Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D09
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: 51526817
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 216316 characters in sequence are not A, C, G, or T
File 20 of 172
Found at i:4987547 original size:44 final size:43
Alignment explanation
Indices: 4987438--4987951 Score: 372
Period size: 44 Copynumber: 11.7 Consensus size: 43
4987428 ATTTGGCAGT
* * ** *
4987438 GGAA-TAGATTGAAGATTGCAGATCTTGTCTTCCCATATTGGTG
1 GGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-C
* * * *
4987481 GCGAAGTAGATCGCAGAAAGCAGATCTTATCTTCATGTATTGGC
1 G-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGC
* * * * *
4987525 GTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTA
1 G-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-C
* ** *
4987570 GGAAGTGGATCGAAGAT-GCAGATCTTGTCTTCCCAT-TTGGTG
1 GGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-C
* * *
4987612 GCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
1 G-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGC
* ** * *
4987656 GTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATATTGGTA
1 G-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-C
* * ** *
4987701 GGAAGTGGATCGACGAT-GCAGATCTTGTCTTCCCATATTGGTG
1 GGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-C
* * *
4987744 GCGAAGTAGATCGCAGAAAGCAGATCTTGTCTTCATGTATTGGC
1 G-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGC
* * * * ***
4987788 GTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTCATA
1 G-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATT-GGC
* * ** * *
4987833 GGAAGTGGATCCAAGATA-CAGATCTTGTCTTCCCATACTGGTG
1 GGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-C
* ** * *
4987876 GTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCCCATACTGGTG
1 G-GAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGG-C
*
4987921 GTGAAGTAGATCGAAGAAAGCAGATCTTGTC
1 G-GAAGTAGATCGAAGATAGCAGATCTTGTC
4987952 CCGTATTTGA
Statistics
Matches: 380, Mismatches: 78, Indels: 24
0.79 0.16 0.05
Matches are distributed among these distances:
42 6 0.02
43 69 0.18
44 192 0.51
45 113 0.30
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (43 bp):
GGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATATATTGGC
Found at i:4987802 original size:132 final size:132
Alignment explanation
Indices: 4987448--4987943 Score: 796
Period size: 132 Copynumber: 3.8 Consensus size: 132
4987438 GGAATAGATT
*
4987448 GAAGATTGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTATCT
1 GAAGA-TGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCT
* *
4987513 TCATGTATTGGCGTGAAGTAGATCGAAGGTAGCAGATCCTATCTTCCTATATTGGTAGGAAGTGG
65 TCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGG
4987578 ATC
130 ATC
4987581 GAAGATGCAGATCTTGTCTTCCCAT-TTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
**
4987645 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCGGTCTTCCTATATTGGTAGGAAGTGGA
66 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGA
4987710 TC
131 TC
*
4987712 GACGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
**
4987777 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTCATAGGAAGTGGA
66 CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGA
4987842 TC
131 TC
* * * * *
4987844 CAAGATACAGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTT
1 GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
*** * * *
4987909 CCCATACTGGTGGTGAAGTAGATCGAAGAAAGCAG
66 CATGTATTGG-CGTGAAGTAGATCGAAGATAGCAG
4987944 ATCTTGTCCC
Statistics
Matches: 339, Mismatches: 22, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
131 125 0.37
132 187 0.55
133 27 0.08
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (132 bp):
GAAGATGCAGATCTTGTCTTCCCATATTGGTGGCGAAGTAGATCGCAGAAAGCAGATCTTGTCTT
CATGTATTGGCGTGAAGTAGATCGAAGATAGCAGGTCCTATCTTCCTATATTGGTAGGAAGTGGA
TC
Found at i:4988170 original size:40 final size:40
Alignment explanation
Indices: 4988121--4988433 Score: 285
Period size: 40 Copynumber: 7.7 Consensus size: 40
4988111 AAACCACAGA
*
4988121 TCTTATCTCCCTAAGCAATAGTGGAGCGGATCGTATCAAG
1 TCTTATCTCCCTAAGCAATAGTGGAGCGGATCGAATCAAG
* * * * *
4988161 TCTTATCTCCCTAAGTAGTAGCGGAGCGGA-CAAAACCACAG
1 TCTTATCTCCCTAAGCAATAGTGGAGCGGATC-GAATCA-AG
*
4988202 ATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAG
1 -TCTTATCTCCCTAAGCAATAGTGGAGCGGATCGAATCAAG
* * * *
4988243 TCTTATCTCCCTAAGCAGTAGCGGAGCGGA-CAAAACCACAG
1 TCTTATCTCCCTAAGCAATAGTGGAGCGGATC-GAATCA-AG
* * **
4988284 ATCTTATCTCCCTAAGCAATAGTGGAACAGATCGCTTCAAG
1 -TCTTATCTCCCTAAGCAATAGTGGAGCGGATCGAATCAAG
* * *
4988325 TCTTATCTCCCCAAGCAATAGTGGAGCAGA-CAGAACCACAG
1 TCTTATCTCCCTAAGCAATAGTGGAGCGGATC-GAATCA-AG
* ** *
4988366 ATCTTAT-TCCCCTAAGCAGTAGTGGAGTAGATC-ACATCCAG
1 -TCTTATCT-CCCTAAGCAATAGTGGAGCGGATCGA-ATCAAG
*
4988407 TCTTATCTCCCTAAGCAGTAGTGGAGC
1 TCTTATCTCCCTAAGCAATAGTGGAGC
4988434 AGACTAAAAC
Statistics
Matches: 222, Mismatches: 36, Indels: 30
0.77 0.12 0.10
Matches are distributed among these distances:
39 3 0.01
40 116 0.52
41 15 0.07
42 85 0.38
43 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (40 bp):
TCTTATCTCCCTAAGCAATAGTGGAGCGGATCGAATCAAG
Found at i:4988206 original size:82 final size:82
Alignment explanation
Indices: 4988110--4988452 Score: 499
Period size: 82 Copynumber: 4.2 Consensus size: 82
4988100 GAATAGAGTG
* *
4988110 AAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGTATCAAGTCTTATCTCCCTAA
1 AAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAA
* *
4988175 GTAGTAGCGGAGCGGAC
66 GCAGTAGCGGAGCAGAC
*
4988192 AAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCGGATCGCATCAAGTCTTATCTCCCTAA
1 AAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAA
*
4988257 GCAGTAGCGGAGCGGAC
66 GCAGTAGCGGAGCAGAC
* * *
4988274 AAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAACAGATCGCTTCAAGTCTTATCTCCCCAA
1 AAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAA
* *
4988339 GCAATAGTGGAGCAGAC
66 GCAGTAGCGGAGCAGAC
* * * * *
4988356 AGAACCACAGATCTTAT-TCCCCTAAGCAGTAGTGGAGTAGATCACATCCAGTCTTATCTCCCTA
1 AAAACCACAGATCTTATCT-CCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTA
*
4988420 AGCAGTAGTGGAGCAGAC
65 AGCAGTAGCGGAGCAGAC
*
4988438 TAAAACCACAAATCT
1 -AAAACCACAGATCT
4988453 CATCCTCATG
Statistics
Matches: 239, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
81 1 0.00
82 226 0.95
83 12 0.05
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (82 bp):
AAAACCACAGATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGCATCAAGTCTTATCTCCCTAA
GCAGTAGCGGAGCAGAC
Found at i:4992317 original size:21 final size:22
Alignment explanation
Indices: 4992286--4992329 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4992276 TTAGAGTGTT
* *
4992286 AGTCCTATGAATAATGGAGTCA
1 AGTCCTATGAACAATAGAGTCA
4992308 AGTCC-ATGAACAATAGAGTCA
1 AGTCCTATGAACAATAGAGTCA
4992329 A
1 A
4992330 ATAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (22 bp):
AGTCCTATGAACAATAGAGTCA
Found at i:5000769 original size:3 final size:3
Alignment explanation
Indices: 5000761--5000807 Score: 85
Period size: 3 Copynumber: 15.7 Consensus size: 3
5000751 GAATTAGTCC
*
5000761 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
5000808 CCTATTTATT
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:5000808 original size:12 final size:12
Alignment explanation
Indices: 5000760--5000813 Score: 81
Period size: 12 Copynumber: 4.4 Consensus size: 12
5000750 TGAATTAGTC
5000760 CTATTATTATTA
1 CTATTATTATTA
*
5000772 TTATTATTATTA
1 CTATTATTATTA
*
5000784 TTATTATTATTA
1 CTATTATTATTA
5000796 CTATTATTATTA
1 CTATTATTATTA
5000808 CCTATT
1 -CTATT
5000814 TATTTATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
12 34 0.87
13 5 0.13
ACGTcount: A:0.31, C:0.07, G:0.00, T:0.61
Consensus pattern (12 bp):
CTATTATTATTA
Found at i:5001301 original size:22 final size:23
Alignment explanation
Indices: 5001248--5001301 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
5001238 AAATATACTT
*
5001248 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
5001271 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
5001293 TATATATAT
1 TATATATAT
5001302 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:5007599 original size:21 final size:22
Alignment explanation
Indices: 5007568--5007611 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
5007558 TTAGAGTGTT
* *
5007568 AGTCCTATGAATAATGGAGTCA
1 AGTCCTATGAACAATAGAGTCA
5007590 AGTCC-ATGAACAATAGAGTCA
1 AGTCCTATGAACAATAGAGTCA
5007611 A
1 A
5007612 ATAATAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (22 bp):
AGTCCTATGAACAATAGAGTCA
Found at i:5020277 original size:3 final size:3
Alignment explanation
Indices: 5020269--5020318 Score: 91
Period size: 3 Copynumber: 16.7 Consensus size: 3
5020259 GAATTAGTCC
*
5020269 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
5020317 TA
1 TA
5020319 CCTATTTATT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:5020319 original size:12 final size:12
Alignment explanation
Indices: 5020272--5020324 Score: 79
Period size: 12 Copynumber: 4.3 Consensus size: 12
5020262 TTAGTCCTAT
*
5020272 TATTATTATTAT
1 TATTATTATTAC
*
5020284 TATTATTATTAT
1 TATTATTATTAC
5020296 TATTATTATTAC
1 TATTATTATTAC
5020308 TATTATTATTACC
1 TATTATTATTA-C
5020321 TATT
1 TATT
5020325 TATTTATATT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
12 34 0.87
13 5 0.13
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:5020815 original size:22 final size:23
Alignment explanation
Indices: 5020762--5020815 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
5020752 AAATATACTT
*
5020762 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
5020785 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
5020807 TATATATAT
1 TATATATAT
5020816 CTTTTTATAC
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:5032998 original size:50 final size:50
Alignment explanation
Indices: 5032944--5033118 Score: 244
Period size: 50 Copynumber: 3.5 Consensus size: 50
5032934 TGCAATTAAA
* * *
5032944 AGATTGAAGCTACGACAGCGGATCTCACTTTCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTCACTTTCCTAGCATTGCAATGGAAC
* * * ** *
5032994 AGATTGAAGCTACAATAGCGGATCTTACTTCCCT-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTCACTTTCCTAG-CATTGCAATGGAAC
5033044 AGATTGAAGCTACAACAGCGGATCTCACTTTCCTAGCATTGCAATGGAAC
1 AGATTGAAGCTACAACAGCGGATCTCACTTTCCTAGCATTGCAATGGAAC
*
5033094 AGATTGAAGCTACAGCAGCGGATCT
1 AGATTGAAGCTACAACAGCGGATCT
5033119 TGCTTCCCCG
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 1 0.01
50 105 0.98
51 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.25
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTCACTTTCCTAGCATTGCAATGGAAC
Found at i:5033114 original size:100 final size:100
Alignment explanation
Indices: 5032933--5033373 Score: 439
Period size: 100 Copynumber: 4.4 Consensus size: 100
5032923 AAACCATAGT
* * * * * *
5032933 TTGCAA-TTAAAAGATTGAAGCTACGACAGCGGATCTCACTTTCCTAGCGTTGCAGTGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGA
* * *
5032997 TTGAAGCTACAATAGCGGATCTTACTTCCCTGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * * * * *
5033032 TTGCAATTAAAAAGATTGAAGCTACAACAGCGGATCTCACTTTCCTAGCATTGCAATGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGA
* * *
5033097 TTGAAGCTACAGCAGCGGATCTTGCTTCCCCGACA
66 TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
* * * * *
5033132 TGGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTA-TCTCCCCAG-GTGATGCAGTGGAAA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACT-TTCCTAGCAT--TGCAGTGG-AA
* * **
