48767196 AAATATCTTTAAAACTTAAT-
1 AAATATCTTTAAAACTTAATG
* * *
48767216 AAATTTCTTTGAGACTTAATG
1 AAATATCTTTAAAACTTAATG
48767237 AAATAT
1 AAATAT
48767243 AAAACATCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (21 bp):
AAATATCTTTAAAACTTAATG
Found at i:48768154 original size:16 final size:16
Alignment explanation
Indices: 48768130--48768162 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
48768120 TCTTTTAAAA
48768130 CTTTGTCCCTCTTGAT
1 CTTTGTCCCTCTTGAT
*
48768146 CTTTTTCCCTCTTGAT
1 CTTTGTCCCTCTTGAT
48768162 C
1 C
48768163 AACAACAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.33, G:0.09, T:0.52
Consensus pattern (16 bp):
CTTTGTCCCTCTTGAT
Found at i:48768195 original size:45 final size:47
Alignment explanation
Indices: 48768131--48768250 Score: 156
Period size: 51 Copynumber: 2.5 Consensus size: 47
48768121 CTTTTAAAAC
*
48768131 TTTGTCCCTCTTGATCTTTTTCC-CT-C-TTGATCAACAACAAAGTGA
1 TTTGTCCCTCTTGATCTTTTTCCTCTACTTTCATCAACAAC-AAGTGA
*
48768176 TTTGTCCCTCTTGATCTTTTTCCTTTTAAAACTTTCATCAACAACAAGTGA
1 TTTGTCCCTCTTGATCTTTTTCC-TCT---ACTTTCATCAACAACAAGTGA
48768227 TTTGTCCCTCTTGATCTTTTTCCT
1 TTTGTCCCTCTTGATCTTTTTCCT
48768251 TTTGTTACAT
Statistics
Matches: 66, Mismatches: 2, Indels: 9
0.86 0.03 0.12
Matches are distributed among these distances:
45 23 0.35
47 1 0.02
50 1 0.02
51 30 0.45
52 11 0.17
ACGTcount: A:0.20, C:0.26, G:0.09, T:0.45
Consensus pattern (47 bp):
TTTGTCCCTCTTGATCTTTTTCCTCTACTTTCATCAACAACAAGTGA
Found at i:48771366 original size:28 final size:28
Alignment explanation
Indices: 48771333--48771389 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
48771323 TATAAACTTA
*
48771333 TTAAAATTATAAAAAATTGAAAAAT-TAT
1 TTAAAA-TATAAAAAATTAAAAAATATAT
**
48771361 TTAAAATATTTAAAATTAAAAAATATAT
1 TTAAAATATAAAAAATTAAAAAATATAT
48771389 T
1 T
48771390 AGAATTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.60
28 10 0.40
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
TTAAAATATAAAAAATTAAAAAATATAT
Found at i:48771442 original size:52 final size:50
Alignment explanation
Indices: 48771378--48771485 Score: 110
Period size: 51 Copynumber: 2.1 Consensus size: 50
48771368 ATTTAAAATT
* * * * *
48771378 AAAAAATATATTAGAATTTTTAAGAAATAATA-AAACATTGTAAAAATTATA
1 AAAAAAAATATTAAAAATATTAA-AAATAATATAAAC-TTATAAAAATTATA
* * *
48771429 AAAAAAAACTATTAAAAATATTAAAATTGATATAAACTTATAAATATTATA
1 AAAAAAAA-TATTAAAAATATTAAAAATAATATAAACTTATAAAAATTATA
48771480 AAAAAA
1 AAAAAA
48771486 GAGTCATAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
51 31 0.66
52 16 0.34
ACGTcount: A:0.62, C:0.03, G:0.04, T:0.31
Consensus pattern (50 bp):
AAAAAAAATATTAAAAATATTAAAAATAATATAAACTTATAAAAATTATA
Found at i:48771777 original size:6 final size:6
Alignment explanation
Indices: 48771755--48771789 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
48771745 CAGTTCAAGT
48771755 AAATAA AATATTAA AAATAA AAATAA AAATAA AAA
1 AAATAA AA-A-TAA AAATAA AAATAA AAATAA AAA
48771790 ATTCAGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 20 0.74
7 2 0.07
8 5 0.19
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:48771927 original size:9 final size:9
Alignment explanation
Indices: 48771896--48772210 Score: 95
Period size: 9 Copynumber: 33.0 Consensus size: 9
48771886 ATCCAGTTCA
48771896 AATTTTTAT
1 AATTTTTAT
*
48771905 GATTTTTTAAAT
1 -AATTTTT--AT
48771917 AATTTTTAT
1 AATTTTTAT
*
48771926 AACTTTATAT
1 AA-TTTTTAT
*
48771936 AATTTTAAT
1 AATTTTTAT
* * *
48771945 ACTTCTAAT
1 AATTTTTAT
48771954 AATTTTTAT
1 AATTTTTAT
*
48771963 GATTTTTAT
1 AATTTTTAT
*
48771972 AGAATTTTAAT
1 --AATTTTTAT
*
48771983 ATGTTTTTAT
1 A-ATTTTTAT
*
48771993 AAAATTTTA-
1 -AATTTTTAT
48772002 AATATGTTTGATT
1 AAT-T-TTT-A-T
48772015 AA-TTTTAT
1 AATTTTTAT
48772023 AGATTCATTTAT
1 A-ATT--TTTAT
* *
48772035 AAATTATTAG
1 -AATTTTTAT
*
48772045 AATTTAT-T
1 AATTTTTAT
*
48772053 AATTTTTTT
1 AATTTTTAT
*
48772062 ATATTTTTCT
1 A-ATTTTTAT
48772072 AATATTTTTAT
1 -A-ATTTTTAT
*
48772083 TATTTTTAT
1 AATTTTTAT
*
48772092 -ATTTTTAC
1 AATTTTTAT
*
48772100 AAGTTATTAT
1 AA-TTTTTAT
48772110 CAATTTTTAT
1 -AATTTTTAT
48772120 -ATTCTTT-T
1 AATT-TTTAT
*
48772128 AATATTTA-
1 AATTTTTAT
48772136 ACATTTTTAT
1 A-ATTTTTAT
* *
48772146 AAGTTTTCT
1 AATTTTTAT
* *
48772155 GATTTTTTT
1 AATTTTTAT
*
48772164 ATTTTTTAT
1 AATTTTTAT
** *
48772173 AAAAATTTCT
1 -AATTTTTAT
48772183 AATTTTTAT
1 AATTTTTAT
*
48772192 GATTTTTAAT
1 AATTTTT-AT
*
48772202 CATTTTTAT
1 AATTTTTAT
48772211 GGAAAATATT
Statistics
Matches: 225, Mismatches: 50, Indels: 61
0.67 0.15 0.18
Matches are distributed among these distances:
8 25 0.11
9 93 0.41
10 67 0.30
11 27 0.12
12 10 0.04
13 3 0.01
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (9 bp):
AATTTTTAT
Found at i:48771991 original size:21 final size:22
Alignment explanation
Indices: 48771960--48772010 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
48771950 TAATAATTTT
*
48771960 TATGATTTTTATAGAATTTT-AA
1 TATG-TTTTTATAAAATTTTAAA
48771982 TATGTTTTTATAAAATTTTAAA
1 TATGTTTTTATAAAATTTTAAA
48772004 TATGTTT
1 TATGTTT
48772011 GATTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
TATGTTTTTATAAAATTTTAAA
Found at i:48772079 original size:19 final size:20
Alignment explanation
Indices: 48772052--48772089 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
48772042 TAGAATTTAT
*
48772052 TAATTTTTTTA-TATTTTTC