5033195 CAGATTGAAG-TCACAAC-GACGAATCTTGCGTCCCTAACA
62 CAGATTGAAGCT-ACAACAG-CGAATCTTACTTCCCCGACA
* * * *
5033234 TTGCAATTTAAAAGATCGAAGCCACAACGGTGAATCTTA-TTT-TTGGCGA-TGCAGTGGAACAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTAGC-ATTGCAGTGGAACAG
** * *
5033296 ATTGAAGCTACAATGGCAAATCTCACTTCCCCGACA
65 ATTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
*
5033332 TTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTT
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTT
5033374 CCAGGCGACG
Statistics
Matches: 289, Mismatches: 41, Indels: 24
0.82 0.12 0.07
Matches are distributed among these distances:
98 68 0.24
99 20 0.07
100 123 0.43
101 10 0.03
102 68 0.24
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTTCCTAGCATTGCAGTGGAACAGA
TTGAAGCTACAACAGCGAATCTTACTTCCCCGACA
Found at i:5033138 original size:50 final size:50
Alignment explanation
Indices: 5032944--5033375 Score: 207
Period size: 50 Copynumber: 8.6 Consensus size: 50
5032934 TGCAATTAAA
* * * * * *
5032944 AGATTGAAGCTACGACAGCGGATCTCACTT-TCCTAGCGTTGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCCGA-CATTGCAATGGAAC
* * ** *
5032994 AGATTGAAGCTACAATAGCGGATCTTACTTCCCTGACATTGCAATTAAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAATGGAAC
* * *
5033044 AGATTGAAGCTACAACAGCGGATCTCACTT-TCCTAGCATTGCAATGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCCGA-CATTGCAATGGAAC
* * * ** *
5033094 AGATTGAAGCTACAGCAGCGGATCTTGCTTCCCCGACATGGCAATTTAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAATGGAAC
* * * * ** *
5033144 AGATTGAGGCCACAACGGCGAATCTTA-TCTCCCC-AGGTGATGCAGTGGAAAC
1 AGATTGAAGCTACAACAGCGGATCTTACT-TCCCCGACAT--TGCAATGG-AAC
* * * ** ** *
5033196 AGATTGAAG-TCACAAC-GACGAATCTTGCGTCCCTAACATTGCAATTTAAA
1 AGATTGAAGCT-ACAACAG-CGGATCTTACTTCCCCGACATTGCAATGGAAC
* * * * * *** * *
5033246 AGATCGAAGCCACAACGGTGAATCTTA-TT-TTTGGCGA-TGCAGTGGAAC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCCGAC-ATTGCAATGGAAC
** ** * ** *
5033294 AGATTGAAGCTACAATGGCAAATCTCACTTCCCCGACATTGCAATTTAAA
1 AGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAATGGAAC
* * * *
5033344 AGATCGAAGCCACAACGGCGAATCTTACTTCC
1 AGATTGAAGCTACAACAGCGGATCTTACTTCC
5033376 AGGCGACGCA
Statistics
Matches: 281, Mismatches: 84, Indels: 34
0.70 0.21 0.09
Matches are distributed among these distances:
48 30 0.11
49 10 0.04
50 196 0.70
51 16 0.06
52 27 0.10
53 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACAACAGCGGATCTTACTTCCCCGACATTGCAATGGAAC
Found at i:5033305 original size:200 final size:199
Alignment explanation
Indices: 5032983--5033418 Score: 479
Period size: 200 Copynumber: 2.2 Consensus size: 199
5032973 TTCCTAGCGT
* * * *
5032983 TGCAGTGG-AACAGATTGAAGCTACAA-TAGCGGATCTTACTTCCCTGACATTGCAATTAAAAAG
1 TGCAGTGGAAACAGATTGAAGC-ACAACGA-CGAATCTTACGTCCCTAACATTGCAATTAAAAAG
* * * *
5033046 ATTGAAGCTACAACAGCGGATCTCACTTTCCTAGCATTGCAATGGAACAGATTGAAGCTACAGCA
64 ATCGAAGCCACAACAGCGAATCTCACTTTCCTAGCATTGCAATGGAACAGATTGAAGCTACAACA
** ** * *
5033111 GCGGATCTTGCTTCCCCGACATGGCAATTTAAAAGATTGAGGCCACAACGGCGAATCTTATCTCC
129 GCAAATCTCACTTCCCCGACATGGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTA-CT-C
*
5033176 CCAGGTGA
192 CCAGGCGA
* *
5033184 TGCAGTGGAAACAGATTGAAGTCACAACGACGAATCTTGCGTCCCTAACATTGCAATTTAAAAGA
1 TGCAGTGGAAACAGATTGAAG-CACAACGACGAATCTTACGTCCCTAACATTGCAATTAAAAAGA
* * * * * * **
5033249 TCGAAGCCACAACGGTGAATCTTA-TTT-TTGGCGA-TGCAGTGGAACAGATTGAAGCTACAATG
65 TCGAAGCCACAACAGCGAATCTCACTTTCCTAGC-ATTGCAATGGAACAGATTGAAGCTACAACA
* *
5033311 GCAAATCTCACTTCCCCGACATTGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTTCC
129 GCAAATCTCACTTCCCCGACATGGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTCCC
5033376 AGGCGA
194 AGGCGA
* * * * *
5033382 CGCAG-CGAAATAGATTGAAGCCTCAACGGCGAATCTT
1 TGCAGTGGAAACAGATTGAAG-CACAACGACGAATCTT
5033419 TTCCTCGGCA
Statistics
Matches: 198, Mismatches: 33, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
197 27 0.14
198 11 0.06
199 2 0.01
200 80 0.40
201 12 0.06
202 64 0.32
203 2 0.01
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.23
Consensus pattern (199 bp):
TGCAGTGGAAACAGATTGAAGCACAACGACGAATCTTACGTCCCTAACATTGCAATTAAAAAGAT
CGAAGCCACAACAGCGAATCTCACTTTCCTAGCATTGCAATGGAACAGATTGAAGCTACAACAGC
AAATCTCACTTCCCCGACATGGCAATTTAAAAGATCGAAGCCACAACGGCGAATCTTACTCCCAG
GCGA
Found at i:5034790 original size:3 final size:3
Alignment explanation
Indices: 5034782--5034807 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5034772 GAATTAGTCC
5034782 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
5034808 CCTATTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:5035302 original size:22 final size:23
Alignment explanation
Indices: 5035249--5035302 Score: 56
Period size: 22 Copynumber: 2.4 Consensus size: 23
5035239 AAATATACTT
*
5035249 TATATATTTTGTTAATTCATGTA
1 TATATATATTGTTAATTCATGTA
* * * *
5035272 TACACATATT-TTAGTTCATGTC
1 TATATATATTGTTAATTCATGTA
5035294 TATATATAT
1 TATATATAT
5035303 CTTTTATACT
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.52
Consensus pattern (23 bp):
TATATATATTGTTAATTCATGTA
Found at i:5038165 original size:29 final size:29
Alignment explanation
Indices: 5038114--5038171 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
5038104 TTATATAGAT
*
5038114 CGGATCAAATTAGACATTCTATTACTAAA
1 CGGATCAAATTAGACATTATATTACTAAA
* *
5038143 CGGATCAATTTAGTAC-TTATATTATTAAA
1 CGGATCAAATTAG-ACATTATATTACTAAA
5038172 ATAATCAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (29 bp):
CGGATCAAATTAGACATTATATTACTAAA
Found at i:5040597 original size:19 final size:19
Alignment explanation
Indices: 5040552--5040588 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5040542 CTCTCTCAAC
*
5040552 AAAAAA-TTAAAAAATTCA
1 AAAAAATTTGAAAAATTCA
5040570 AAAAAATTTGAAAAATTCA
1 AAAAAATTTGAAAAATTCA
5040589 CAATAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.68, C:0.05, G:0.03, T:0.24
Consensus pattern (19 bp):
AAAAAATTTGAAAAATTCA
Found at i:5060356 original size:17 final size:16
Alignment explanation
Indices: 5060320--5060354 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
5060310 ACAGGTTCAA
5060320 TTATTAACTTATTTATT
1 TTATTAA-TTATTTATT
*
5060337 TTATTAATTGTTTATT
1 TTATTAATTATTTATT
5060353 TT
1 TT
5060355 TAATAATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (16 bp):
TTATTAATTATTTATT
Found at i:5060942 original size:9 final size:9
Alignment explanation
Indices: 5060916--5061019 Score: 59
Period size: 9 Copynumber: 11.0 Consensus size: 9
5060906 TATAACAAAT
5060916 AAAATTAATA
1 AAAATT-ATA
*
5060926 AAAGTTATA
1 AAAATTATA
5060935 AAAATTATA
1 AAAATTATA
**
5060944 AATTTTATTA
1 AAAATTA-TA
5060954 AAAA-TATAA
1 AAAATTAT-A
*
5060963 AAAATATTTA
1 AAAAT-TATA
**
5060973 AATTTTAGTA
1 AAAATTA-TA
*
5060983 AAAATTAGAA
1 AAAATTA-TA
5060993 AAAATTATA
1 AAAATTATA
*
5061002 AAATCTTA-A
1 AAA-ATTATA
5061011 AAAATTATA
1 AAAATTATA
5061020 GAACATATTG
Statistics
Matches: 71, Mismatches: 16, Indels: 15
0.70 0.16 0.15
Matches are distributed among these distances:
8 4 0.06
9 33 0.46
10 32 0.45
11 2 0.03
ACGTcount: A:0.61, C:0.01, G:0.03, T:0.36
Consensus pattern (9 bp):
AAAATTATA
Found at i:5060974 original size:29 final size:29
Alignment explanation
Indices: 5060934--5061003 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
5060924 TAAAAGTTAT
*
5060934 AAAAATTATAAATTTTATTAAAAATATA-A
1 AAAAATTATAAATTTTAGTAAAAAT-TAGA
5060963 AAAATATT-TAAATTTTAGTAAAAATTAGA
1 AAAA-ATTATAAATTTTAGTAAAAATTAGA
5060992 AAAAATTATAAA
1 AAAAATTATAAA
5061004 ATCTTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
28 5 0.14
29 29 0.78
30 3 0.08
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
AAAAATTATAAATTTTAGTAAAAATTAGA
Found at i:5061043 original size:58 final size:57
Alignment explanation
Indices: 5060934--5061043 Score: 125
Period size: 58 Copynumber: 1.9 Consensus size: 57
5060924 TAAAAGTTAT
* * *
5060934 AAAAATTATAAATTTTATTAAAAATATAAAAAATATTTAAATTTTAGTAAAAATTAGA
1 AAAAATTATAAATCTTA-TAAAAATATAAAAAATATTGAAATTATAGTAAAAATTAGA
* *
5060992 AAAAATTATAAAATCTTA-AAAAATTATAGAACATATTGAAATATATA-TAAAA
1 AAAAATTAT-AAATCTTATAAAAA-TATAAAAAATATTGAAAT-TATAGTAAAA
5061044 TTATAAGAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
57 5 0.11
58 29 0.66
59 10 0.23
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (57 bp):
AAAAATTATAAATCTTATAAAAATATAAAAAATATTGAAATTATAGTAAAAATTAGA
Found at i:5068949 original size:21 final size:21
Alignment explanation
Indices: 5068925--5068965 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
5068915 CGTCAGTCCT
*
5068925 ATGAATAATGGAGTCAAATCC
1 ATGAACAATGGAGTCAAATCC
5068946 ATGAACAATGGAGTCAAATC
1 ATGAACAATGGAGTCAAATC
5068966 ATAAATAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.20, T:0.22
Consensus pattern (21 bp):
ATGAACAATGGAGTCAAATCC
Found at i:5075318 original size:105 final size:105
Alignment explanation
Indices: 5075128--5075917 Score: 807
Period size: 105 Copynumber: 7.3 Consensus size: 105
5075118 GTATACAGGG
* * * ** ** *
5075128 AAAAAAATTTTGGTGGTGGCCTGGC-ATAGCCGGCACCACCTTTATGTAAA--AAAAATTACTTT
1 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTATTTTACATT
* * *
5075190 TTGGGTTGTCATTGGCCAGCACCAGTGTACGAAAAAATTA
66 TTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTA
* *
5075230 AAAAAAAATTTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTACATT
1 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTATTTTACATT
* *
5075295 TCGGGTTGTCATTGGCCGGCACCAGTATACGAAAAAATTA
66 TTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTA
* *
5075335 AAAAAAAAATTGGTGGTGGCTTGCCAATGGCCGGCACCACCTTTATGTAAAAAAATAATTTATTT
1 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGT----AAAT--TTTATTT
* * *
5075400 TACATTTTGGGCTGTCATTGGCTGGCACCAGTATATGAAAAACTATA
60 TACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAAT-TA
****** * * * *** *
5075447 AATTTTTTTTTGGTGGTGGCCTGGCAATGGTCGGCACCACCTTTATATAAA-AAAAATTTACATT
1 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTATTTTACATT
* *
5075511 TTGGGCTGTCATTAGCCGGCACCAATATACGAAAAAATTTAAAAA
66 TTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAA-TT----A
*
5075556 AAAAAAAATTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAAAAATAGTTTTTTT
1 AAAAAAAA-TTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGT----AA-A--TTTTAT
*
5075621 TTTACATTTTGGGCTGTCATTGGCCGACACCAGTATACGAAAAAATTTTA
58 TTTACATTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAA--TTA
* * * **** * *
5075671 AAAAAAAATTCGGTGGTGGCTTGCAAATGGCCGGCACCACCTTTATGTAAAAAAAAATTTACAAT
1 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTATTTTACATT
** *
5075736 TTGAACTGTCATTGGCCGACACCAGTATACGAAAAAATTA
66 TTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTA
* * * *
5075776 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCAGGCACCAACTTTATGTAATTTTTTTTTTTTACA
1 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAA--ATTTTATTTTACA
* * *
5075841 TTTTGGGCTGTCATTGGCCAGCACTAGTGTACGAAAAAATT-
64 TTTTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTA
**
5075882 AAAAAAAATTTGGTGGTGGTTTGCCAATGGCCGGCA
1 AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCA
5075918 TCAAATTTAT
Statistics
Matches: 570, Mismatches: 91, Indels: 50
0.80 0.13 0.07
Matches are distributed among these distances:
102 22 0.04
103 24 0.04
105 180 0.32
106 34 0.06
107 82 0.14
108 3 0.01
109 8 0.01
110 39 0.07
111 45 0.08
112 39 0.07
114 39 0.07
115 10 0.02
118 42 0.07
119 3 0.01
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.31
Consensus pattern (105 bp):
AAAAAAAATTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTATTTTACATT
TTGGGCTGTCATTGGCCGGCACCAGTATACGAAAAAATTA
Found at i:5076912 original size:52 final size:53
Alignment explanation
Indices: 5076842--5076943 Score: 172
Period size: 52 Copynumber: 1.9 Consensus size: 53
5076832 TTTCTTCTGT
*
5076842 TAATTTTTACTTAATTTAAAATTATTCTGTAAATATTTC-TTTTATTTTTAAA
1 TAATTTTTAATTAATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTTAAA
5076894 TAATTATTTAATT-ATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTT
1 TAATT-TTTAATTAATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTT
5076944 TCCTGTTAAT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
52 31 0.66
53 16 0.34
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (53 bp):
TAATTTTTAATTAATTTAAAATTATTCTGTAAATATTTCTTTTTATTTTTAAA
Found at i:5077990 original size:104 final size:103
Alignment explanation
Indices: 5077675--5078605 Score: 806
Period size: 104 Copynumber: 8.8 Consensus size: 103
5077665 AGTTTAATGA
* * *
5077675 CGGCCATTGGTAGGCCATCGGA-AAATTTTTTT--TATTTTTTCGTATACTGGTGCCGGCCAATG
1 CGGCCATTGGCAGGCCA-C-CACAAATTTTTTTAAAATTTTTTCGTATACTGGTGCCGGCCAATG
* * *
5077737 ACAGCACAAAATGTAAAAAAAAATTACATAAAGGTGGTGT
64 ACAGCCCAAAATGTAAAAAAAATTTACATAAAGGTGGTGC
* ** ***
5077777 CGGGCATTGGCAGGCCACCACCAAAATTTTTTTTTCAATTTTTTAAAATACTGGTGCCGGCCAAT
1 CGGCCATTGGCAGGCCACCA-C-AAA-TTTTTTTAAAATTTTTTCGTATACTGGTGCCGGCCAAT
*
5077842 GACAGCCCAAAATGTAAAAAAAAATTATTTTTTTACATAAAGGTGGTGT
63 GACAGCCCAAAATGT--AAAAAAA--A----TTTACATAAAGGTGGTGC
* *
5077891 CGGCCATTGGCAGGCCACCACAAATTTTTTTAAAAATTTTTTCGTATACTAGTGTCGGCCAATGA
1 CGGCCATTGGCAGGCCACCACAAATTTTTTT-AAAATTTTTTCGTATACTGGTGCCGGCCAATGA
* ***** *
5077956 CAGCCCAAAATGTATATTTTTTTTACATAAAGGTGGTGT
65 CAGCCCAAAATGTAAAAAAAATTTACATAAAGGTGGTGC
* * *
5077995 CGGCTATTGTCAGGCCACCACCAAAACAATTTTTTTTTTAAAAATTCTTTCGTATACTGGTGCCG
1 CGGCCATTGGCAGGCCACCA-C---A-AA---TTTTTTT-AAAATTTTTTCGTATACTGGTGCCG
** * * *
5078060 GCTGATGATAGCCCAAAATGTAAAAAAAAATTACATAAAGGTGGCGC
57 GCCAATGACAGCCCAAAATGTAAAAAAAATTTACATAAAGGTGGTGC
* ** ** * * * ** *
5078107 CGACCATTGGCAACCCACCACAAAATTTTTTTTTATTTTTTTTGTTTACTGGAACCGACCAATGA
1 CGGCCATTGGCAGGCCACCAC-AAATTTTTTTAAAATTTTTTCGTATACTGGTGCCGGCCAATGA
**
5078172 CAGTTCAAAATGTAAAAAAAATTTACATAAAGGTGGTGC
65 CAGCCCAAAATGTAAAAAAAATTTACATAAAGGTGGTGC
* * *
5078211 CGACCATTGGCAGGCCACCACCAAAAAACAAATTTTTTT--TACTTTTTCGTATACTGGTGCCGG
1 CGGCCATTGGCAGG---CCACC-----ACAAATTTTTTTAAAATTTTTTCGTATACTGGTGCCGG
*** * *****
5078274 CCAATGACATTTCAAAATGTTAATTTTTTTTACATAAAGGTGGTGC
58 CCAATGACAGCCCAAAATGTAAAAAAAATTTACATAAAGGTGGTGC
* * * * * *
5078320 CGGCCATTGGCAAGCCACTAAAAATTTTTTTTAAAATTTTTTCCTATACTGGTGCCAGCCAATAA
1 CGGCCATTGGCAGGCCACCACAAA-TTTTTTTAAAATTTTTTCGTATACTGGTGCCGGCCAATGA
*
5078385 CAGCCCAAAATGTAAAAAAAATTTACAAAAAGGTGGTGC
65 CAGCCCAAAATGTAAAAAAAATTTACATAAAGGTGGTGC
* *
5078424 CGGCCATTGGCAGGCCACCACCAGAA---TTTT----TTTTTTCATATACTGGTGCCGACCAATG
1 CGGCCATTGGCAGGCCACCA-CA-AATTTTTTTAAAATTTTTTCGTATACTGGTGCCGGCCAATG
5078482 ACAGCCCAAAATGTAAAAAAAAATTTACATAAAGGTGGTGC
64 ACAGCCCAAAATGT-AAAAAAAATTTACATAAAGGTGGTGC
* * * **
5078523 CGGCCATTGCCAGGCCACCACCAAATTTTTTTTTTAAATTTTTTCGTATACTGGTACCACCCAAT
1 CGGCCATTGGCAGGCCACCA-CAAA--TTTTTTTAAAATTTTTTCGTATACTGGTGCCGGCCAAT
5078588 GACAGCCCAAAATGTAAA
63 GACAGCCCAAAATGTAAA
5078606 CAAATAATAA
Statistics
Matches: 673, Mismatches: 110, Indels: 88
0.77 0.13 0.10
Matches are distributed among these distances:
98 40 0.06
99 47 0.07
100 1 0.00
101 5 0.01
102 26 0.04
103 7 0.01
104 184 0.27
105 9 0.01
106 48 0.07
107 43 0.06
108 10 0.01
109 71 0.11
110 3 0.00
111 18 0.03
112 124 0.18
113 1 0.00
114 36 0.05
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (103 bp):
CGGCCATTGGCAGGCCACCACAAATTTTTTTAAAATTTTTTCGTATACTGGTGCCGGCCAATGAC
AGCCCAAAATGTAAAAAAAATTTACATAAAGGTGGTGC
Found at i:5078351 original size:213 final size:210
Alignment explanation
Indices: 5077700--5078605 Score: 922
Period size: 213 Copynumber: 4.3 Consensus size: 210
5077690 CATCGGAAAA
* * *
5077700 TTTTTTTT-ATTTTTTCGTATACTGGTGCCGGCCAATGACAGCACAAAATGTAAAAAAAAATTAC
1 TTTTTTTTAATTTTTTCGTATACTGGTGCCGACCAATGACAGCCCAAAATGTAAAAAAAATTTAC
* * * * *
5077764 ATAAAGGTGGTGTCGGGCATTGGCAGGCCACCACCAAAATTTTTTTTTCAATTTTTTAAAATACT
66 ATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAATTTTTTTT-AA-TTTTTCATATACT
*
5077829 GGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATTATTTTTTTACATAAAGGTGGTGTCGG
129 GGTGCCGGCCAATGACAGCCCAAAATGT-AAAAAAAA--A----TTTACATAAAGGTGGTGCCGG
*
5077894 CCATTGGCAGGCCACCAC-AAATT
187 CCATTGGCAAGCCACCACAAAATT
*** * * * * *****
5077917 TTTTTAAAAATTTTTTCGTATACTAGTGTCGGCCAATGACAGCCCAAAATGTATATTTTTTTTAC
1 TTTTTTTTAATTTTTTCGTATACTGGTGCCGACCAATGACAGCCCAAAATGTAAAAAAAATTTAC
* * * *
5077982 ATAAAGGTGGTGTCGGCTATTGTCAGGCCACCACCAAAACAATTTTTTTTTTAAAAATTCTTTCG
66 ATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC-AAA-AA--TTTTTTTT---AATT-TTTCA
** * * *
5078047 TATACTGGTGCCGGCTGATGATAGCCCAAAATGTAAAAAAAAA-TTACATAAAGGTGGCGCCGAC
123 TATACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATTTACATAAAGGTGGTGCCGGC
*
5078111 CATTGGCAACCCACCACAAAA-T
188 CATTGGCAAGCCACCACAAAATT
* * * ** **
5078133 TTTTTTTTATTTTTTTTGTTTACTGGAACCGACCAATGACAGTTCAAAATGTAAAAAAAATTTAC
1 TTTTTTTTAATTTTTTCGTATACTGGTGCCGACCAATGACAGCCCAAAATGTAAAAAAAATTTAC
* * *
5078198 ATAAAGGTGGTGCCGACCATTGGCAGGCCACCACCAAAAAACAAATTTTTTTTACTTTTTCGTAT
66 ATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC----AA-AAATTTTTTTTAATTTTTCATAT
*** * *****
5078263 ACTGGTGCCGGCCAATGACATTTCAAAATGT-TAATTTTTTTTACATAAAGGTGGTGCCGGCCAT
126 ACTGGTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATTTACATAAAGGTGGTGCCGGCCAT
*
5078327 TGGCAAGCCACTA-AAAATT
191 TGGCAAGCCACCACAAAATT
** * *
5078346 TTTTTTAAAATTTTTTCCTATACTGGTGCC-AGCCAATAACAGCCCAAAATGTAAAAAAAATTTA
1 TTTTTTTTAATTTTTTCGTATACTGGTGCCGA-CCAATGACAGCCCAAAATGTAAAAAAAATTTA
* *
5078410 CAAAAAGGTGGTGCCGGCCATTGGCAGGCCACCACC-AGAA---TTTTT--TTTTTCATATACTG
65 CATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAATTTTTTTTAATTTTTCATATACTG
* *
5078469 GTGCCGACCAATGACAGCCCAAAATGTAAAAAAAAATTTACATAAAGGTGGTGCCGGCCATTGCC
130 GTGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATTTACATAAAGGTGGTGCCGGCCATTGGC
* *
5078534 AGGCCACCACCAAATT
195 AAGCCACCACAAAATT
*
5078550 TTTTTTTTAAATTTTTTCGTATACTGGTACC-ACCCAATGACAGCCCAAAATGTAAA
1 TTTTTTTT-AATTTTTTCGTATACTGGTGCCGA-CCAATGACAGCCCAAAATGTAAA
5078606 CAAATAATAA
Statistics
Matches: 566, Mismatches: 104, Indels: 50
0.79 0.14 0.07
Matches are distributed among these distances:
202 36 0.06
203 37 0.07
204 16 0.03
205 43 0.08
207 2 0.00
208 1 0.00
212 7 0.01
213 152 0.27
214 3 0.01
216 111 0.20
217 16 0.03
218 78 0.14
219 8 0.01
220 2 0.00
221 1 0.00
222 8 0.01
223 10 0.02
224 35 0.06
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (210 bp):
TTTTTTTTAATTTTTTCGTATACTGGTGCCGACCAATGACAGCCCAAAATGTAAAAAAAATTTAC
ATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAAAAATTTTTTTTAATTTTTCATATACTGG
TGCCGGCCAATGACAGCCCAAAATGTAAAAAAAAATTTACATAAAGGTGGTGCCGGCCATTGGCA
AGCCACCACAAAATT
Found at i:5078530 original size:99 final size:97
Alignment explanation
Indices: 5078356--5078557 Score: 334
Period size: 98 Copynumber: 2.1 Consensus size: 97
5078346 TTTTTTAAAA
*
5078356 TTTTTTCCTATACTGGTGCCAGCCAATAACAGCCCAAAATGTAAAAAAAATTTACAAAAAGGTGG
1 TTTTTTCATATACTGGTGCCAGCCAATAACAGCCCAAAATGTAAAAAAAATTTACAAAAAGGTGG
*
5078421 TGCCGGCCATTGGCAGGCCACCACCAGAATTTT
66 TGCCGGCCATTGCCAGGCCACCACCA-AATTTT
* *
5078454 TTTTTTCATATACTGGTGCC-GACCAATGACAGCCCAAAATGTAAAAAAAAATTTACATAAAGGT
1 TTTTTTCATATACTGGTGCCAG-CCAATAACAGCCCAAAATGT-AAAAAAAATTTACAAAAAGGT
5078518 GGTGCCGGCCATTGCCAGGCCACCACCAAATTTT
64 GGTGCCGGCCATTGCCAGGCCACCACCAAATTTT
5078552 TTTTTT
1 TTTTTT
5078558 AAATTTTTTC
Statistics
Matches: 98, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
97 1 0.01
98 50 0.51
99 47 0.48
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (97 bp):
TTTTTTCATATACTGGTGCCAGCCAATAACAGCCCAAAATGTAAAAAAAATTTACAAAAAGGTGG
TGCCGGCCATTGCCAGGCCACCACCAAATTTT
Found at i:5079129 original size:108 final size:108
Alignment explanation
Indices: 5078969--5079392 Score: 631
Period size: 108 Copynumber: 3.9 Consensus size: 108
5078959 AAGATATAAG
* *
5078969 AGGATATTTGGCTATTTGGTCCAACG--AGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
5079032 GAATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTATTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATT-TTAAA
* *
5079076 AGGATATTTGGCTATTTGGTCGAACG-AGAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTC
1 AGGATATTTGGCTATTTGGTCGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
* * * * *
5079140 AAATCTCCAAACGCAAAATATTACCTTACTTTGAAAATTTAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTAAA
* *
5079183 AGGATATTTAGCTATTTGGTCGAACGAAAAAAAATCGAAACCCAGCACATTAGGACACGTTTTCT
1 AGGATATTTGGCTATTTGGTCGAACG-AAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCT
* *
5079248 C-AGATTTCCAAAGGCAAAACATTGCCTTACTTTGAAATTTTAAT
65 CGA-ATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTAAA
* * *
5079292 AGGATATTTTGCTATTTGGTCGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACATTTTCTA
1 AGGATATTTGGCTATTTGGTCGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
*
5079357 GAATTTCCAAACGCAAAATATTGCCTTACTTTGAAA
66 GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAA
5079393 AATTTTCCTT
Statistics
Matches: 286, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
107 55 0.19
108 135 0.47
109 96 0.34
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (108 bp):
AGGATATTTGGCTATTTGGTCGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACGTTTTCTC
GAATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTTTAAA
Found at i:5079372 original size:217 final size:214
Alignment explanation
Indices: 5078969--5079393 Score: 658
Period size: 217 Copynumber: 2.0 Consensus size: 214
5078959 AAGATATAAG
* * *
5078969 AGGATATTTGGCTATTTGGTCCAACGAGAAATCGAAACCCAGCACATTAGGGCACGTTTTCTCGA
1 AGGATATTTAGCTATTTGGTCCAACGAAAAATCGAAACCCAGCACATTAGGACACGTTTTCTCGA
*
5079034 ATTTCCAAACGCAAAACATTGCCTTATTTTGAAATTATTAAAAGGATATTTGGCTATTTGGTCGA
66 ATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAAAGGATATTTGGCTATTTGGTCGA
* **
5079099 ACGAGAAAATCGAAACCCAGCACATTAGGGCATGTTTTCTCAAATCTCCAAACGCAAAATATTAC
131 ACGAAAAAATCGAAACCCAGCACATTAGGGCACATTTTCTCAAATCTCCAAACGCAAAATATTAC
5079164 CTTACTTTGAAAATTTAAA
196 CTTACTTTGAAAATTTAAA
*
5079183 AGGATATTTAGCTATTTGGTCGAACGAAAAAAAATCGAAACCCAGCACATTAGGACACGTTTTCT
1 AGGATATTTAGCTATTTGGTCCAACG---AAAAATCGAAACCCAGCACATTAGGACACGTTTTCT
* * *
5079248 C-AGATTTCCAAAGGCAAAACATTGCCTTACTTTGAAATT-TTAATAGGATATTTTGCTATTTGG
63 CGA-ATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAAAGGATATTTGGCTATTTGG
*
5079311 TCGAACGAAAAAAATCGAAACCCAGCACATTAGGGCACATTTTCT-AGAATTTCCAAACGCAAAA
127 TCGAACG-AAAAAATCGAAACCCAGCACATTAGGGCACATTTTCTCA-AATCTCCAAACGCAAAA
*
5079375 TATTGCCTTACTTTGAAAA
190 TATTACCTTACTTTGAAAA
5079394 ATTTTCCTTT
Statistics
Matches: 192, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
214 24 0.12
216 31 0.16
217 137 0.71
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (214 bp):
AGGATATTTAGCTATTTGGTCCAACGAAAAATCGAAACCCAGCACATTAGGACACGTTTTCTCGA
ATTTCCAAACGCAAAACATTGCCTTACTTTGAAATTATTAAAAGGATATTTGGCTATTTGGTCGA
ACGAAAAAATCGAAACCCAGCACATTAGGGCACATTTTCTCAAATCTCCAAACGCAAAATATTAC
CTTACTTTGAAAATTTAAA
Found at i:5079536 original size:4 final size:4
Alignment explanation
Indices: 5079527--5079606 Score: 65
Period size: 4 Copynumber: 19.5 Consensus size: 4
5079517 ACACAATAAC
* * * * *
5079527 AAAT AAAT AAAT AAAT AAACT AAA- ACAT AAAA AAAT AGAC ATAT AAAT
1 AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT AAAT
5079575 AAAT AAAT AAAT GAACAT AAAGT AAA- AAAT AA