1 TAATATTTTTATTATTTTTC
48772071 TAATATTTTTATTATTTTT
1 TAATATTTTTATTATTTTT
48772090 ATATTTTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.74
Consensus pattern (20 bp):
TAATATTTTTATTATTTTTC
Found at i:48773850 original size:294 final size:290
Alignment explanation
Indices: 48773065--48773956 Score: 938
Period size: 297 Copynumber: 3.0 Consensus size: 290
48773055 ATTAATATAT
* * ** *
48773065 ACAATTAATGAAGATAATAACTTGTGTATATTAAAATAAAAATGTATAAAATGCATTAAAATAAA
1 ACAATTAATG-AGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACA-CCAAATGAA
* ** ** ***
48773130 GCTTTAGTTGAATGACAAATTTAAG-GTTTTACTAATCCAATTGGTGTGGGTGCAAATCCCATTA
64 GCTTTAGTTGAGTGGTAAATTTAAGTG-TTTACTAATCCAATTGGT-TGGGTTTAAATATTATTA
* * *
48773194 TATGCATATTTTAATTGGTTTTTGTTAAAATGAAAATG-CTAAAATACCCTCAAACAGTACAACT
127 TATGCATATTTTAATTGGTTTTTGTTAAAATGAAAA-GACTAAAATACCATCAAATAGTATAACT
* * *
48773258 TATTTTAGTTATGGAAAGACA-TTTCTATAACTTT-CTAACATAGTTGGTGACCCGATTGA-G-G
191 TATTTTAATTATGGAAAGACATTTTC-GTAA-TTTCCTAACA-A-TTGGTGACCCAATTGAGGTG
* ** * *
48773319 AAGACTCTCAGTAAAATACTTAATAAGTAGTACGTATAAATAT
252 AACAAACTCAGTAAAATACTTAATAA--A-TA-GTATAGATAA
* * * *
48773362 ACAACTAATGGAGATAATAACTTATGCATATTAAAATAAAAATGTATTAAATATACCAATATGAA
1 ACAATTAAT-GAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACACCAA-ATGAA
***** *
48773427 GCTTT-GATTGAGTGGTAAATTTAAGAT-TTTACTAATCCAATTAGCACAAGCTTAAATATTATT
64 GCTTTAG-TTGAGTGGTAAATTTAAG-TGTTTACTAATCCAATT-GGTTGGGTTTAAATATTATT
* * ** *
48773490 TTATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGATTAAAATGTCATCAAATAATATAACT
126 ATATGCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACT
* *
48773555 TATTTTACTTATGGAAAGACATTTTCGTAATTTCCTAACCGGATTGGTGACCCAATTGAGGGTGA
191 TATTTTAATTATGGAAAGACATTTTCGTAATTTCCTAA-C-AATTGGTGACCCAATTGA-GGTGA
* * * *
48773620 ACAAACTTAGTAAAACATTTAATAAATATTATAGATAA
253 ACAAACTCAGTAAAATACTTAATAAATAGTATAGATAA
48773658 ACAATTAATAGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACACCAAATGAAG
1 ACAATTAAT-GAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACACCAAATGAAG
* * * * *
48773723 CTTTAGTTGAGTGGTAAAATTAAGTGATTATTAATCTAATTGGTTGGGTTTAAATTTTATTATAT
65 CTTTAGTTGAGTGGTAAATTTAAGTGTTTACTAATCCAATTGGTTGGGTTTAAATATTATTATAT
* * ** *
48773788 GAATATTTTAATTGATTTTCATTAAAATGAAAAGACTAAAACACCATCAAATAGTATAACTTATT
130 GCATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACTTATT
* *
48773853 TTAATAAT-GAAAGGACATTTTCGTAATTTCTTAATTCAATTGGTGACCCAATTGATGGTGACAC
195 TTAATTATGGAAA-GACATTTTCGTAATTTCCTAA--CAATTGGTGACCCAATTGA-GGTGA-AC
* *
48773917 CAACTCAATAAAATACTTAATAAATAGTATAGATATA
255 AAACTCAGTAAAATACTTAATAAATAGTATAGATA-A
48773954 ACA
1 ACA
48773957 TAATTTCTTT
Statistics
Matches: 493, Mismatches: 82, Indels: 41
0.80 0.13 0.07
Matches are distributed among these distances:
293 4 0.01
294 121 0.25
295 71 0.14
296 73 0.15
297 193 0.39
298 9 0.02
299 1 0.00
300 21 0.04
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (290 bp):
ACAATTAATGAGATAATAACTTGTGCATATTAAAATAAAAATGTATAAAATACACCAAATGAAGC
TTTAGTTGAGTGGTAAATTTAAGTGTTTACTAATCCAATTGGTTGGGTTTAAATATTATTATATG
CATATTTTAATTGGTTTTTGTTAAAATGAAAAGACTAAAATACCATCAAATAGTATAACTTATTT
TAATTATGGAAAGACATTTTCGTAATTTCCTAACAATTGGTGACCCAATTGAGGTGAACAAACTC
AGTAAAATACTTAATAAATAGTATAGATAA
Found at i:48774426 original size:3 final size:3
Alignment explanation
Indices: 48774418--48774442 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
48774408 CCTAAAATTA
48774418 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
48774443 GGTGAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:48777779 original size:29 final size:29
Alignment explanation
Indices: 48777742--48777813 Score: 90
Period size: 29 Copynumber: 2.5 Consensus size: 29
48777732 ACCTAGCCCA
* *
48777742 TGTGGCCCATATGGCCTACCACACGCTCG
1 TGTGACCCACATGGCCTACCACACGCTCG
* * * *
48777771 TGTGACCCACATGGTCTGCCACATGGTCG
1 TGTGACCCACATGGCCTACCACACGCTCG
48777800 TGTGACCCACATGG
1 TGTGACCCACATGG
48777814 TTTGCCGCAC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.18, C:0.33, G:0.26, T:0.22
Consensus pattern (29 bp):
TGTGACCCACATGGCCTACCACACGCTCG
Found at i:48777811 original size:17 final size:17
Alignment explanation
Indices: 48777768--48777814 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
48777758 TACCACACGC
48777768 TCGTGTGACCCACATGG
1 TCGTGTGACCCACATGG
48777785 TC---TG--CCACATGG
1 TCGTGTGACCCACATGG
48777797 TCGTGTGACCCACATGG
1 TCGTGTGACCCACATGG
48777814 T
1 T
48777815 TTGCCGCACG
Statistics
Matches: 25, Mismatches: 0, Indels: 10
0.71 0.00 0.29
Matches are distributed among these distances:
12 10 0.40
14 2 0.08
15 2 0.08
17 11 0.44
ACGTcount: A:0.17, C:0.30, G:0.28, T:0.26
Consensus pattern (17 bp):
TCGTGTGACCCACATGG
Found at i:48777830 original size:29 final size:29
Alignment explanation
Indices: 48777742--48777833 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 29
48777732 ACCTAGCCCA
* * * *
48777742 TGTGGCCCATATGGCCTACCACACG-CTCG
1 TGTGACCCACATGGTCTGCCACACGAC-CG
* **
48777771 TGTGACCCACATGGTCTGCCACATGGTCG
1 TGTGACCCACATGGTCTGCCACACGACCG
* *
48777800 TGTGACCCACATGGTTTGCCGCACGACCG
1 TGTGACCCACATGGTCTGCCACACGACCG
48777829 TGTGA
1 TGTGA
48777834 TGTCGACAGA
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 51 1.00
ACGTcount: A:0.17, C:0.33, G:0.27, T:0.23
Consensus pattern (29 bp):
TGTGACCCACATGGTCTGCCACACGACCG