1 AAAT AAAT AAAT -AA-AT AAA-T AAAT AAAT AA
5079607 TAATAATAAC
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
3 5 0.08
4 42 0.69
5 12 0.20
6 2 0.03
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (4 bp):
AAAT
Found at i:5083836 original size:29 final size:29
Alignment explanation
Indices: 5083786--5083842 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
5083776 TATATAGATC
* *
5083786 GGATCAAATTAGACATTCTATTTTTAAAT
1 GGATCAAATTAGACATTATATTATTAAAT
*
5083815 GGATCAATTTAGTAC-TTATATTATTAAA
1 GGATCAAATTAG-ACATTATATTATTAAA
5083843 AATAATTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.42
Consensus pattern (29 bp):
GGATCAAATTAGACATTATATTATTAAAT
Found at i:5086007 original size:20 final size:21
Alignment explanation
Indices: 5085979--5086025 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
5085969 CAACAAAAAT
5085979 TTTTAAAAAATTAAAAAT-AA
1 TTTTAAAAAATTAAAAATAAA
* *
5085999 TTTTCAAAAATTCAAAATAAA
1 TTTTAAAAAATTAAAAATAAA
5086020 TTTTAA
1 TTTTAA
5086026 TTTTCAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (21 bp):
TTTTAAAAAATTAAAAATAAA
Found at i:5086096 original size:35 final size:36
Alignment explanation
Indices: 5086026--5086097 Score: 83
Period size: 36 Copynumber: 2.0 Consensus size: 36
5086016 TAAATTTTAA
*
5086026 TTTTCAAAATATTTATAAAAAATCCAAAATTTATAT
1 TTTTCAAAATATTTATAAAAAATCCAAAATATATAT
* * *
5086062 TTTTTAAAAT-TTTATAAGAAATTCTAAAAATATATA
1 TTTTCAAAATATTTATAA-AAAATC-CAAAATATATA
5086098 AAGAAAGTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
35 7 0.23
36 14 0.47
37 9 0.30
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (36 bp):
TTTTCAAAATATTTATAAAAAATCCAAAATATATAT
Found at i:5095202 original size:43 final size:43
Alignment explanation
Indices: 5095155--5095299 Score: 168
Period size: 43 Copynumber: 3.4 Consensus size: 43
5095145 AGAGTAGTAC
* *
5095155 CTTTAGCGGTGTTTTTGGTATAAGCGCCGCTATAGAAT-AGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAG-ATCAGGGT
* *
5095198 CTTTAGCGGCGTTTTTAGTAAAAGCGCCACTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
* * ***
5095241 CTTTAGTGGCGTTTGTGACCGAAA-CGCCGCTATAGATCAGGGT
1 CTTTAGCGGCGTTTTTG-GTAAAAGCGCCGCTATAGATCAGGGT
*
5095284 CTTTAGCGGCGCTTTT
1 CTTTAGCGGCGTTTTT
5095300 CCCACAAACG
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 2 0.02
43 81 0.94
44 3 0.03
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (43 bp):
CTTTAGCGGCGTTTTTGGTAAAAGCGCCGCTATAGATCAGGGT
Found at i:5095309 original size:43 final size:43
Alignment explanation
Indices: 5095179--5095401 Score: 159
Period size: 43 Copynumber: 5.2 Consensus size: 43
5095169 TTGGTATAAG
* **
5095179 CGCCGCTATAGAAT-AGGGTCTTTAGCGGCGTTTTTAGTA-AAA
1 CGCCGCTATAG-ATCAGGGTCTTTAGCGGCGCTTTTACCACAAA
* * *
5095221 GCGCCACTATAGATCAGGGTCTTTAGTGGCG-TTTGTGACC-GAAA
1 -CGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTT-T-ACCACAAA
*
5095265 CGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACCACAAA
* * ** * * ****
5095308 CGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGGTCACAAA
1 CGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACCACAAA
* * * * * *
5095351 CGCCACTAAAGACTC-TGATCTATAGCGGCGCTTTTACCAAAAA
1 CGCCGCTATAGA-TCAGGGTCTTTAGCGGCGCTTTTACCACAAA
5095394 CGCCGCTA
1 CGCCGCTA
5095402 AAGACCCTAT
Statistics
Matches: 145, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
42 7 0.05
43 130 0.90
44 8 0.06
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (43 bp):
CGCCGCTATAGATCAGGGTCTTTAGCGGCGCTTTTACCACAAA
Found at i:5095403 original size:43 final size:43
Alignment explanation
Indices: 5095287--5095449 Score: 188
Period size: 43 Copynumber: 3.8 Consensus size: 43
5095277 TCAGGGTCTT
* *
5095287 TAGCGGCGCTTTTCCCACAAACGCCGC-AATAGACCCTGATCTA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAA-AGACCCTGATCTA
**** * * *
5095330 TAGCGGCGCTTCGGTCACAAACGCCACTAAAGACTCTGATCTA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
5095373 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCT-ATTCTA
1 TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGA-TCTA
*
5095416 TAGCGGCGC-TATACCAAAAAACGCCGCTAAAGAC
1 TAGCGGCGCTTTTACC-AAAAACGCCGCTAAAGAC
5095450 TAACACCTTT
Statistics
Matches: 103, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
42 6 0.06
43 95 0.92
44 2 0.02
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (43 bp):
TAGCGGCGCTTTTACCAAAAACGCCGCTAAAGACCCTGATCTA
Found at i:5095438 original size:86 final size:84
Alignment explanation
Indices: 5095287--5095450 Score: 208
Period size: 86 Copynumber: 1.9 Consensus size: 84
5095277 TCAGGGTCTT
* * *
5095287 TAGCGGCGCTTTTCCCACAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGGTCACAAAC
1 TAGCGGCGCTTTTACCAAAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTC-G-CAAAAAC
5095352 GCCACTAAAGACTCTGATCTA
64 GCCACTAAAGACTCTGATCTA
5095373 TAGCGGCGCTTTTACCAAAAACGCCGCTAA-AGACCCT-ATTCTATAGCGGCGCTATAC-CAAAA
1 TAGCGGCGCTTTTACCAAAAACGCCGC-AATAGACCCTGA-TCTATAGCGGCGCT-T-CGC-AAA
*
5095435 AACGCCGCTAAAGACT
61 AACGCCACTAAAGACT
5095451 AACACCTTTA
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
85 2 0.03
86 63 0.91
87 3 0.04
88 1 0.01
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (84 bp):
TAGCGGCGCTTTTACCAAAAACGCCGCAATAGACCCTGATCTATAGCGGCGCTTCGCAAAAACGC
CACTAAAGACTCTGATCTA
Found at i:5095826 original size:21 final size:21
Alignment explanation
Indices: 5095797--5095889 Score: 91
Period size: 21 Copynumber: 4.4 Consensus size: 21
5095787 TTTGACGCTG
5095797 CTCTGCTTCCCTCGTTGCAGC
1 CTCTGCTTCCCTCGTTGCAGC
* *
5095818 CTCTACTTCCCTCGCTT-TAGC
1 CTCTGCTTCCCTCG-TTGCAGC
5095839 CTCTGCTTCCCTC-TTAGCAGC
1 CTCTGCTTCCCTCGTT-GCAGC
* * * * *
5095860 CTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGTTGCAGC
5095881 CTCTGCTTC
1 CTCTGCTTC
5095890 TCTTGCTGCC
Statistics
Matches: 57, Mismatches: 11, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.04
21 52 0.91
22 3 0.05
ACGTcount: A:0.06, C:0.43, G:0.15, T:0.35
Consensus pattern (21 bp):
CTCTGCTTCCCTCGTTGCAGC
Found at i:5095859 original size:42 final size:42
Alignment explanation
Indices: 5095797--5095889 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
5095787 TTTGACGCTG
**
5095797 CTCTGCTTCCCTCGTTGCAGCCTCTACTTCCCTCGCTTTAGC
1 CTCTGCTTCCCTCGTTGCAGCCTCTACTTCCCTCGCTGCAGC
* * *
5095839 CTCTGCTTCCCTC-TTAGCAGCCTGTACTTCTCTCGCTGCCGC
1 CTCTGCTTCCCTCGTT-GCAGCCTCTACTTCCCTCGCTGCAGC
5095881 CTCTGCTTC
1 CTCTGCTTC
5095890 TCTTGCTGCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
41 2 0.04
42 43 0.96
ACGTcount: A:0.06, C:0.43, G:0.15, T:0.35
Consensus pattern (42 bp):
CTCTGCTTCCCTCGTTGCAGCCTCTACTTCCCTCGCTGCAGC
Found at i:5095991 original size:66 final size:66
Alignment explanation
Indices: 5095919--5096049 Score: 201
Period size: 66 Copynumber: 2.0 Consensus size: 66
5095909 CTAAGCTGCT
* *
5095919 GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGCTGCTGCATCCGCTTTAAGTTG
1 GCTGGAGTTCTTCATATC-TTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG
5095983 TA
65 TA
* * *
5095985 GCTGGAGTTCTTCATATCTTCTTTGAACATCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGT
1 GCTGGAGTTCTTCATATCTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
5096050 GTAATTTGCT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
66 58 0.98
67 1 0.02
ACGTcount: A:0.15, C:0.26, G:0.19, T:0.40
Consensus pattern (66 bp):
GCTGGAGTTCTTCATATCTTCGTTGAACATCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT
A
Found at i:5101468 original size:9 final size:9
Alignment explanation
Indices: 5101432--5101884 Score: 191
Period size: 9 Copynumber: 52.8 Consensus size: 9
5101422 AATTGCACGG
5101432 GTAAGTTAT
1 GTAAGTTAT
*
5101441 GT-A-TTGT
1 GTAAGTTAT
*
5101448 GTAAGCTAT
1 GTAAGTTAT
*
5101457 GTAAGTTGT
1 GTAAGTTAT
5101466 GT-A-TTAT
1 GTAAGTTAT
5101473 GTAAGTTAT
1 GTAAGTTAT
5101482 -T-A-TTAT
1 GTAAGTTAT
5101488 GATTTAAGTTAT
1 G---TAAGTTAT
**
5101500 GTAAGCAAT
1 GTAAGTTAT
5101509 GT-A-TTAT
1 GTAAGTTAT
*
5101516 GTAAGTTGT
1 GTAAGTTAT
*
5101525 GT-A-TAAT
1 GTAAGTTAT
*
5101532 GTTAGTTAT
1 GTAAGTTAT
5101541 GTAAGTTAT
1 GTAAGTTAT
5101550 GTAAGTTAT
1 GTAAGTTAT
5101559 GT-A---A-
1 GTAAGTTAT
5101563 GTAAGTTAT
1 GTAAGTTAT
5101572 GTAAGTTAT
1 GTAAGTTAT
** *
5101581 CAAAGTAAT
1 GTAAGTTAT
*
5101590 GTATGTTAT
1 GTAAGTTAT
5101599 GTAAG-T-T
1 GTAAGTTAT
5101606 GTAAGTTAT
1 GTAAGTTAT
*
5101615 -TATGTATTAT
1 GTAAG--TTAT
*
5101625 GTAAGTTAA
1 GTAAGTTAT
* *
5101634 G-ATGGATTAC
1 GTA-AG-TTAT
5101644 GTAAGTTAT
1 GTAAGTTAT
5101653 GTAAGTTAAAT
1 GTAAGTT--AT
5101664 GT-A-TTAT
1 GTAAGTTAT
5101671 GTAAG-T-T
1 GTAAGTTAT
5101678 GTAAGTTAAAT
1 GTAAGTT--AT
5101689 GT-A-TTAT
1 GTAAGTTAT
5101696 GTAAG-T-T
1 GTAAGTTAT
5101703 GTAAGTTAGAT
1 GTAAGTT--AT
5101714 GT-A-TTAT
1 GTAAGTTAT
5101721 GTAAG-T-T
1 GTAAGTTAT
5101728 GTAAGTTAGAT
1 GTAAGTT--AT
5101739 GT-A-TTAT
1 GTAAGTTAT
5101746 GTAAG-T-T
1 GTAAGTTAT
5101753 GTAAGTTAATAT
1 GTAAG-T--TAT
5101765 GT-A-TTAT
1 GTAAGTTAT
5101772 GTAAGTTAT
1 GTAAGTTAT
5101781 GTAAGTTAAAT
1 GTAAGTT--AT
5101792 GT-A-TTAT
1 GTAAGTTAT
5101799 G-AAGGTTAT
1 GTAA-GTTAT
*
5101808 GTAAGTTGT
1 GTAAGTTAT
**
5101817 GTAAGAGAT
1 GTAAGTTAT
*
5101826 TTAAGTTAT
1 GTAAGTTAT
* *
5101835 GTGAGTTTT
1 GTAAGTTAT
5101844 GT-A-TTAT
1 GTAAGTTAT
5101851 GTAAGTTAT
1 GTAAGTTAT
*
5101860 GTAGGTTAT
1 GTAAGTTAT
* *
5101869 TTAGGTTAT
1 GTAAGTTAT
5101878 GTAAGTT
1 GTAAGTT
5101885 TTGAGTTGTT
Statistics
Matches: 335, Mismatches: 45, Indels: 128
0.66 0.09 0.25
Matches are distributed among these distances:
4 2 0.01
5 2 0.01
6 4 0.01
7 79 0.24
8 31 0.09
9 168 0.50
10 17 0.05
11 24 0.07
12 8 0.02
ACGTcount: A:0.32, C:0.01, G:0.22, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:5101562 original size:59 final size:54
Alignment explanation
Indices: 5101454--5101578 Score: 144
Period size: 59 Copynumber: 2.2 Consensus size: 54
5101444 TTGTGTAAGC
*
5101454 TATGTAAGTTGTGTATTATGTAAGTTATTATTATGATTTAAGTTATGTAAGCAATGTAT
1 TATGTAAGTTGTGTATAATGTAAGTTATTATTATG--TTAAGTTATGTAAGCAA-G--T
* *
5101513 TATGTAAGTTGTGTATAATGTTAGTTATGTAAGTTATG-TAAGTTATGTAAGTAAGT
1 TATGTAAGTTGTGTATAATGTAAGTTAT-T-A-TTATGTTAAGTTATGTAAGCAAGT
5101569 TATGTAAGTT
1 TATGTAAGTT
5101579 ATCAAAGTAA
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
56 11 0.18
58 1 0.02
59 41 0.68
60 1 0.02
61 1 0.02
62 5 0.08
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (54 bp):
TATGTAAGTTGTGTATAATGTAAGTTATTATTATGTTAAGTTATGTAAGCAAGT
Found at i:5101566 original size:13 final size:13
Alignment explanation
Indices: 5101550--5101577 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5101540 TGTAAGTTAT
5101550 GTAAGTTATGTAA
1 GTAAGTTATGTAA
5101563 GTAAGTTATGTAA
1 GTAAGTTATGTAA
5101576 GT
1 GT
5101578 TATCAAAGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.25, T:0.39
Consensus pattern (13 bp):
GTAAGTTATGTAA
Found at i:5101566 original size:22 final size:22
Alignment explanation
Indices: 5101541--5101630 Score: 82
Period size: 22 Copynumber: 4.1 Consensus size: 22
5101531 TGTTAGTTAT
5101541 GTAAGTTATGTAAGTTATGTAA
1 GTAAGTTATGTAAGTTATGTAA
5101563 GTAAGTTATGTAAGTTATCAAAGTAA
1 GTAAGTTATGTAAGTTAT----GTAA
*
5101589 TGTATGTTATGTAAG-T-TGTAA
1 -GTAAGTTATGTAAGTTATGTAA
*
5101610 GTTA-TTATGT-A-TTATGTAA
1 GTAAGTTATGTAAGTTATGTAA
5101629 GT
1 GT
5101631 TAAGATGGAT
Statistics
Matches: 58, Mismatches: 3, Indels: 17
0.74 0.04 0.22
Matches are distributed among these distances:
18 2 0.03
19 13 0.22
20 2 0.03
21 4 0.07
22 18 0.31
25 1 0.02
26 5 0.09
27 13 0.22
ACGTcount: A:0.34, C:0.01, G:0.21, T:0.43
Consensus pattern (22 bp):
GTAAGTTATGTAAGTTATGTAA
Found at i:5101627 original size:19 final size:19
Alignment explanation
Indices: 5101605--5101653 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 19
5101595 TTATGTAAGT
* *
5101605 TGTAAGTTATTATGTATTA
1 TGTAAGTTATGATGGATTA
*
5101624 TGTAAGTTAAGATGGATTA
1 TGTAAGTTATGATGGATTA
*
5101643 CGTAAGTTATG
1 TGTAAGTTATG
5101654 TAAGTTAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (19 bp):
TGTAAGTTATGATGGATTA
Found at i:5101851 original size:43 final size:43
Alignment explanation
Indices: 5101804--5101887 Score: 114
Period size: 43 Copynumber: 2.0 Consensus size: 43
5101794 ATTATGAAGG
* *
5101804 TTATGTAAGTTGTGTAAGAGATTTAAGTTATGTGAGTTTTGTA
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
* ** *
5101847 TTATGTAAGTTATGTAGGTTATTTAGGTTATGTAAGTTTTG
1 TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTG
5101888 AGTTGTTCAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.25, T:0.49
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGAGATTTAAGTTATGTAAGTTTTGTA
Found at i:5101861 original size:25 final size:26
Alignment explanation
Indices: 5101469--5101884 Score: 292
Period size: 25 Copynumber: 16.1 Consensus size: 26
5101459 AAGTTGTGTA
5101469 TTATGTAAGTT-AT-TATTATGATTTAAG
1 TTATGTAAGTTAATGTATTATG---TAAG
*
5101496 TTATGTAAG-CAATGTATTATGTAAG
1 TTATGTAAGTTAATGTATTATGTAAG
*
5101521 TTGTGT-A--TAATGTTAGTTATGTAAG
1 TTATGTAAGTTAATG-TA-TTATGTAAG
5101546 TTATGTAAGTT-ATGTA--A-GTAAG
1 TTATGTAAGTTAATGTATTATGTAAG
* *
5101568 TTATGTAAGTTATCAAAGTA--ATGTATG
1 TTATGTAAG-T-T-AATGTATTATGTAAG
5101595 TTATGTAAGTTGTAA-GTTATTATGT-A-
1 TTATGTAAG-T-TAATG-TATTATGTAAG
* *
5101621 TTATGTAAGTTAAGATGGATTACGTAAG
1 TTATGTAAGTT-A-ATGTATTATGTAAG
5101649 TTATGTAAGTTAAATGTATTATGTAAG
1 TTATGTAAGTT-AATGTATTATGTAAG
5101676 -T-TGTAAGTTAAATGTATTATGTAAG
1 TTATGTAAGTT-AATGTATTATGTAAG
5101701 -T-TGTAAGTTAGATGTATTATGTAAG
1 TTATGTAAGTTA-ATGTATTATGTAAG
5101726 -T-TGTAAGTTAGATGTATTATGTAAG
1 TTATGTAAGTTA-ATGTATTATGTAAG
5101751 -T-TGTAAGTTAATATGTATTATGTAAG
1 TTATGTAAGTT-A-ATGTATTATGTAAG
5101777 TTATGTAAGTTAAATGTATTATG-AAGG
1 TTATGTAAGTT-AATGTATTATGTAA-G
* ** *
5101804 TTATGTAAGTT-GTGTAAGAGATTTAAG
1 TTATGTAAGTTAATGT-A-TTATGTAAG
* *
5101831 TTATGTGAGTT-TTGTATTATGTAAG
1 TTATGTAAGTTAATGTATTATGTAAG
* *
5101856 TTATGTAGGTT-ATTTAGGTTATGTAAG
1 TTATGTAAGTTAATGTA--TTATGTAAG
5101883 TT
1 TT
5101885 TTGAGTTGTT
Statistics
Matches: 333, Mismatches: 26, Indels: 60
0.79 0.06 0.14
Matches are distributed among these distances:
22 14 0.04
23 6 0.02
24 6 0.02
25 128 0.38
26 48 0.14
27 94 0.28
28 37 0.11
ACGTcount: A:0.33, C:0.01, G:0.22, T:0.45
Consensus pattern (26 bp):
TTATGTAAGTTAATGTATTATGTAAG
Found at i:5102032 original size:12 final size:11
Alignment explanation
Indices: 5102005--5102085 Score: 50
Period size: 12 Copynumber: 7.5 Consensus size: 11
5101995 TGTTAAGTAC
5102005 AATTTAATAA-
1 AATTTAATAAT
5102015 AA--TAATATAT
1 AATTTAATA-AT
5102025 AATTTAATAA-
1 AATTTAATAAT
*
5102035 CATTACTAAT-AT
1 AATT--TAATAAT
5102047 AATTATTAATAAT
1 AA-T-TTAATAAT
5102060 -ATTTAATAAT
1 AATTTAATAAT
5102070 AATTTTAAT-AT
1 AA-TTTAATAAT
5102081 AATTT
1 AATTT
5102086 TATTATTAAG
Statistics
Matches: 57, Mismatches: 2, Indels: 24
0.69 0.02 0.29
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
10 18 0.32
11 8 0.14
12 21 0.37
13 3 0.05
14 1 0.02
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (11 bp):
AATTTAATAAT
Found at i:5104469 original size:40 final size:42
Alignment explanation
Indices: 5104420--5104501 Score: 107
Period size: 41 Copynumber: 2.0 Consensus size: 42
5104410 TTGTCGATTC
*
5104420 CAACTTTTACGGCG-CTT-ACAATCAAACGCCACTAAT-TTTA
1 CAACATTTACGGCGTCTTGACAAT-AAACGCCACTAATATTTA
* *
5104460 CAACATTTACGGCGTTTTGAGAATAAACGCCACTAATATTTA
1 CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
5104502 ATTCGTCAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
40 13 0.36
41 15 0.42
42 8 0.22
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.30
Consensus pattern (42 bp):
CAACATTTACGGCGTCTTGACAATAAACGCCACTAATATTTA
Found at i:5105245 original size:39 final size:39
Alignment explanation
Indices: 5105181--5105266 Score: 122
Period size: 39 Copynumber: 2.2 Consensus size: 39
5105171 AATTCCTAAC
*
5105181 CCAT-AACCCCTAAATCCCCTAAACCCTTAAAGCATAAA
1 CCATAAACCCCTAAATCCCCTAAACCCCTAAAGCATAAA
*
5105219 CCATAAACCCCTAAATCTCCCT-AACCCCTAAAGCATAAC
1 CCATAAACCCCTAAATC-CCCTAAACCCCTAAAGCATAAA
*
5105258 CCCTAAACC
1 CCATAAACC
5105267 ATTCCAATTA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 4 0.09
39 35 0.81
40 4 0.09
ACGTcount: A:0.40, C:0.41, G:0.02, T:0.17
Consensus pattern (39 bp):
CCATAAACCCCTAAATCCCCTAAACCCCTAAAGCATAAA
Found at i:5106051 original size:31 final size:32
Alignment explanation
Indices: 5105979--5106054 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 32
5105969 TAACCCATAT
* * **
5105979 ATAACCCCT-AAATCCCCTTTAACCCTTAAAGT
1 ATAACCCCTAAAAT-CCCTCTAACCCCTAAACC
*
5106011 ATAAACCCTAAAAT-CCTCTAACCCCTAAACC
1 ATAACCCCTAAAATCCCTCTAACCCCTAAACC
5106042 ATAACCCCTAAAA
1 ATAACCCCTAAAA
5106055 AATTTTATTA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
31 25 0.68
32 8 0.22
33 4 0.11
ACGTcount: A:0.41, C:0.36, G:0.01, T:0.22
Consensus pattern (32 bp):
ATAACCCCTAAAATCCCTCTAACCCCTAAACC
Found at i:5106351 original size:22 final size:22
Alignment explanation
Indices: 5106326--5106374 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 22
5106316 CTTACCGTTC
5106326 AAACCCTAAA-CCAGAAATCCCT
1 AAACCCTAAACCCAGAAA-CCCT
*
5106348 AAACCCTAAACCCATAAACCCT
1 AAACCCTAAACCCAGAAACCCT
5106370 AAACC
1 AAACC
5106375 TTAACTCTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.47, C:0.39, G:0.02, T:0.12
Consensus pattern (22 bp):
AAACCCTAAACCCAGAAACCCT
Found at i:5106354 original size:7 final size:7
Alignment explanation
Indices: 5106326--5106374 Score: 62
Period size: 7 Copynumber: 6.7 Consensus size: 7
5106316 CTTACCGTTC
5106326 AAACCCT
1 AAACCCT
**
5106333 AAACCAG
1 AAACCCT
5106340 AAATCCCT
1 AAA-CCCT
5106348 AAACCCT
1 AAACCCT
5106355 AAACCCAT
1 AAACCC-T
5106363 AAACCCT
1 AAACCCT
5106370 AAACC
1 AAACC
5106375 TTAACTCTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 24 0.67
8 12 0.33
ACGTcount: A:0.47, C:0.39, G:0.02, T:0.12
Consensus pattern (7 bp):
AAACCCT
Found at i:5106365 original size:15 final size:14
Alignment explanation
Indices: 5106326--5106374 Score: 62
Period size: 15 Copynumber: 3.4 Consensus size: 14
5106316 CTTACCGTTC
**
5106326 AAACCCTAAACCAG
1 AAACCCTAAACCCT
5106340 AAATCCCTAAACCCT
1 AAA-CCCTAAACCCT
5106355 AAACCCATAAACCCT
1 AAACCC-TAAACCCT
5106370 AAACC
1 AAACC
5106375 TTAACTCTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 6 0.19
15 25 0.81
ACGTcount: A:0.47, C:0.39, G:0.02, T:0.12
Consensus pattern (14 bp):
AAACCCTAAACCCT
Found at i:5106994 original size:115 final size:113
Alignment explanation
Indices: 5106658--5107201 Score: 401
Period size: 114 Copynumber: 4.8 Consensus size: 113
5106648 AATCCCTGAT
* * * * * * * *
5106658 CATTAGCGGTGCTTT-TCTAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGACGTTG
1 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCT-GAAAGCTCGGGAAACGACGTCGTTG
* * * * * * *
5106722 CGCTTAGTTTTTTTTGCGGCGCTTTCCAAAAAACGTCGCTAAAGACTGAA-
65 CGC-TAG-TTTTGTAGTGGCGCTTTCCTAGAAACGCCGCTAAAGACTTAAG
*** * * * * * * * *
5106772 CATTAGCGGCGCTTT-AACAAAAACGCAGCTAAAATCCCCGAAAGC-CAGAAAACGGCATTGTTG
1 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCT-AAATCCCTGAAAGCTCGGGAAACGACGTCGTTG
* * * * * * *
5106835 GGCTTAGGTTTTTTTGCGGCGCTTTAAC-AAAAACGCCGCTAAAGACTTCAG
65 CGC-TA-GTTTTGTAGTGGCGCTTT-CCTAGAAACGCCGCTAAAGACTTAAG
*
5106886 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACGTCGTTGC
1 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGC
* * *
5106951 GCTAGTTTTAAGTAGTGGCGCTTTTCC-AGAAACGCTGCTAAAGACCTAAC
66 GCTAGTTTT--GTAGTGGCGC-TTTCCTAGAAACGCCGCTAAAGACTTAAG
* *
5107001 CATTAGCGGCGC-TT-TATAGAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACATCGTTG
1 CATTAGCGGCGCTTTCTGTA-AAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTG
* * * * *
5107064 GGCTTAGTTATTTTTGTGGCGCTTTCCTAGAAACGCCGCTAAAGCCTTGAG
65 CGC-TAGTT-TTGTAGTGGCGCTTTCCTAGAAACGCCGCTAAAGACTTAAG
* * * * *
5107115 CATTAGCGGCGCTTACTG-AAAAACGCCGTTAAATCACC-GAATGCTGGGGAAACTG-CGTCGTT
1 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATC-CCTGAAAGCTCGGGAAAC-GACGTCGTT
* *
5107177 GCGCTAGGTTTT-TTGCGGCGCTTTC
64 GCGCTA-GTTTTGTAGTGGCGCTTTC
5107202 TCAAAAACGC
Statistics
Matches: 354, Mismatches: 58, Indels: 38
0.79 0.13 0.08
Matches are distributed among these distances:
112 12 0.03
113 72 0.20
114 185 0.52
115 79 0.22
116 6 0.02
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (113 bp):
CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGC
GCTAGTTTTGTAGTGGCGCTTTCCTAGAAACGCCGCTAAAGACTTAAG
Found at i:5107070 original size:229 final size:227
Alignment explanation
Indices: 5106658--5107208 Score: 588
Period size: 229 Copynumber: 2.4 Consensus size: 227
5106648 AATCCCTGAT
* * * * * * *
5106658 CATTAGCGGTGCTTT-TCTAAAAACGCCGCTAAATCCCTCAAAAGCACAGAAAACGACGACGTTG
1 CATTAGCGGCGCTTTCTGTAAAAACGCCGCTAAATCCCT-GAAAGCTCGGGAAACGACGTCGTTG
** *
5106722 CGCTTAGTTTTTTTTGCGGCGCTTTCCAAAAAACGTCGCTAAAGACTGAACATTAGCGGCGCTTT
65 CGC-TAGTTTTAGTAGCGGCGCTTTCCAAAAAACGTCGCTAAAGACTGAACATTAGCGGCGCTTT
* *
5106787 AACAAAAACGCAGCTAAAATCCCCGAAAGCCAGAAAACGGCATTGTTGGGCTTAGGTT-TTTTTG
129 AACAAAAACGCAGCTAAAATCCCCGAAAGCCAGAAAACGACATCGTTGGGCTTA-GTTATTTTTG
5106851 CGGCGCTTTAAC-AAAAACGCCGCTAAAGACTTCAG
193 CGGCGCTTT-ACTAAAAACGCCGCTAAAGACTTCAG
* *
5106886 CATTAGCGGCGCTTTCTGTAAAAGCGCCGCTAAATCCCTGAAAGCTCGGGAGACGACGTCGTTGC
1 CATTAGCGGCGCTTTCTGTAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGC
* *
5106951 GCTAGTTTTAAGTAGTGGCGCTTTTCC-AGAAACG-CTGCTAAAGACCT-AACCATTAGCGGCGC
66 GCTAGTTTT-AGTAGCGGCGC-TTTCCAAAAAACGTC-GCTAAAGA-CTGAA-CATTAGCGGCGC
* * * * * *
5107013 TTTATA-GAAAGCGCCGCT-AAATCCCTGAAAGCTCGGGAAACGACATCGTTGGGCTTAGTTATT
126 TTTA-ACAAAAACGCAGCTAAAATCCCCGAAAGC-CAGAAAACGACATCGTTGGGCTTAGTTATT
* * * * *
5107076 TTTGTGGCGCTTTCCTAGAAACGCCGCTAAAGCCTTGAG
189 TTTGCGGCGCTTTACTAAAAACGCCGCTAAAGACTTCAG
* * * *
5107115 CATTAGCGGCGCTTACTG-AAAAACGCCGTTAAATCACC-GAATGCTGGGGAAACTG-CGTCGTT
1 CATTAGCGGCGCTTTCTGTAAAAACGCCGCTAAATC-CCTGAAAGCTCGGGAAAC-GACGTCGTT
*
5107177 GCGCTAGGTTTT--TTGCGGCGCTTTCTCAAAAA
64 GCGCTA-GTTTTAGTAGCGGCGCTTTC-CAAAAA
5107209 CGCCGGGAAT
Statistics
Matches: 272, Mismatches: 36, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
225 4 0.01
226 8 0.03
227 11 0.04
228 116 0.43
229 132 0.49
230 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (227 bp):
CATTAGCGGCGCTTTCTGTAAAAACGCCGCTAAATCCCTGAAAGCTCGGGAAACGACGTCGTTGC
GCTAGTTTTAGTAGCGGCGCTTTCCAAAAAACGTCGCTAAAGACTGAACATTAGCGGCGCTTTAA
CAAAAACGCAGCTAAAATCCCCGAAAGCCAGAAAACGACATCGTTGGGCTTAGTTATTTTTGCGG
CGCTTTACTAAAAACGCCGCTAAAGACTTCAG
Found at i:5114895 original size:20 final size:20
Alignment explanation
Indices: 5114870--5114909 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
5114860 AACATTTTTC
*
5114870 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
5114890 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
5114910 TCATTTTACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:5114911 original size:34 final size:35
Alignment explanation
Indices: 5114858--5114924 Score: 118
Period size: 34 Copynumber: 1.9 Consensus size: 35
5114848 CAAACACCAG
*
5114858 AAAACATTTTTCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
5114893 AAAACATTTTCCAG-AAATCATTTTACAGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
5114925 CATTTTACTG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
34 18 0.58
35 13 0.42