Found at i:48779385 original size:23 final size:22
Alignment explanation
Indices: 48779343--48779434 Score: 73
Period size: 23 Copynumber: 4.2 Consensus size: 22
48779333 AGCCTCTAAG
*
48779343 CACAACCAATTTACCCTCCAAA
1 CACAACCAATGTACCCTCCAAA
* *
48779365 TACAACCATATGTACCTTCCAAA
1 CACAACCA-ATGTACCCTCCAAA
* * *
48779388 CACAACCAAATATGCCCTTC--A
1 CACAACC-AATGTACCCTCCAAA
*
48779409 -ACAACCAAATATACCCTCCAAA
1 CACAACC-AATGTACCCTCCAAA
48779431 CACA
1 CACA
48779435 TCCACTTAAA
Statistics
Matches: 55, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
20 17 0.31
21 1 0.02
22 8 0.15
23 28 0.51
24 1 0.02
ACGTcount: A:0.42, C:0.37, G:0.02, T:0.18
Consensus pattern (22 bp):
CACAACCAATGTACCCTCCAAA
Found at i:48783409 original size:23 final size:23
Alignment explanation
Indices: 48783379--48783424 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
48783369 TCAAGCTAAC
48783379 AAGCATGACAACAGAAGTTGCTT
1 AAGCATGACAACAGAAGTTGCTT
*
48783402 AAGCATGACAACGGAAGTTGCTT
1 AAGCATGACAACAGAAGTTGCTT
48783425 GAGGATTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.24, T:0.22
Consensus pattern (23 bp):
AAGCATGACAACAGAAGTTGCTT
Found at i:48791184 original size:19 final size:19
Alignment explanation
Indices: 48791118--48791184 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 19
48791108 AGTTAATTGG
* *
48791118 CACGTAAGTGCATACTGGCG
1 CACG-AAGTGCATTCTGGCA
* *
48791138 CTCGAAGTGCGTAT-TGGCA
1 CACGAAGTGCAT-TCTGGCA
48791157 CAC-ATAGTGCATTCTGGCA
1 CACGA-AGTGCATTCTGGCA
48791176 CACGAAGTG
1 CACGAAGTG
48791185 AATCTTGGCA
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
18 2 0.05
19 31 0.84
20 4 0.11
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.22
Consensus pattern (19 bp):
CACGAAGTGCATTCTGGCA
Found at i:48791356 original size:25 final size:25
Alignment explanation
Indices: 48791322--48791377 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 25
48791312 TTTTTAATCA
* *
48791322 TATCCACCATCGTTATTCAATTCGT
1 TATCAACCATCGTAATTCAATTCGT
48791347 TATCAACCATCGTAATTCAATTCGT
1 TATCAACCATCGTAATTCAATTCGT
48791372 TATCAA
1 TATCAA
48791378 GTCATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.38
Consensus pattern (25 bp):
TATCAACCATCGTAATTCAATTCGT
Found at i:48792145 original size:3 final size:3
Alignment explanation
Indices: 48792137--48792200 Score: 110
Period size: 3 Copynumber: 21.3 Consensus size: 3
48792127 ACCCTTCAAT
* *
48792137 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA TAA AAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
48792185 GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA G
48792201 TTTCCATCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:48793108 original size:26 final size:28
Alignment explanation
Indices: 48793071--48793132 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
48793061 GTGAAAAAAT
48793071 TAAAAAT-TAAAATCAA-T-AAA-AATGA
1 TAAAAATATAAAAT-AATTAAAATAATGA
*
48793096 TAAAAATATAAAATAATTAAAATAATTA
1 TAAAAATATAAAATAATTAAAATAATGA
48793124 TAAAAATAT
1 TAAAAATAT
48793133 GTAAAAGTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
25 9 0.28
26 7 0.22
27 3 0.09
28 13 0.41
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (28 bp):
TAAAAATATAAAATAATTAAAATAATGA
Found at i:48793149 original size:21 final size:20
Alignment explanation
Indices: 48793125--48793178 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
48793115 AAATAATTAT
*
48793125 AAAAATATGTAAAAGTTATTG
1 AAAAATATATAAAA-TTATTG
*
48793146 AAAAATATATATAATTATTG
1 AAAAATATATAAAATTATTG
*
48793166 -AAAATTTATAAAA
1 AAAAATATATAAAA
48793179 ATATAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 11 0.38
20 6 0.21
21 12 0.41
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.35
Consensus pattern (20 bp):
AAAAATATATAAAATTATTG
Found at i:48793163 original size:20 final size:20
Alignment explanation
Indices: 48793117--48793169 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
48793107 AATAATTAAA
*
48793117 ATAATTA-T-AAAAATATGT
1 ATAATTATTGAAAAATATAT
*
48793135 AAAAGTTATTGAAAAATATAT
1 ATAA-TTATTGAAAAATATAT
48793156 ATAATTATTGAAAA
1 ATAATTATTGAAAA
48793170 TTTATAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 3 0.10
20 11 0.38
21 12 0.41
ACGTcount: A:0.57, C:0.00, G:0.08, T:0.36
Consensus pattern (20 bp):
ATAATTATTGAAAAATATAT
Found at i:48793406 original size:21 final size:20
Alignment explanation
Indices: 48793354--48793406 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 20
48793344 TCTTACACTA
* * *
48793354 TTTATAATTTTTTTAATTTT
1 TTTATAATATTTCTAAGTTT
* *
48793374 TTTAAAAAATTTCTACAGTTT
1 TTTATAATATTTCTA-AGTTT
48793395 TTTATAATATTT
1 TTTATAATATTT
48793407 TTATAAATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (20 bp):
TTTATAATATTTCTAAGTTT
Found at i:48793408 original size:32 final size:31
Alignment explanation
Indices: 48793361--48793420 Score: 84
Period size: 32 Copynumber: 1.9 Consensus size: 31
48793351 CTATTTATAA
*
48793361 TTTTTTTAATTTTTTTAAAAAATTTCTACAG
1 TTTTTTTAATATTTTTAAAAAATTTCTACAG
* *
48793392 TTTTTTATAATATTTTTATAAATTTTCTA
1 TTTTTT-TAATATTTTTAAAAAATTTCTA
48793421 ATTTTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 6 0.24
32 19 0.76
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.62
Consensus pattern (31 bp):
TTTTTTTAATATTTTTAAAAAATTTCTACAG
Found at i:48793495 original size:25 final size:24