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:5114916 original size:14 final size:14
Alignment explanation
Indices: 5114893--5114932 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
5114883 ACAGAAAAGT
*
5114893 AAAACATTTTCCAG
1 AAAACATTTTACAG
*
5114907 AAATCATTTTACAG
1 AAAACATTTTACAG
5114921 AAAACATTTTAC
1 AAAACATTTTAC
5114933 TGGCAATCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:5115754 original size:21 final size:21
Alignment explanation
Indices: 5115725--5115764 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5115715 AATATAAGAT
5115725 TAAGACCTAAGGAGATTTGAC
1 TAAGACCTAAGGAGATTTGAC
* *
5115746 TAAGTCCTAGGGAGATTTG
1 TAAGACCTAAGGAGATTTG
5115765 CTAGCTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.28
Consensus pattern (21 bp):
TAAGACCTAAGGAGATTTGAC
Found at i:5117712 original size:184 final size:184
Alignment explanation
Indices: 5117387--5117935 Score: 769
Period size: 184 Copynumber: 3.0 Consensus size: 184
5117377 TATATATATT
* * * * ** *
5117387 CATATGCGAATCCAATTCAGCAA-TGAATATCGATATACCCAACAATTCAACAATGTATAACCAT
1 CATATACGAAT-CAATTCAGCAACT-TATATCCATATACCAAACAATTCGGCAATATATAACCAT
* ** * * * * * *
5117451 TCACGAATCAAGTTCGGCAATATATGATTATACACAAATCAAATTCGGCATCCTATATTCATAAA
64 ACACGAATCAAGTTCGATAATGTATAATCAAATACAAATCAAATTCGGCATCCTATATACATAAA
* * *
5117516 CAATTCAATATCGACAATATATAACCAAGTACGAA-TTAATTTCAGCAATGTACAAC
129 CAATTCAATATCGACAATATATAACCATGTAC-AATTTAATTTCAGCAAGGTAAAAC
* *
5117572 CCTGTACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATATATAACCATAC
1 CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATATATAACCATAC
* ** *
5117637 ACGAATCAAGTTCAATAATGTATAATCAAATACAAATTTAATTTGGCATCCTATATACATAAACA
66 ACGAATCAAGTTCGATAATGTATAATCAAATACAAATCAAATTCGGCATCCTATATACATAAACA
*
5117702 ATTAAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAAC
131 ATTCAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAAC
* *
5117756 CATATACGAATCAATTCAGCAACTTTTATCCATATACCAAACAATTTGGCAATATATAACCATAC
1 CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATATATAACCATAC
* * *
5117821 AAGAATCAAGTTCGATAATGTATAATCAAATACAAATCCAATTCGGCATCCTATATACGTAAACA
66 ACGAATCAAGTTCGATAATGTATAATCAAATACAAATCAAATTCGGCATCCTATATACATAAACA
*
5117886 ATTCAATATCAACAATATATAACCATGTACAATTTAATTTCAGCAAGGTA
131 ATTCAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTA
5117936 TAAAACATTT
Statistics
Matches: 324, Mismatches: 38, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
183 2 0.01
184 313 0.97
185 9 0.03
ACGTcount: A:0.43, C:0.20, G:0.09, T:0.28
Consensus pattern (184 bp):
CATATACGAATCAATTCAGCAACTTATATCCATATACCAAACAATTCGGCAATATATAACCATAC
ACGAATCAAGTTCGATAATGTATAATCAAATACAAATCAAATTCGGCATCCTATATACATAAACA
ATTCAATATCGACAATATATAACCATGTACAATTTAATTTCAGCAAGGTAAAAC
Found at i:5124339 original size:144 final size:143
Alignment explanation
Indices: 5124076--5124588 Score: 520
Period size: 144 Copynumber: 3.6 Consensus size: 143
5124066 ATCTATTAAA
* * * * *
5124076 TGGTTCAATCCCTTCTTGTCTTGGTAAGTTGTCCAAATTGCATACGCTAAG-ACTTGATTTAAAT
1 TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATAC-CTTAGCACTTGATTCAAAT
* * ** * * *
5124140 CTATTAGAAGGTCTTATTCTTGAAGAAATTTGTGAC-TTAGCAAATTTAACATCATT-AAGCCTT
65 CTATTAAAAGGTCCTATTCTCCAAGAAATTTGT-ACTTTAACAAATTTAACTTCATTGTA-CCTT
5124203 TACCAAAACAAATTG-G
128 T-CCAAAACAAATTGAG
* * * * * * *
5124219 ATGGTTCAATCTCTTCTTGTCTTGGTAATTTGTCCAAATTGGATTCCTTACCACTTTATTCAAAT
1 -TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAGCACTTGATTCAAAT
* * *
5124284 CTATTAGAAGGTCCTATTCTCCAA-ATATTTTGTACTTTAACAAATTTAGCTTCATTGTACCTCT
65 CTATTAAAAGGTCCTATTCTCCAAGA-AATTTGTACTTTAACAAATTTAACTTCATTGTACCT-T
5124348 TCCAAAACAAATTGAG
128 TCCAAAACAAATTGAG
* * * * **
5124364 TGGTTCAATCCCTTCTTCTATTGGTATTTTAT-CAAAGCTGCAGTA-CTTAAGC-CTTGGTTTTA
1 TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAA-TTGCA-TACCTT-AGCACTTGATTCAA
* * * *
5124426 ATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAAAAAATTTAACTTCATTGTACCTC
63 ATCTATTAAAAGGTCCTATTCTCCAAGAAATTTGTACTTTAACAAATTTAACTTCATTGTACCTT
*
5124491 TCCTAAAACAAGTTGAG
128 TCC-AAAACAAATTGAG
* * * * * *
5124508 TGGTTCAATCCCATCTTGTATTGGCAATTTATCCAATTTGGATACCTTAGAACTTGATTCAAACC
1 TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAGCACTTGATTCAAATC
5124573 TATTAAAAGGTCCTAT
66 TATTAAAAGGTCCTAT
5124589 CCTAAAGAAA
Statistics
Matches: 306, Mismatches: 49, Indels: 28
0.80 0.13 0.07
Matches are distributed among these distances:
143 17 0.06
144 278 0.91
145 11 0.04
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (143 bp):
TGGTTCAATCCCTTCTTGTATTGGTAATTTATCCAAATTGCATACCTTAGCACTTGATTCAAATC
TATTAAAAGGTCCTATTCTCCAAGAAATTTGTACTTTAACAAATTTAACTTCATTGTACCTTTCC
AAAACAAATTGAG
Found at i:5134941 original size:63 final size:63
Alignment explanation
Indices: 5134811--5134942 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
5134801 ATGTAATATG
* * * ** * *
5134811 ATTGTGCGTGCTATAGTGCTTGTGTAAAATAAATTGGTGTTAAAGGTGTTTATACAAGGAATG
1 ATTGTGCGCGCTATAGTGCTTGTGCAAAATAAACTGGAATTAAAGGTGTTGATACAAGGAATA
* * *
5134874 ATTGTGCGCGCTATGGTGTTTGTGCAAAATAAACTGGAATTAAAGGTGTTGATGC-AGGAAATA
1 ATTGTGCGCGCTATAGTGCTTGTGCAAAATAAACTGGAATTAAAGGTGTTGATACAAGG-AATA
5134937 ATTGTG
1 ATTGTG
5134943 TATGTTGTGA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
62 3 0.05
63 55 0.95
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (63 bp):
ATTGTGCGCGCTATAGTGCTTGTGCAAAATAAACTGGAATTAAAGGTGTTGATACAAGGAATA
Found at i:5136670 original size:7 final size:7
Alignment explanation
Indices: 5136660--5136750 Score: 74
Period size: 7 Copynumber: 13.0 Consensus size: 7
5136650 TATAAATAAT
5136660 AATTGAG
1 AATTGAG
5136667 AATTGAG
1 AATTGAG
5136674 AATTGAG
1 AATTGAG
* *
5136681 AATTAAA
1 AATTGAG
5136688 AATTGAG
1 AATTGAG
*
5136695 GATTGAG
1 AATTGAG
*
5136702 AATTAAG
1 AATTGAG
* *
5136709 AAATGAA
1 AATTGAG
5136716 AATTGAG
1 AATTGAG
* * *
5136723 GATTCAT
1 AATTGAG
*
5136730 AATTCAG
1 AATTGAG
*
5136737 GATTGAG
1 AATTGAG
*
5136744 GATTGAG
1 AATTGAG
5136751 TTAAAAAGAA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
7 65 1.00
ACGTcount: A:0.44, C:0.02, G:0.25, T:0.29
Consensus pattern (7 bp):
AATTGAG
Found at i:5136723 original size:28 final size:28
Alignment explanation
Indices: 5136653--5136726 Score: 103
Period size: 28 Copynumber: 2.6 Consensus size: 28
5136643 AAATAATTAT
* * *
5136653 AAATAATAATTGAGAATTGAGAATTGAG
1 AAATAAAAATTGAGGATTGAGAATTAAG
*
5136681 AATTAAAAATTGAGGATTGAGAATTAAG
1 AAATAAAAATTGAGGATTGAGAATTAAG
*
5136709 AAATGAAAATTGAGGATT
1 AAATAAAAATTGAGGATT
5136727 CATAATTCAG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.22, T:0.28
Consensus pattern (28 bp):
AAATAAAAATTGAGGATTGAGAATTAAG
Found at i:5138679 original size:38 final size:40
Alignment explanation
Indices: 5138542--5138763 Score: 257
Period size: 40 Copynumber: 5.7 Consensus size: 40
5138532 TTGAATGATG
*
5138542 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
5138580 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
5138621 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
5138660 TCCGGG-TAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
5138698 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
5138737 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
5138764 AACGAGGAGC
Statistics
Matches: 163, Mismatches: 10, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
38 36 0.22
39 56 0.34
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:5146585 original size:39 final size:40
Alignment explanation
Indices: 5146490--5146712 Score: 266
Period size: 39 Copynumber: 5.7 Consensus size: 40
5146480 TTGAATGATG
*
5146490 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
5146528 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
5146569 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
5146608 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
5146647 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
5146686 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
5146713 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 17
0.85 0.06 0.09
Matches are distributed among these distances:
39 93 0.57
40 59 0.36
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:5146676 original size:79 final size:81
Alignment explanation
Indices: 5146490--5146712 Score: 282
Period size: 79 Copynumber: 2.8 Consensus size: 81
5146480 TTGAATGATG
* * *
5146490 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATATCCGGGCTAAGACCCGAAGGCAT
*
5146552 TTGTGCGAGATACTAAT
65 TTGTGCGAGATACTAAA
5146569 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGATACTAAT-TCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATATCCGGGCTAAGACCCGAAGGCAT
*
5146630 TTGTGCGAGTTACTAAA
65 TTGTGCGAGATACTAAA
* * * * *
5146647 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
5146711 TG
66 TG
5146713 AACGAGGAGC
Statistics
Matches: 127, Mismatches: 9, Indels: 15
0.84 0.06 0.10
Matches are distributed among these distances:
78 46 0.36
79 56 0.44
80 25 0.20
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATATCCGGGCTAAGACCCGAAGGCATT
TGTGCGAGATACTAAA
Found at i:5146734 original size:79 final size:79
Alignment explanation
Indices: 5146490--5146745 Score: 217
Period size: 79 Copynumber: 3.3 Consensus size: 79
5146480 TTGAATGATG
* * * *
5146490 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AATATCCGGACTAAGATCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA-CCGGGCTAAG-CCCGAAGGCA
** *
5146551 TTTGTGCGAGAT-ACTAAT
62 TTTGAACGAG-TGACTAAA
* *
5146569 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
** *
5146633 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
5146647 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCAT
*
5146710 TTGAACGAG-GAGCTATA
63 TTGAACGAGTGA-CTAAA
* *
5146727 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
5146746 TACGTGATTT
Statistics
Matches: 153, Mismatches: 14, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
77 1 0.01
78 46 0.30
79 69 0.45
80 36 0.24
81 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:5153393 original size:20 final size:20
Alignment explanation
Indices: 5153368--5153406 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
5153358 GATTGAATCG
5153368 TATTTTATAATTATTAATAT
1 TATTTTATAATTATTAATAT
*
5153388 TATTTTATAATTTTTAATA
1 TATTTTATAATTATTAATA
5153407 ATTTACTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTATAATTATTAATAT
Found at i:5160539 original size:3 final size:3
Alignment explanation
Indices: 5160531--5160600 Score: 113
Period size: 3 Copynumber: 23.0 Consensus size: 3
5160521 TATTTTAGTG
5160531 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
5160579 CTA CTA TTA TTAA TTA TTA TTA
1 TTA TTA TTA TT-A TTA TTA TTA
5160601 GCTTTATTTT
Statistics
Matches: 64, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
3 61 0.95
4 3 0.05
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:5162727 original size:25 final size:25
Alignment explanation
Indices: 5162699--5162754 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 25
5162689 GACTAAATTG
5162699 CAAAGGAGATATTCTCCATAATAGC
1 CAAAGGAGATATTCTCCATAATAGC
**
5162724 CAAAAAGTCGATATTCTCCATAATAGC
1 C--AAAGGAGATATTCTCCATAATAGC
5162751 CAAA
1 CAAA
5162755 AAGTCGCTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 4 0.15
27 23 0.85
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.23
Consensus pattern (25 bp):
CAAAGGAGATATTCTCCATAATAGC
Found at i:5162736 original size:27 final size:27
Alignment explanation
Indices: 5162706--5162760 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
5162696 TTGCAAAGGA
5162706 GATATTCTCCATAATAGCCAAAAAGTC