Alignment explanation
Indices: 48793450--48793507 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 24
48793440 GTTCATAATG
48793450 TATTTT-TAATAATTTTCTATAATT
1 TATTTTCTAATAATTTTCTAT-ATT
48793474 TCATTTTCTAAT-ATATTT-TATATT
1 T-ATTTTCTAATAAT-TTTCTATATT
*
48793498 TTTTTTCTAA
1 TATTTTCTAA
48793508 ATTTTCAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 8 0.27
24 5 0.17
25 10 0.33
26 7 0.23
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTTTCTAATAATTTTCTATATT
Found at i:48793735 original size:23 final size:23
Alignment explanation
Indices: 48793673--48793736 Score: 60
Period size: 24 Copynumber: 2.8 Consensus size: 23
48793663 ATTTATAAGG
* * *
48793673 AAAATA-TTTTATGATTTTTTAT
1 AAAATATTTTTTTTATTTTTAAT
*
48793695 -AAATATTTTCTATATATTTTTAAT
1 AAAATATTTT-T-TTTATTTTTAAT
48793719 AAAATATTTTTTTTATTT
1 AAAATATTTTTTTTATTT
48793737 GTTTCAATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 5 0.15
22 3 0.09
23 7 0.21
24 9 0.27
25 9 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (23 bp):
AAAATATTTTTTTTATTTTTAAT
Found at i:48816678 original size:146 final size:146
Alignment explanation
Indices: 48816414--48816714 Score: 584
Period size: 146 Copynumber: 2.1 Consensus size: 146
48816404 TACATATAAC
48816414 CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGTTCAT
1 CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGTTCAT
*
48816479 ACAATTAGGGGTCTAAGTGATGCTTACGGACCTTACAGTAGGTTCAAAGTCGACTTGGGCGACCC
66 ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCC
48816544 CTGCAACCTTAGCAAT
131 CTGCAACCTTAGCAAT
48816560 CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGTTCAT
1 CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGTTCAT
48816625 ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCC
66 ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCC
*
48816690 GTGCAACCTTAGCAAT
131 CTGCAACCTTAGCAAT
48816706 CAATTCAGT
1 CAATTCAGT
48816715 GAAAATGGGC
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
146 153 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (146 bp):
CAATTCAGTATACAAGCATACTATCATCATGCTCAACACATATATAAATCAAACAGTCAGTTCAT
ACAATTAGGGGTCTAAGTGATGCTTACGGACCCTACAGTAGGTTCAAAGTCGACTTGGGCGACCC
CTGCAACCTTAGCAAT
Found at i:48818435 original size:92 final size:92
Alignment explanation
Indices: 48818298--48818499 Score: 291
Period size: 92 Copynumber: 2.2 Consensus size: 92
48818288 GTATTTTGGA
** * * *
48818298 AATTGAGTAC-AAAAAAAGGAGCATGGGCTTAATTGCTTTTGTTGAAAATTTTTTAGGGTCTTTT
1 AATTGAGTACAAAAAAAAGGAGCATGGGCTTAATTGCTTTTGTTGAAAAAGTTTGAGAGCCTTTT
* *
48818362 TGATGCATTTTGACAGTTCAAGTACCC
66 TGATGCATTTTAAAAGTTCAAGTACCC
48818389 AATTGAGTACAAAAAAAAGGAGCATGGGCTTAATTGCTTGTT-TTGAAAAAGTTTGAGAGCCTTT
1 AATTGAGTACAAAAAAAAGGAGCATGGGCTTAATTGCTT-TTGTTGAAAAAGTTTGAGAGCCTTT
*
48818453 TTGATGCATTTTAAAAGTTTAAGTACCC
65 TTGATGCATTTTAAAAGTTCAAGTACCC
*
48818481 AATTGAGTGTCAAAAAAAA
1 AATTGAGT-ACAAAAAAAA
48818500 ACAAGAGTTT
Statistics
Matches: 99, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
91 10 0.10
92 78 0.79
93 11 0.11
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.34
Consensus pattern (92 bp):
AATTGAGTACAAAAAAAAGGAGCATGGGCTTAATTGCTTTTGTTGAAAAAGTTTGAGAGCCTTTT
TGATGCATTTTAAAAGTTCAAGTACCC
Found at i:48832661 original size:33 final size:33
Alignment explanation
Indices: 48832624--48832689 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
48832614 GTTGTTTGTT
* *
48832624 TTTGCTCATGTTTGCTGCGATTTTGTTCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
48832657 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
48832690 AATGGTAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.24, G:0.17, T:0.44
Consensus pattern (33 bp):
TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
Found at i:48833165 original size:8 final size:8
Alignment explanation
Indices: 48833152--48833178 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
48833142 CTTAGAAGAG
48833152 AATTTGAA
1 AATTTGAA
48833160 AATTTGAA
1 AATTTGAA
48833168 AATTTGAA
1 AATTTGAA
48833176 AAT
1 AAT
48833179 AAAAGAGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (8 bp):
AATTTGAA
Found at i:48834512 original size:18 final size:19
Alignment explanation
Indices: 48834489--48834527 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
48834479 GAGGCATTTT
* *
48834489 AAGCTTTTGCA-AAATTCA
1 AAGCTTTGGCAGAAAATCA
48834507 AAGCTTTGGCAGAAAATCA
1 AAGCTTTGGCAGAAAATCA
48834526 AA
1 AA
48834528 TAGACTGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (19 bp):
AAGCTTTGGCAGAAAATCA
Found at i:48837178 original size:33 final size:33
Alignment explanation
Indices: 48837141--48837206 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
48837131 GTTGTTTGTG
* *
48837141 TTTGCTCATGTTTGCTGTCATTTTGTTCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
48837174 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
1 TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
48837207 GATATAACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.15, C:0.24, G:0.15, T:0.45
Consensus pattern (33 bp):
TTTGCTCATGTTTGCTGCCATTTTGTCCCAACA
Found at i:48840398 original size:44 final size:43
Alignment explanation
Indices: 48840308--48840590 Score: 132
Period size: 43 Copynumber: 6.5 Consensus size: 43
48840298 GATCCTTTAT
* ** * * *
48840308 TGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCTGCTCCGC
1 TGTAACTTCAGGG-GATAAGATCTCTGGCTTCAATCTGCTCCAC
*
48840351 TGTAA-TCTCGGGGAGATAAGATCTCTGGCTTCAATCTGCTCCAC
1 TGTAACT-TCAGGG-GATAAGATCTCTGGCTTCAATCTGCTCCAC
* ** *
48840395 TGTAACTTCAGGGGATAAGATCTGCAAT-TCTTCGGTCTACTCCAC
1 TGTAACTTCAGGGGATAAGATCT-C--TGGCTTCAATCTGCTCCAC
* * * * * * *
48840440 TGTAACCTCAGAGAGATAAGA-C-CT-GATGCGATCTACTCTAC
1 TGTAACTTCAG-GGGATAAGATCTCTGGCTTCAATCTGCTCCAC
* *** * *
48840481 TGTAACTTCAGAGAGATAAGATC-CTTTATTTTAATCCGCTCCAC
1 TGTAACTTCAG-GGGATAAGATCTC-TGGCTTCAATCTGCTCCAC
* * ** * *
48840525 TGTAACTTCAGGGAGATAGGAT-TATATCTTCGATCTGCTCCGC
1 TGTAACTTCAGGG-GATAAGATCTCTGGCTTCAATCTGCTCCAC
* *
48840568 TGTAACCTCAGGAGATAAGATCT
1 TGTAACTTCAGGGGATAAGATCT
48840591 GCAATTCTTC
Statistics
Matches: 186, Mismatches: 41, Indels: 26
0.74 0.16 0.10
Matches are distributed among these distances:
41 33 0.18
42 10 0.05
43 55 0.30
44 54 0.29
45 25 0.13
46 9 0.05
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (43 bp):
TGTAACTTCAGGGGATAAGATCTCTGGCTTCAATCTGCTCCAC
Found at i:48840438 original size:45 final size:43
Alignment explanation
Indices: 48840308--48840673 Score: 219
Period size: 44 Copynumber: 8.5 Consensus size: 43
48840298 GATCCTTTAT
* * *
48840308 TGTAACTTCAGGGAGATAGGAT-AG-TGTCTTCGATCTGCTCCGC
1 TGTAACTTCA-GGAGATAAGATCTGAT-TCTTCGATCTGCTCCAC
* * * *
48840351 TGTAA-TCTCGGGGAGATAAGATCT-CTGGCTTCAATCTGCTCCAC
1 TGTAACT-TC-AGGAGATAAGATCTGAT-TCTTCGATCTGCTCCAC
* * *
48840395 TGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCAC
1 TGTAACTTCAGGAGATAAGATCTG--ATTCTTCGATCTGCTCCAC
* * * * *
48840440 TGTAACCTCAGAGAGATAAGACCTGA---TGCGATCTACTCTAC
1 TGTAACTTCAG-GAGATAAGATCTGATTCTTCGATCTGCTCCAC
* * *
48840481 TGTAACTTCAGAGAGATAAGATCCTTTATT-TT-AATCCGCTCCAC
1 TGTAACTTCAG-GAGATAAGAT-C-TGATTCTTCGATCTGCTCCAC
* *
48840525 TGTAACTTCAGGGAGATAGGAT-T-ATATCTTCGATCTGCTCCGC
1 TGTAACTTCA-GGAGATAAGATCTGAT-TCTTCGATCTGCTCCAC
* * *
48840568 TGTAACCTCAGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCAC
1 TGTAACTTCAGGAGATAAGATCTG--ATTCTTCGATCTGCTCCAC
* *
48840613 TGTAA-TCTCAGGGAGATAAGACCTGA----T-GATCT-CTCTAC
1 TGTAACT-TCA-GGAGATAAGATCTGATTCTTCGATCTGCTCCAC
48840651 TGTAACTTCAGAGAGATAAGATC
1 TGTAACTTCAG-GAGATAAGATC
48840674 CTTTAATCTC
Statistics
Matches: 256, Mismatches: 42, Indels: 55
0.73 0.12 0.16
Matches are distributed among these distances:
37 1 0.00
38 22 0.09
39 5 0.02
40 3 0.01
41 34 0.13
42 14 0.05
43 50 0.20
44 52 0.20
45 48 0.19
46 27 0.11
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.30
Consensus pattern (43 bp):
TGTAACTTCAGGAGATAAGATCTGATTCTTCGATCTGCTCCAC
Found at i:48840597 original size:173 final size:163
Alignment explanation
Indices: 48840379--48840755 Score: 515
Period size: 173 Copynumber: 2.2 Consensus size: 163
48840369 AGATCTCTGG
* * * *
48840379 CTTCAATCTGCTCCACTGTAACTTCAGGGGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
1 CTTCGATCTGCTCCGCTGTAACCTCAGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
48840444 ACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTA
66 ACCTCAGAGAGATAAGACCTGAT--GATCT-CTCTACTGTAACTTCAGAGAGATAAGATCC----
*
48840509 TTTTAATCCGCTCCACTGTAA-CTTCAGGGAGATAGGATTA-TAT
124 -TTTAAT---CTCCACTGTAATC-TCAAGGAGATAGGATTACTAT
**
48840552 CTTCGATCTGCTCCGCTGTAACCTCAGGAGATAAGATCTGCAATTCTTCGGTCTGTTCCACTGTA
1 CTTCGATCTGCTCCGCTGTAACCTCAGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
* *
48840617 ATCTCAGGGAGATAAGACCTGATGATCTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATC
66 ACCTCAGAGAGATAAGACCTGATGATCTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATC
*
48840682 TCCATTGTAATCTCAAGGAGATAGGATTACTAT
131 TCCACTGTAATCTCAAGGAGATAGGATTACTAT
* *
48840715 CTTTGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG
1 CTTCGATCTGCTCCGCTGTAACCTCA-GGAGATAAGATCTG
48840756 TGATCTTCTC
Statistics
Matches: 189, Mismatches: 12, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
162 26 0.14
163 28 0.15
164 14 0.07
165 6 0.03
170 30 0.16
171 5 0.03
173 80 0.42
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (163 bp):
CTTCGATCTGCTCCGCTGTAACCTCAGGAGATAAGATCTGCAATTCTTCGGTCTACTCCACTGTA
ACCTCAGAGAGATAAGACCTGATGATCTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAATC
TCCACTGTAATCTCAAGGAGATAGGATTACTAT
Found at i:48840683 original size:38 final size:38
Alignment explanation
Indices: 48840611--48840794 Score: 132
Period size: 38 Copynumber: 4.8 Consensus size: 38
48840601 GGTCTGTTCC
* *
48840611 ACTGTAATCTCAGGGAGATAAGA-CCTGATGATCTCTCT
1 ACTGTAATCTCAGAGAGATAAGATCCT-TTGATCTCTCT
*
48840649 ACTGTAA-CTTCAGAGAGATAAGATCCTTTAATCTC-C-
1 ACTGTAATC-TCAGAGAGATAAGATCCTTTGATCTCTCT
* * *
48840685 ATTGTAATCTCA-AGGAGATAGGATTACTATCTTTGATCTGCTCC
1 ACTGTAATCTCAGA-GAGATAAGA-T-C---CTTTGATCT-CTCT
* * *
48840729 GCTGTAATCTCAGGGAGATAAGAT-CTGTGATCTTCTCT
1 ACTGTAATCTCAGAGAGATAAGATCCTTTGATC-TCTCT
48840767 ACTGTAA-CTTCAGAG-GATAAGATCCTTT
1 ACTGTAATC-TCAGAGAGATAAGATCCTTT
48840795 AATCCGCTCC
Statistics
Matches: 115, Mismatches: 15, Indels: 32
0.71 0.09 0.20
Matches are distributed among these distances:
35 1 0.01
36 17 0.15
37 13 0.11
38 51 0.44
39 4 0.03
41 8 0.07
42 1 0.01
43 2 0.02
44 18 0.16
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (38 bp):
ACTGTAATCTCAGAGAGATAAGATCCTTTGATCTCTCT
Found at i:48840837 original size:120 final size:118
Alignment explanation
Indices: 48840603--48840861 Score: 434