1 GATATTCTCCATAATAGCCAAAAAGTC
5162733 GATATTCTCCATAATAGCCAAAAAGTC
1 GATATTCTCCATAATAGCCAAAAAGTC
5162760 G
1 G
5162761 CTTCATCTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.22, G:0.13, T:0.25
Consensus pattern (27 bp):
GATATTCTCCATAATAGCCAAAAAGTC
Found at i:5165977 original size:2 final size:2
Alignment explanation
Indices: 5165970--5165998 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5165960 TACACAATTC
5165970 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5165999 TTCACTGGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5168674 original size:3 final size:3
Alignment explanation
Indices: 5168659--5168758 Score: 65
Period size: 3 Copynumber: 33.0 Consensus size: 3
5168649 TTTAAGATTT
* * ** * * * * * *
5168659 TTA TTA TTG TTA TTA TTA TTA TTA ATA CCA TCA TCA TCA TCA TCA TGA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* ** *
5168707 TGA TTA TTA TTA TTA TTA TTA TTA TTA TTTA TTA CCA GTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
5168753 TTA TTA
1 TTA TTA
5168759 AATTTTTTAC
Statistics
Matches: 83, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
3 80 0.96
4 3 0.04
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.54
Consensus pattern (3 bp):
TTA
Found at i:5168776 original size:28 final size:28
Alignment explanation
Indices: 5168717--5168776 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
5168707 TGATTATTAT
* *
5168717 TATTATTATTATTATTATTTATTACCAG
1 TATTATTATTATTATAATTTATTACCAA
*
5168745 TATTATTATTATTA-AATTTTTTACACAA
1 TATTATTATTATTATAATTTATTAC-CAA
5168773 TATT
1 TATT
5168777 TATTTATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 8 0.29
28 20 0.71
ACGTcount: A:0.35, C:0.07, G:0.02, T:0.57
Consensus pattern (28 bp):
TATTATTATTATTATAATTTATTACCAA
Found at i:5173084 original size:17 final size:18
Alignment explanation
Indices: 5173050--5173095 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
5173040 CCGTTATGTC
5173050 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
5173065 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
5173082 CGCGACCGCGACCG
1 CGCGACCGCGACCG
5173096 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:5188269 original size:21 final size:22
Alignment explanation
Indices: 5188236--5188277 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
5188226 ATATTGTATA
5188236 TAAAAAAACAAATCAA-AATATG
1 TAAAAAAACAAAT-AATAATATG
*
5188258 TAAAATAA-AAATAATAATAT
1 TAAAAAAACAAATAATAATAT
5188278 ATATATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.50
22 7 0.39
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.24
Consensus pattern (22 bp):
TAAAAAAACAAATAATAATATG
Found at i:5188676 original size:23 final size:22
Alignment explanation
Indices: 5188643--5188760 Score: 103
Period size: 23 Copynumber: 5.2 Consensus size: 22
5188633 AAAATATATA
5188643 AATAATACATGATAAATTTAAAT
1 AATAATA-ATGATAAATTTAAAT
* *
5188666 AAAAATACATGATAAACTTAAAAT
1 AATAATA-ATGATAAA-TTTAAAT
** *
5188690 AATGTTAATAATAAATTTAAAAT
1 AATAATAATGATAAATTT-AAAT
* *
5188713 AATAATATATTATAAATTAAAAT
1 AATAATA-ATGATAAATTTAAAT
* *
5188736 AGTATTAATGATAAATTTAAA-
1 AATAATAATGATAAATTTAAAT
5188757 AATA
1 AATA
5188761 TATTAAACTT
Statistics
Matches: 76, Mismatches: 16, Indels: 8
0.76 0.16 0.08
Matches are distributed among these distances:
21 3 0.04
22 14 0.18
23 40 0.53
24 19 0.25
ACGTcount: A:0.58, C:0.03, G:0.04, T:0.35
Consensus pattern (22 bp):
AATAATAATGATAAATTTAAAT
Found at i:5188760 original size:47 final size:47
Alignment explanation
Indices: 5188651--5188757 Score: 146
Period size: 46 Copynumber: 2.3 Consensus size: 47
5188641 TAAATAATAC
*
5188651 ATGATAAATTT-AAATAAAAATACATGATAAACTTAAAATAATGTTA
1 ATGATAAATTTAAAATAAAAATACATGATAAACTTAAAATAATATTA
* * * * *
5188697 ATAATAAATTTAAAATAATAATATATTATAAA-TTAAAATAGTATTA
1 ATGATAAATTTAAAATAAAAATACATGATAAACTTAAAATAATATTA
5188743 ATGATAAATTTAAAA
1 ATGATAAATTTAAAA
5188758 ATATATTAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
46 36 0.68
47 17 0.32
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (47 bp):
ATGATAAATTTAAAATAAAAATACATGATAAACTTAAAATAATATTA
Found at i:5189986 original size:15 final size:16
Alignment explanation
Indices: 5189966--5190001 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
5189956 CTAGACATTA
5189966 TTTTATTTT-ATTTAG
1 TTTTATTTTAATTTAG
*
5189981 TTTTATTTTAATTTGG
1 TTTTATTTTAATTTAG
5189997 TTTTA
1 TTTTA
5190002 ATGGGCCCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.19, C:0.00, G:0.08, T:0.72
Consensus pattern (16 bp):
TTTTATTTTAATTTAG
Found at i:5190268 original size:15 final size:15
Alignment explanation
Indices: 5190248--5190276 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5190238 GTTGCCTTCA
5190248 GCTTTAATCTGTTCT
1 GCTTTAATCTGTTCT
5190263 GCTTTAATCTGTTC
1 GCTTTAATCTGTTC
5190277 CACTTCAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.14, T:0.52
Consensus pattern (15 bp):
GCTTTAATCTGTTCT
Found at i:5190514 original size:118 final size:118
Alignment explanation
Indices: 5190258--5190516 Score: 358
Period size: 118 Copynumber: 2.2 Consensus size: 118
5190248 GCTTTAATCT
* * * *
5190258 GTTCTGCTTTAATCTGTTCCACTTCAGCTTTAATCTATTCCACTGCAACGCTAGGAAAAAAAGAT
1 GTTCAGCTTTAATCTGTTCCACTTCAGCTTCAATCTATTCCACTACAACACTAGGAAAAAAAGAT
* *
5190323 TCACTGCCTTCAGCTTTAATCTACTACAATGCCAGAGAAATAAGATTATCTGC
66 TCACTGCCTTCAGCTTTAATCTACTACAACGCCAGAGAAATAAGATTAGCTGC
* ** *
5190376 CTTCAGCTTTAAGATGTTCCACTTCAGCTTCAATCTATTCCACTACAACACTAAGG-AAATAAGA
1 GTTCAGCTTTAATCTGTTCCACTTCAGCTTCAATCTATTCCACTACAACACT-AGGAAAAAAAGA
* ** * *
5190440 TTCGCTGCCTTCAGCTTTAATCTACTGTAACGCCAGGGAAATAAGATTCGCTGC
65 TTCACTGCCTTCAGCTTTAATCTACTACAACGCCAGAGAAATAAGATTAGCTGC
*
5190494 GTTCAGCTTTAATCTATTCCACT
1 GTTCAGCTTTAATCTGTTCCACT
5190517 ACAACACTAA
Statistics
Matches: 121, Mismatches: 19, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
118 118 0.98
119 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (118 bp):
GTTCAGCTTTAATCTGTTCCACTTCAGCTTCAATCTATTCCACTACAACACTAGGAAAAAAAGAT
TCACTGCCTTCAGCTTTAATCTACTACAACGCCAGAGAAATAAGATTAGCTGC
Found at i:5190573 original size:97 final size:97
Alignment explanation
Indices: 5190397--5191027 Score: 895
Period size: 97 Copynumber: 6.5 Consensus size: 97
5190387 AGATGTTCCA
* * * * *
5190397 CTTCAGCTTCAATCTATTCCACTACAACACTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
*
5190462 TACTGTAACGCCAGGGAAATAAGATTCGCTGC
66 TACTGCAACGCCAGGGAAATAAGATTCGCTGC
* * * * * **
5190494 GTTCAGCTTTAATCTATTCCACTACAACACTAAGGAGATAAGATTCGTTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* *
5190559 TACTGCAACACCAGGGAAATAAGATTCCCTGC
66 TACTGCAACGCCAGGGAAATAAGATTCGCTGC
*
5190591 CTTCAGCTTTAATCTGTTCCACTGCAACGGC-AAGGAAATAAGATTCACTGCCTTCAACTTTAAT
1 CTTCAGCTTTAATCTGTTCCACTGCAAC-GCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAAT
* *
5190655 CTACTGCAACGCTAGAGAAATAAGATTCGCTGC
65 CTACTGCAACGCCAGGGAAATAAGATTCGCTGC
* * *
5190688 CTTCAGCTTTAATCTATTCCACTGCAATGCTAAGGAAATAAGATTCACTGCCTTCAACTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* * * *
5190753 TACTGCAATGCCAGGGAAATAAGATTTGTTGT
66 TACTGCAACGCCAGGGAAATAAGATTCGCTGC
* *
5190785 CTTCAGCTTTAATATGTTCCACTGCAACGCTAAGGAAATAAGATTCGCTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* *
5190850 TACTGCAACGCCAAGGAAATAAGATTCGTTGC
66 TACTGCAACGCCAGGGAAATAAGATTCGCTGC
* * *
5190882 CTTCAGCTTTAATATGTTCCACTGCAATGCCAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
* * *
5190947 TACTGCAACGCTAGGTAAATAAGATTCACTGC
66 TACTGCAACGCCAGGGAAATAAGATTCGCTGC
* * * *
5190979 TTTCAGCTTTAATCTGTTCCACTGTAATGCCAAGGAAATAAGATTCACT
1 CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACT
5191028 ATAATGACTT
Statistics
Matches: 485, Mismatches: 47, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
96 2 0.00
97 482 0.99
98 1 0.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (97 bp):
CTTCAGCTTTAATCTGTTCCACTGCAACGCTAAGGAAATAAGATTCACTGCCTTCAGCTTTAATC
TACTGCAACGCCAGGGAAATAAGATTCGCTGC
Found at i:5193274 original size:5 final size:5
Alignment explanation
Indices: 5193266--5193308 Score: 50
Period size: 5 Copynumber: 7.8 Consensus size: 5
5193256 GGCCTCTCCT
5193266 TTTTC TTTTC TTTGTC TTTTTTC TTTTC TTTTTC TTTTC TTTT
1 TTTTC TTTTC TTT-TC --TTTTC TTTTC -TTTTC TTTTC TTTT
5193309 TTCATCTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
5 22 0.65
6 7 0.21
7 2 0.06
8 3 0.09
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:5193283 original size:11 final size:11
Alignment explanation
Indices: 5193266--5193309 Score: 63
Period size: 11 Copynumber: 3.9 Consensus size: 11
5193256 GGCCTCTCCT
5193266 TTTTC-TTTTC
1 TTTTCTTTTTC
5193276 TTTGTCTTTTTTC
1 TTT-TC-TTTTTC
5193289 TTTTCTTTTTC
1 TTTTCTTTTTC
5193300 TTTTCTTTTT
1 TTTTCTTTTT
5193310 TCATCTTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.10
11 18 0.58
12 2 0.06
13 8 0.26
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:5193292 original size:23 final size:23
Alignment explanation
Indices: 5193266--5193311 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
5193256 GGCCTCTCCT
5193266 TTTTC-TTTTCTTTGTCTTTTTTC
1 TTTTCTTTTTCTTT-TCTTTTTTC
5193289 TTTTCTTTTTCTTTTCTTTTTTC
1 TTTTCTTTTTCTTTTCTTTTTTC
5193312 ATCTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (23 bp):
TTTTCTTTTTCTTTTCTTTTTTC
Found at i:5193310 original size:12 final size:12
Alignment explanation
Indices: 5193271--5193311 Score: 66
Period size: 11 Copynumber: 3.4 Consensus size: 12
5193261 CTCCTTTTTC
5193271 TTTTCTTTGTCTT
1 TTTTCTTT-TCTT
5193284 TTTTCTTTTC-T
1 TTTTCTTTTCTT
5193295 TTTTCTTTTCTT
1 TTTTCTTTTCTT
5193307 TTTTC
1 TTTTC
5193312 ATCTTTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.41
12 8 0.30
13 8 0.30
ACGTcount: A:0.00, C:0.17, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTCTT
Found at i:5193311 original size:18 final size:18
Alignment explanation
Indices: 5193265--5193303 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
5193255 TGGCCTCTCC
5193265 TTTTTCTTTTCTTTGTCT
1 TTTTTCTTTTCTTTGTCT
*
5193283 TTTTTCTTTTCTTTTTCT
1 TTTTTCTTTTCTTTGTCT
5193301 TTT
1 TTT
5193304 CTTTTTTCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTCTTTGTCT
Found at i:5197271 original size:21 final size:22
Alignment explanation
Indices: 5197241--5197284 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
5197231 TCAGAGCGTC
*
5197241 AGTCCTATGAATAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
5197263 AGTCC-ATGAACAATGGAGTCA
1 AGTCCTATGAACAATGGAGTCA
5197284 A
1 A
5197285 ATCATAAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (22 bp):
AGTCCTATGAACAATGGAGTCA
Found at i:5201779 original size:29 final size:29
Alignment explanation
Indices: 5201746--5201803 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
5201736 CTATATAGAT
*
5201746 CGGATCAAATTAG-ACATTCTATTATTAAA
1 CGGATCAAATTAGTAC-TTATATTATTAAA
*
5201775 CGGATCAATTTAGTACTTATATTATTAAA
1 CGGATCAAATTAGTACTTATATTATTAAA
5201804 AATAATTAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 24 0.92
30 2 0.08
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (29 bp):
CGGATCAAATTAGTACTTATATTATTAAA
Found at i:5204443 original size:20 final size:20
Alignment explanation
Indices: 5204375--5204436 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 20
5204365 TCTCTCAACA
*
5204375 AAAAT-TTTAAAAAAATT-C
1 AAAATATTTATAAAAATTCC
* *
5204393 AAAATAATTT-T-TAAATTTC
1 AAAAT-ATTTATAAAAATTCC
5204412 AAAATATTTATAAAAATTCC
1 AAAATATTTATAAAAATTCC
5204432 AAAAT
1 AAAAT
5204437 TTATATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
18 14 0.40
19 7 0.20
20 14 0.40