Period size: 118 Copynumber: 2.2 Consensus size: 118
48840593 AATTCTTCGG
* *
48840603 TCTGTTCCACTGTAATCTCAGGGAGATAAGACCTGATGATCTCTCTACTGTAACTTCAGAGAGAT
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATGATCTCTCTACTGTAACTTCAGAGAGAT
48840668 AAGATCCTTTAATCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
66 AAGATCCTTTAATCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
*
48840721 TCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTG-TGATCTTCTCTACTGTAACTTCAGAG-GA
1 TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATGATC-TCTCTACTGTAACTTCAGAGAGA
48840784 TAAGATCCTTTAATCCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
65 TAAGATCCTTTAAT---CTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
48840841 TCTGCT-CGCTGTAATCTCAGG
1 TCTGCTCCGCTGTAATCTCAGG
48840862 AGCAAGATCT
Statistics
Matches: 134, Mismatches: 3, Indels: 7
0.93 0.02 0.05
Matches are distributed among these distances:
117 21 0.16
118 52 0.39
119 15 0.11
120 46 0.34
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (118 bp):
TCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATGATCTCTCTACTGTAACTTCAGAGAGAT
AAGATCCTTTAATCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGA
Found at i:48842212 original size:1 final size:1
Alignment explanation
Indices: 48842206--48842232 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
48842196 CTCTCCAAAG
48842206 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
48842233 AGGAAGCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:48858475 original size:127 final size:127
Alignment explanation
Indices: 48858249--48858508 Score: 466
Period size: 127 Copynumber: 2.0 Consensus size: 127
48858239 TAGGATTAAC
*
48858249 AATAAACCACAAATTAGAAGTAAATCGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
1 AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
* * *
48858314 CGGATTCTTAAAAATACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCTAGAG
66 AGGATTCTTAAAAAAACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
*
48858376 AATAAACCACAATTTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
1 AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
*
48858441 ATGATTCTTAAAAAAACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
66 AGGATTCTTAAAAAAACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
48858503 AATAAA
1 AATAAA
48858509 TTATTCTTTG
Statistics
Matches: 127, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
127 127 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.30
Consensus pattern (127 bp):
AATAAACCACAAATTAGAAGTAAAACGGATCCGTTTTACCAAATACAATCTTTAAGATTGTAGTT
AGGATTCTTAAAAAAACACTTAAAAGTGATAAAACTGTAAAAACTTATAAATTTCTCAAGAG
Found at i:48859359 original size:81 final size:81
Alignment explanation
Indices: 48859264--48859455 Score: 253
Period size: 81 Copynumber: 2.4 Consensus size: 81
48859254 CATTTAGGGG
* * * * * *
48859264 AAAACGTCGTTATTGCTTTACCTTTAGCAGCGTTTATGA-AAAAATGTTGTTATTGCTTTACCTT
1 AAAACGTCGCTATTGCTTTACCTTTTGCAGCATTTATGAGAAAAACGTTGCTATTACTTTACCTT
* *
48859328 TTGCGGTGTTTATGAGA
66 TTGCGGCGTTTATG-CA
* *
48859345 AAAACGTCGCTATTGCTTTACCTTTTGCGGTATTTATGAGAAAAACGTTGCTATTACTTTACCTT
1 AAAACGTCGCTATTGCTTTACCTTTTGCAGCATTTATGAGAAAAACGTTGCTATTACTTTACCTT
48859410 TTGCGGCGTTTATGCA
66 TTGCGGCGTTTATGCA
* *
48859426 AAAACGTTGCTAATGC-TTACCTTTTGCAGC
1 AAAACGTCGCTATTGCTTTACCTTTTGCAGC
48859456 TTTTTTAATC
Statistics
Matches: 96, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
80 12 0.12
81 49 0.51
82 35 0.36
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (81 bp):
AAAACGTCGCTATTGCTTTACCTTTTGCAGCATTTATGAGAAAAACGTTGCTATTACTTTACCTT
TTGCGGCGTTTATGCA
Found at i:48859360 original size:41 final size:41
Alignment explanation
Indices: 48859264--48859452 Score: 240
Period size: 41 Copynumber: 4.7 Consensus size: 41
48859254 CATTTAGGGG
* * * *
48859264 AAAACGTCGTTATTGCTTTACCTTTAGCAGCGTTTATGA-A
1 AAAACGTTGCTATTGCTTTACCTTTTGCGGCGTTTATGAGA
* * *
48859304 AAAATGTTGTTATTGCTTTACCTTTTGCGGTGTTTATGAGA
1 AAAACGTTGCTATTGCTTTACCTTTTGCGGCGTTTATGAGA
* **
48859345 AAAACGTCGCTATTGCTTTACCTTTTGCGGTATTTATGAGA
1 AAAACGTTGCTATTGCTTTACCTTTTGCGGCGTTTATGAGA
* *
48859386 AAAACGTTGCTATTACTTTACCTTTTGCGGCGTTTATG-CA
1 AAAACGTTGCTATTGCTTTACCTTTTGCGGCGTTTATGAGA
*
48859426 AAAACGTTGCTAATGC-TTACCTTTTGC
1 AAAACGTTGCTATTGCTTTACCTTTTGC
48859453 AGCTTTTTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
39 11 0.08
40 49 0.37
41 72 0.55
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.40
Consensus pattern (41 bp):
AAAACGTTGCTATTGCTTTACCTTTTGCGGCGTTTATGAGA
Found at i:48869665 original size:6 final size:6
Alignment explanation
Indices: 48869656--48869707 Score: 68
Period size: 6 Copynumber: 8.7 Consensus size: 6
48869646 GGAGGAGTAT
* * * *
48869656 GAGTGG GAGTGG GAGTGG GAGTGG GAGTAG GAGTAG GAGTAG GAGTGA
1 GAGTGG GAGTGG GAGTGG GAGTGG GAGTGG GAGTGG GAGTGG GAGTGG
48869704 GAGT
1 GAGT
48869708 AGATATGGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.25, C:0.00, G:0.58, T:0.17
Consensus pattern (6 bp):
GAGTGG
Found at i:48869677 original size:18 final size:18
Alignment explanation
Indices: 48869649--48869709 Score: 77
Period size: 18 Copynumber: 3.4 Consensus size: 18
48869639 CGCCAAAGGA
*
48869649 GGAGTATGAGTGGGAGTG
1 GGAGTAGGAGTGGGAGTG
* *
48869667 GGAGTGGGAGTGGGAGTA
1 GGAGTAGGAGTGGGAGTG
*
48869685 GGAGTAGGAGTAGGAGTG
1 GGAGTAGGAGTGGGAGTG
*
48869703 AGAGTAG
1 GGAGTAG
48869710 ATATGGAGTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.26, C:0.00, G:0.56, T:0.18
Consensus pattern (18 bp):
GGAGTAGGAGTGGGAGTG
Found at i:48884063 original size:24 final size:24
Alignment explanation
Indices: 48884035--48884094 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
48884025 AGTTTTTAGT
*
48884035 AAAAATCTCAACTACTCAAATCCA
1 AAAAATCTCAACTAATCAAATCCA
* * *
48884059 GAAAATCTCAACTAATTAAATCGA
1 AAAAATCTCAACTAATCAAATCCA
48884083 AAAAATCTCAAC
1 AAAAATCTCAAC
48884095 AAAATAATCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.52, C:0.23, G:0.03, T:0.22
Consensus pattern (24 bp):
AAAAATCTCAACTAATCAAATCCA
Found at i:48884109 original size:23 final size:24
Alignment explanation
Indices: 48884035--48884109 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
48884025 AGTTTTTAGT
* *
48884035 AAAAATCTCAAC-TACTCAAATCCA
1 AAAAATCTCAACAAAAT-AAATCCA
* * * *
48884059 GAAAATCTCAACTAATTAAATCGA
1 AAAAATCTCAACAAAATAAATCCA
*
48884083 AAAAATCTCAACAAAAT-AATCCT
1 AAAAATCTCAACAAAATAAATCCA
48884106 AAAA
1 AAAA
48884110 GATAAAGATC
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
23 8 0.20
24 31 0.76
25 2 0.05
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (24 bp):
AAAAATCTCAACAAAATAAATCCA
Found at i:48885609 original size:43 final size:43
Alignment explanation
Indices: 48885552--48885736 Score: 226
Period size: 43 Copynumber: 4.3 Consensus size: 43
48885542 TTTTTCACAT
* * * *
48885552 AAACGCTGGTAAAGAACATGATCTTTAGCGGCACTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
48885595 AAACGCCGATAAAGATCATGACCTTTAGCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * * * *
48885638 AATCGTCGCTAAAGAAAATAACCTTTAGCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
* * *
48885681 AAGCGTCGCTAAATAACATGACCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
*
48885724 AAATGCCGCTAAA
1 AAACGCCGCTAAA
48885737 AGTACCATTT
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 122 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.28
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCAC
Found at i:48891565 original size:9 final size:9
Alignment explanation
Indices: 48891551--48891910 Score: 273
Period size: 9 Copynumber: 41.1 Consensus size: 9
48891541 TAAGTATAAC
48891551 TAAGTTATG
1 TAAGTTATG
48891560 TAAGTTATG
1 TAAGTTATG
* * *
48891569 ATATGATATA
1 -TAAGTTATG
*
48891579 T-ATTTATG
1 TAAGTTATG
48891587 T-A-TTATG
1 TAAGTTATG
48891594 TAAGTTATG
1 TAAGTTATG
48891603 TAAGTTATG
1 TAAGTTATG
*
48891612 TGAGTTATG
1 TAAGTTATG
*
48891621 TAAATTATG
1 TAAGTTATG
*
48891630 TAAGTTTTG
1 TAAGTTATG
* * *
48891639 ATATGATATA
1 -TAAGTTATG
*
48891649 T-ATTTATG
1 TAAGTTATG
*
48891657 TAATTTATG
1 TAAGTTATG
*
48891666 TAAGTTGTG
1 TAAGTTATG
48891675 TAAGTTATG
1 TAAGTTATG
48891684 TAAGTTA--
1 TAAGTTATG
*
48891691 T-ATTTATG
1 TAAGTTATG
*
48891699 T-A-TTACG
1 TAAGTTATG
48891706 TAAGTTATG
1 TAAGTTATG
48891715 TAAGTTATG
1 TAAGTTATG
*
48891724 TAAATTATG
1 TAAGTTATG
48891733 TAAGTTATG
1 TAAGTTATG
48891742 T-A-TTATG
1 TAAGTTATG
**
48891749 TAAGTATAAA
1 TAAGT-TATG
48891759 TAAGTTATG
1 TAAGTTATG
*
48891768 TAAGTTCTG
1 TAAGTTATG
* * *
48891777 ATATGATATA
1 -TAAGTTATG
*
48891787 T-ATTTATG
1 TAAGTTATG
48891795 T-A-TTATG
1 TAAGTTATG
48891802 TAAGTTATG
1 TAAGTTATG
*
48891811 TGAGTTATG
1 TAAGTTATG
*
48891820 TGAGTTATG
1 TAAGTTATG
48891829 TAAGTTATG
1 TAAGTTATG
*
48891838 TAAATTATG
1 TAAGTTATG
48891847 TAAGTTATG
1 TAAGTTATG
*
48891856 TAAGTTTTG
1 TAAGTTATG
* * *
48891865 ATATGATATA
1 -TAAGTTATG
*
48891875 T-ATTTATG
1 TAAGTTATG
*
48891883 TAAATTATG
1 TAAGTTATG
48891892 TAAGTTATG
1 TAAGTTATG
*
48891901 TATGTTATG
1 TAAGTTATG
48891910 T
1 T
48891911 GGAAATTAGT
Statistics
Matches: 277, Mismatches: 57, Indels: 34
0.75 0.15 0.09
Matches are distributed among these distances:
6 4 0.01
7 24 0.09
8 25 0.09
9 196 0.71
10 28 0.10
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (9 bp):
TAAGTTATG
Found at i:48891897 original size:208 final size:207
Alignment explanation
Indices: 48891525--48891899 Score: 533
Period size: 208 Copynumber: 1.8 Consensus size: 207
48891515 ATTTACACAG
* * *
48891525 GTAAGTTTTTTATTTGTAAGTATAACTAAGTTATGTAAGTTATGATATGATATATATTTATGTAT
1 GTAAGTTATGTATTTGTAAGTATAAATAAGTTATGTAAGTTATGATATGATATATATTTATGTAT
* * *
48891590 TATGTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGTAAGTTTTGATATGATATATATTTA
66 TATGTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGTAAATTATGATAAGATATATATTTA
* * * *
48891655 TGTAATTTATGTAAGTTGTGTAAGTTATGTAAGTTATATTTATGTATTACGTAAGTTATGTAAGT
131 TGTAATATATATAAGTTATGTAAATTATGTAAGTTATATTTATGTATTACGTAAGTTATGTAAGT
48891720 TATGTAAATTAT
196 TATGTAAATTAT
*
48891732 GTAAGTTATGTATTATGTAAGTATAAATAAGTTATGTAAGTTCTGATATGATATATATTTATGTA
1 GTAAGTTATGTATT-TGTAAGTATAAATAAGTTATGTAAGTTATGATATGATATATATTTATGTA
* * * *
48891797 TTATGTAAGTTATGTGAGTTATGTGAGTTATGTAAGTTATGTAAATTATG-TAAGTTATGTAAGT
65 TTATGTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGTAAATTATGATAAGATATAT-A-T
*
48891861 TT-TG--ATATGATATATATTTATGTAAATTATGTAAGTTAT
128 TTATGTAATAT-ATATA-AGTTATGTAAATTATGTAAGTTAT
48891900 GTATGTTATG
Statistics
Matches: 147, Mismatches: 16, Indels: 9
0.85 0.09 0.05
Matches are distributed among these distances:
206 3 0.02
207 23 0.16
208 118 0.80
209 3 0.02
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (207 bp):
GTAAGTTATGTATTTGTAAGTATAAATAAGTTATGTAAGTTATGATATGATATATATTTATGTAT
TATGTAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGTAAATTATGATAAGATATATATTTA
TGTAATATATATAAGTTATGTAAATTATGTAAGTTATATTTATGTATTACGTAAGTTATGTAAGT
TATGTAAATTAT
Found at i:48892684 original size:122 final size:123
Alignment explanation
Indices: 48892456--48892728 Score: 460
Period size: 122 Copynumber: 2.2 Consensus size: 123
48892446 AGCACCTCTA
*
48892456 ATCCATACTAATATAGGTTATATATTAAAAATATAGGTTTTAAGTTATTTAAAAATATAATAATT
1 ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTTAAAAATATAATAATT
* * *
48892521 ATAATTATTTTTAAAATTTAAAAATTTATTAGTAATGAATTTGAAATGTAGGTTA-TAT
66 ATAATTATTTTTAAAATTTAAAAACTTATTAGTAATAAATTTGAAATATAGGTTACT-T
48892579 ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTT-AAAATATAATAATT
1 ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTTAAAAATATAATAATT
*
48892643 ATAATTATTTTTAAACTTTAAAAACTTATTAGTAATAAATTTGAAATATAGGTTACTT
66 ATAATTATTTTTAAAATTTAAAAACTTATTAGTAATAAATTTGAAATATAGGTTACTT
* *
48892701 ATCCATATTAATATAGGTTACATATTAA
1 ATCCATACTAATATAGGTTATATATTAA
48892729 TTCTTCAAAG
Statistics
Matches: 142, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
122 92 0.65
123 50 0.35
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (123 bp):
ATCCATACTAATATAGGTTATATATTAAAAATATAAGTTTTAAGTTATTTAAAAATATAATAATT
ATAATTATTTTTAAAATTTAAAAACTTATTAGTAATAAATTTGAAATATAGGTTACTT
Found at i:48894569 original size:39 final size:39
Alignment explanation
Indices: 48894510--48894587 Score: 113
Period size: 41 Copynumber: 2.0 Consensus size: 39
48894500 ATTTGATACA
*
48894510 TTAATATGACATTATTTTTAATTGTTAAATTTTTAAAATTT
1 TTAATATGACATTA-TTTTAATGGTTAAA-TTTTAAAATTT
*
48894551 TTAATATGACATTA-TTTAATGGTTCAATTTTAAAATT
1 TTAATATGACATTATTTTAATGGTTAAATTTTAAAATT
48894588 GAATATAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 10 0.29
39 11 0.31
41 14 0.40
ACGTcount: A:0.37, C:0.04, G:0.06, T:0.53
Consensus pattern (39 bp):
TTAATATGACATTATTTTAATGGTTAAATTTTAAAATTT
Found at i:48894959 original size:8 final size:7
Alignment explanation
Indices: 48894941--48895173 Score: 62
Period size: 7 Copynumber: 32.4 Consensus size: 7
48894931 TAGACCAAAA
*
48894941 AAACTCT
1 AAACCCT
48894948 AAACCCCT
1 AAA-CCCT
*
48894956 AAACCTT
1 AAACCCT
*
48894963 AAATCCT
1 AAACCCT
*
48894970 AAAATCCT
1 -AAACCCT
*
48894978 AAACCAT
1 AAACCCT
48894985 AAACCCT
1 AAACCCT
*
48894992 AAACACTCAA
1 AAAC-C-C-T
48895002 AAACCCCT
1 AAA-CCCT
* *
48895010 AAATCCA
1 AAACCCT
48895017 AAACCCCT
1 AAA-CCCT
***
48895025 AAACTAG
1 AAACCCT
**
48895032 AAACTTT
1 AAACCCT
*
48895039 AAACACT
1 AAACCCT
*
48895046 AATCCCT
1 AAACCCT
48895053 AAACCCAT
1 AAACCC-T
*
48895061 AACCCCT
1 AAACCCT
*
48895068 AAACCTT
1 AAACCCT
**
48895075 AAACATT
1 AAACCCT
* *
48895082 AATCTCT
1 AAACCCT
48895089 AAA-CCT
1 AAACCCT
48895095 AAAACCCT
1 -AAACCCT
48895103 AAA--CT
1 AAACCCT
*
48895108 ACAAACCT
1 A-AACCCT
* **
48895116 ACACTGT
1 AAACCCT
48895123 AAACCCT
1 AAACCCT
*
48895130 AAACCTT
1 AAACCCT
48895137 AAATCCC-
1 AAA-CCCT
*
48895144 AAACCAT
1 AAACCCT
*
48895151 AAA-CAT
1 AAACCCT
**
48895157 GCACCCT
1 AAACCCT
48895164 AAACCCT
1 AAACCCT
48895171 AAA
1 AAA
48895174 TATATATATT
Statistics
Matches: 163, Mismatches: 47, Indels: 32
0.67 0.19 0.13
Matches are distributed among these distances:
5 3 0.02
6 10 0.06
7 107 0.66
8 36 0.22
9 2 0.01
10 4 0.02
11 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.19
Consensus pattern (7 bp):
AAACCCT
Found at i:48894978 original size:22 final size:22
Alignment explanation
Indices: 48894953--48894994 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
48894943 ACTCTAAACC
* *
48894953 CCTAAACCTTAAATCCTAAAAT
1 CCTAAACCATAAACCCTAAAAT
48894975 CCTAAACCATAAACCCTAAA
1 CCTAAACCATAAACCCTAAA
48894995 CACTCAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
CCTAAACCATAAACCCTAAAAT
Found at i:48894994 original size:14 final size:14
Alignment explanation
Indices: 48894975--48895078 Score: 50
Period size: 15 Copynumber: 7.0 Consensus size: 14
48894965 ATCCTAAAAT
48894975 CCTAAACCATAAAC
1 CCTAAACCATAAAC
*
48894989 CCTAAACACTCAAAAACC
1 CCT-AA-AC-CATAAA-C
48895007 CCTAAATCCA-AAACC
1 CCTAAA-CCATAAA-C
* *
48895022 CCTAAACTAGAAAC
1 CCTAAACCATAAAC
** *
48895036 TTTAAA-CACTAATC
1 CCTAAACCA-TAAAC
*
48895050 CCTAAACCCATAACC
1 CCTAAA-CCATAAAC
*
48895065 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
48895079 ATTAATCTCT
Statistics
Matches: 69, Mismatches: 12, Indels: 18
0.70 0.12 0.18
Matches are distributed among these distances:
13 1 0.01
14 23 0.33
15 26 0.38
16 7 0.10
17 8 0.12
18 4 0.06
ACGTcount: A:0.46, C:0.36, G:0.01, T:0.17
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:48895077 original size:36 final size:35
Alignment explanation
Indices: 48895032--48895106 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 35
48895022 CCTAAACTAG
* *
48895032 AAACTTTAAACACTAATCCCTAAACCCATAACCCCT
1 AAACCTTAAACACTAATCCCTAAACCCA-AAACCCT
* * *
48895068 AAACCTTAAACATTAATCTCTAAACCTAAAACCCT
1 AAACCTTAAACACTAATCCCTAAACCCAAAACCCT
48895103 AAAC
1 AAAC
48895107 TACAAACCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 10 0.29
36 24 0.71
ACGTcount: A:0.45, C:0.32, G:0.00, T:0.23
Consensus pattern (35 bp):
AAACCTTAAACACTAATCCCTAAACCCAAAACCCT
Done.