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATATTTATAAAAATTCC
Found at i:5204472 original size:20 final size:21
Alignment explanation
Indices: 5204446--5204493 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
5204436 TTTATATATT
5204446 TTAAAAAAT-TAT-AAGAAA-
1 TTAAAAAATATATAAAGAAAG
*
5204464 TTCTAAAAATATATAAAGAAAG
1 TT-AAAAAATATATAAAGAAAG
5204486 TTAAAAAA
1 TTAAAAAA
5204494 GTAAAAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 2 0.08
19 6 0.25
20 3 0.12
21 11 0.46
22 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (21 bp):
TTAAAAAATATATAAAGAAAG
Found at i:5204482 original size:21 final size:18
Alignment explanation
Indices: 5204449--5204492 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
5204439 ATATATTTTA
*
5204449 AAAAATTATAAGAAATTCT
1 AAAAATTATAAGAAAGT-T
5204468 AAAAATATATAAAGAAAGTT
1 AAAAAT-TAT-AAGAAAGTT
5204488 AAAAA
1 AAAAA
5204493 AGTAAAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (18 bp):
AAAAATTATAAGAAAGTT
Found at i:5208403 original size:39 final size:37
Alignment explanation
Indices: 5208360--5208486 Score: 111
Period size: 39 Copynumber: 3.4 Consensus size: 37
5208350 GATCCGATTA
* *
5208360 AAACACGAGAAATTTTTTTTTAAAACACGAGAATTTTGG
1 AAACACGA-AAATTTTTTTTTAAAAAACGAAAATTTT-G
*
5208399 AAACAC--AAA---TTTTTAAAAAAACGAAAATTTATG
1 AAACACGAAAATTTTTTTTTAAAAAACGAAAATTT-TG
* * *
5208432 AAACACGAGATTTTTTTTTTGAAAAAACGAAAATTTTCA
1 AAACACGAAAATTTTTTTTT-AAAAAACGAAAATTTT-G
*
5208471 AAACACCAAAATTTTT
1 AAACACGAAAATTTTT
5208487 GAAAACACAA
Statistics
Matches: 70, Mismatches: 10, Indels: 16
0.73 0.10 0.17
Matches are distributed among these distances:
33 25 0.36
34 1 0.01
35 1 0.01
36 3 0.04
38 6 0.09
39 34 0.49
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.32
Consensus pattern (37 bp):
AAACACGAAAATTTTTTTTTAAAAAACGAAAATTTTG
Found at i:5208428 original size:33 final size:34
Alignment explanation
Indices: 5208375--5208589 Score: 98
Period size: 35 Copynumber: 6.1 Consensus size: 34
5208365 CGAGAAATTT
* * *
5208375 TTTTTTAAAACACGAGAATTT-TGGAAACAC-AAA
1 TTTTTAAAAAAACGAAAATTTAT-GAAACACGAAA
*
5208408 TTTTTAAAAAAACGAAAATTTATGAAACACGAGATTTTT
1 TTTTTAAAAAAACGAAAATTTATGAAACACGA-A----A
* * *
5208447 TTTTTGAAAAAACGAAAATTT-TCAAAACACCAAAA
1 TTTTTAAAAAAACGAAAATTTAT-GAAACA-CGAAA
* * * * *
5208482 TTTTTGAAAACAC-AAGGATTTTTGAAATACGAAAA
1 TTTTTAAAAAAACGAA-AATTTATGAAACACG-AAA
* * * * *
5208517 ATTTGAAAACAA-GAAAATTTTTGAAATACGAAA
1 TTTTTAAAAAAACGAAAATTTATGAAACACGAAA
* * * * *
5208550 ATTTTAGAAACACGAAAATTTATAAAATACGAAAA
1 TTTTTAAAAAAACGAAAATTTATGAAACACG-AAA
5208585 TTTTT
1 TTTTT
5208590 GAAACACAGA
Statistics
Matches: 141, Mismatches: 26, Indels: 28
0.72 0.13 0.14
Matches are distributed among these distances:
33 36 0.26
34 35 0.25
35 40 0.28
36 1 0.01
38 1 0.01
39 26 0.18
40 2 0.01
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.31
Consensus pattern (34 bp):
TTTTTAAAAAAACGAAAATTTATGAAACACGAAA
Found at i:5208473 original size:17 final size:17
Alignment explanation
Indices: 5208448--5208625 Score: 125
Period size: 17 Copynumber: 10.2 Consensus size: 17
5208438 GAGATTTTTT
*
5208448 TTTTGAAAAAACGAAAA
1 TTTTGAAAACACGAAAA
* *
5208465 TTTTCAAAACACCAAAA
1 TTTTGAAAACACGAAAA
*
5208482 TTTTTGAAAACAC-AAGGAT
1 -TTTTGAAAACACGAA--AA
*
5208501 TTTTG-AAATACGAAAA
1 TTTTGAAAACACGAAAA
* *
5208517 ATTTGAAAACAAGAAAA
1 TTTTGAAAACACGAAAA
*
5208534 TTTTTG-AAATACGAAAA
1 -TTTTGAAAACACGAAAA
5208551 TTTT-AGAAACACGAAAA
1 TTTTGA-AAACACGAAAA
*
5208568 TTTAT-AAAATACGAAAA
1 TTT-TGAAAACACGAAAA
**
5208585 TTTTTG-AAACACAGAAGT
1 -TTTTGAAAACAC-GAAAA
5208603 TTTTAGAAAACACGAAAAA
1 TTTT-GAAAACACG-AAAA
5208622 TTTT
1 TTTT
5208626 TGGGGGGGAC
Statistics
Matches: 126, Mismatches: 20, Indels: 28
0.72 0.11 0.16
Matches are distributed among these distances:
16 9 0.07
17 72 0.57
18 32 0.25
19 13 0.10
ACGTcount: A:0.51, C:0.10, G:0.11, T:0.29
Consensus pattern (17 bp):
TTTTGAAAACACGAAAA
Found at i:5209237 original size:29 final size:29
Alignment explanation
Indices: 5209204--5209260 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
5209194 TATATAGATC
*
5209204 GGATCAAATTAG-ACATTCTATTATTAAAT
1 GGATCAAATTAGTAC-TTATATTATTAAAT
*
5209233 GGATCAATTTAGTACTTATATTATTAAA
1 GGATCAAATTAGTACTTATATTATTAAA
5209261 AATAATCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.92
30 2 0.08
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (29 bp):
GGATCAAATTAGTACTTATATTATTAAAT
Found at i:5211911 original size:113 final size:113
Alignment explanation
Indices: 5211713--5211981 Score: 380
Period size: 113 Copynumber: 2.4 Consensus size: 113
5211703 TACTCTAACA
* * * *
5211713 AAAAGCACCGCAAAAAAGATGAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGAGTGTAGCGGCG
1 AAAAGCGCCGCAAAAAAGCT-AAGCCAACGACGCCGTTTTCTGAGTTTCTGCGAGTGTAGCGGCA
* *
5211778 TTTTCTGAAAATCGTTGCTAATGCTC-TTGACTTTAGC-AGCATTTTTTG
65 TTTTCTGAAAATCGTCGCTAATGCTCTTTGACTTTAGCTA-CATTTTCTG
* *
5211826 AAAAGCGTCGCAAAAAAGCTAAGGCCAACGACGCCGTTTTCTGAGTTTCTGCGCGTGTAGCGGCA
1 AAAAGCGCCGCAAAAAAGCTAA-GCCAACGACGCCGTTTTCTGAGTTTCTGCGAGTGTAGCGGCA
* * *
5211891 TTTTTTGAAAATCGTCGCTAATGCTCTTTGCCTTTAGCTACGTTTTCTG
65 TTTTCTGAAAATCGTCGCTAATGCTCTTTGACTTTAGCTACATTTTCTG
*
5211940 AAAAGCGCCGCAAAAAACCTAAAGCCAACGACGCCGTTTTCT
1 AAAAGCGCCGCAAAAAAGCT-AAGCCAACGACGCCGTTTTCT
5211982 TTGTTTTTGG
Statistics
Matches: 139, Mismatches: 13, Indels: 7
0.87 0.08 0.04
Matches are distributed among these distances:
112 2 0.01
113 80 0.58
114 54 0.39
115 3 0.02
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (113 bp):
AAAAGCGCCGCAAAAAAGCTAAGCCAACGACGCCGTTTTCTGAGTTTCTGCGAGTGTAGCGGCAT
TTTCTGAAAATCGTCGCTAATGCTCTTTGACTTTAGCTACATTTTCTG
Found at i:5212009 original size:114 final size:113
Alignment explanation
Indices: 5211713--5212030 Score: 397
Period size: 114 Copynumber: 2.8 Consensus size: 113
5211703 TACTCTAACA
* * * *
5211713 AAAAGCACCGCAAAAAAGATGAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGAGTGTAGCGGCG
1 AAAAGCGCCGCAAAAAAGCTAAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGCGTGTAGCGGCG
* * *
5211778 TTTTCTGAAAATCGTTGCTAATGCTCTTGACTTTAGCAGCATTTTTTG
66 TTTTTTGAAAATCGTCGCTAATGCTCTTGACTTTAGCAGCATTTTCTG
* * * *
5211826 AAAAGCGTCGCAAAAAAGCTAAGGCCAACGACGCCGTTTTCTGAGTTTCTGCGCGTGTAGCGGCA
1 AAAAGCGCCGCAAAAAAGCTAAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGCGTGTAGCGGCG
* *
5211891 TTTTTTGAAAATCGTCGCTAATGCTCTTTGCCTTTAGCTA-CGTTTTCTG
66 TTTTTTGAAAATCGTCGCTAATGCTC-TTGACTTTAGC-AGCATTTTCTG
* ** * * * *
5211940 AAAAGCGCCGCAAAAAACCTAAAGCCAACGACGCCGTTTTCTTTGTTTTTGGGCCTTTAGCAGCG
1 AAAAGCGCCGCAAAAAAGCTAAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGCGTGTAGCGGCG
* *
5212005 TTTTTAT-AAAAGCGCCGCTAATGCTC
66 TTTTT-TGAAAATCGTCGCTAATGCTC
5212031 CGGCCTTTAG
Statistics
Matches: 176, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
113 81 0.46
114 93 0.53
115 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.30
Consensus pattern (113 bp):
AAAAGCGCCGCAAAAAAGCTAAAGCCAACGACGCCGTTTTCTGAGTTTCTGGGCGTGTAGCGGCG
TTTTTTGAAAATCGTCGCTAATGCTCTTGACTTTAGCAGCATTTTCTG
Found at i:5212695 original size:7 final size:7
Alignment explanation
Indices: 5212685--5212767 Score: 60
Period size: 7 Copynumber: 11.9 Consensus size: 7
5212675 TTAAACTTAA
5212685 GGGTTTG
1 GGGTTTG
5212692 GGGTTT-
1 GGGTTTG
* *
5212698 GGGATTA
1 GGGTTTG
* *
5212705 GGGATTA
1 GGGTTTG
*
5212712 GGGTTTT
1 GGGTTTG
*
5212719 GAGTTTG
1 GGGTTTG
*
5212726 GGGTTTA
1 GGGTTTG
* *
5212733 GTGTTCG
1 GGGTTTG
*
5212740 GGGTTAG
1 GGGTTTG
5212747 GGGTTTAG
1 GGGTTT-G
5212755 GGGTTTG
1 GGGTTTG
5212762 GGGTTT
1 GGGTTT
5212768 AAGGATAATT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
6 5 0.08
7 49 0.80
8 7 0.11
ACGTcount: A:0.10, C:0.01, G:0.48, T:0.41
Consensus pattern (7 bp):
GGGTTTG
Found at i:5212759 original size:15 final size:15
Alignment explanation
Indices: 5212739--5212768 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5212729 TTTAGTGTTC
5212739 GGGGTTAGGGGTTTA
1 GGGGTTAGGGGTTTA
*
5212754 GGGGTTTGGGGTTTA
1 GGGGTTAGGGGTTTA
5212769 AGGATAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.00, G:0.53, T:0.37
Consensus pattern (15 bp):
GGGGTTAGGGGTTTA
Found at i:5213569 original size:232 final size:232
Alignment explanation
Indices: 5213230--5213734 Score: 850
Period size: 232 Copynumber: 2.2 Consensus size: 232
5213220 GTTTTCTTTG
* * * *
5213230 TTAAGGAAACTGCATCGTTTTCCATTGTTATTAGTGGCGCTACACCCAAGACGCCGCGAATATAT
1 TTAAGGAAACTGCGTCATTTTCCATTGTTATTAGTGGCGCTACACCCAAGACGCCACAAATATAT
*
5213295 TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCGCTTGAGT
66 TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTGAGT
* *
5213360 ATAAACGCCGCAAAAATCCAAATGGTGTTACGAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
131 ATAAACGCCGCAAAAATCCAAATGGTATTACAAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
* *
5213425 GGCGCTTCTAATAAACGCTGCAAATATGCATTATAAC
196 GGCGCTTCTAATAAACGCCGCAAAGATGCATTATAAC
* * *
5213462 TTAAGGAAACTTCGTCATTTTCCATTGTTATTAGTGGTGCTACACCCAAGATGCCACAAATATAT
1 TTAAGGAAACTGCGTCATTTTCCATTGTTATTAGTGGCGCTACACCCAAGACGCCACAAATATAT
* *
5213527 TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCTTTTGACCTTATATTTAGTGGCACTTGTGT
66 TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTGAGT
*
5213592 ATAAACGCCGCAAATATCCAAATGGTATTACAAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
131 ATAAACGCCGCAAAAATCCAAATGGTATTACAAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
*
5213657 GGCGCTTCTCATAAACGCCGCAAAGATGCATTATAAC
196 GGCGCTTCTAATAAACGCCGCAAAGATGCATTATAAC
5213694 TTAAGGAAACTGCGT-AGTTTTCCATTGTTATTAGTGGCGCT
1 TTAAGGAAACTGCGTCA-TTTTCCATTGTTATTAGTGGCGCT
5213735 TGCTTAAAAT
Statistics
Matches: 254, Mismatches: 18, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
231 1 0.00
232 253 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (232 bp):
TTAAGGAAACTGCGTCATTTTCCATTGTTATTAGTGGCGCTACACCCAAGACGCCACAAATATAT
TTTAAAATTTACAGGAGTTTGAGTTAAACGACTGCGTTTGACCTTATATTTAGTGGCACTTGAGT
ATAAACGCCGCAAAAATCCAAATGGTATTACAAGAAACGGCGCCGTTTACATAGTTGCTTTTAGT
GGCGCTTCTAATAAACGCCGCAAAGATGCATTATAAC
Found at i:5214019 original size:19 final size:19
Alignment explanation
Indices: 5213997--5214041 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
5213987 CTCTCATCTC
*
5213997 CCCCAAATCACTAAAATTT
1 CCCCAAATCACTAAAAGTT
* * *
5214016 CCCCTAATCCCTAACAGTT
1 CCCCAAATCACTAAAAGTT
5214035 CCCCAAA
1 CCCCAAA
5214042 CCCAACGTAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.40, G:0.02, T:0.22
Consensus pattern (19 bp):
CCCCAAATCACTAAAAGTT
Found at i:5216686 original size:56 final size:56
Alignment explanation
Indices: 5216591--5216722 Score: 228
Period size: 56 Copynumber: 2.3 Consensus size: 56
5216581 CAGGACACTT
* *
5216591 CATAACTTATATAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTA
1 CATAACTTATATAATATT-ACATAACTTATATAATATTAAGATAAAATTTCGAATTA
5216648 CATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAATTTCGAATTA
1 CATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAATTTCGAATTA
*
5216704 CATAATTTATATAATATTA
1 CATAACTTATATAATATTA
5216723 AGATAAAATT
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
56 54 0.75
57 18 0.25
ACGTcount: A:0.48, C:0.08, G:0.03, T:0.41
Consensus pattern (56 bp):
CATAACTTATATAATATTACATAACTTATATAATATTAAGATAAAATTTCGAATTA
Found at i:5216714 original size:37 final size:37
Alignment explanation
Indices: 5216663--5216763 Score: 193
Period size: 37 Copynumber: 2.7 Consensus size: 37
5216653 CTTATATAAT
*
5216663 ATTACATAACTTATATAATATTAAGATAAAATTTCGA
1 ATTACATAATTTATATAATATTAAGATAAAATTTCGA
5216700 ATTACATAATTTATATAATATTAAGATAAAATTTCGA
1 ATTACATAATTTATATAATATTAAGATAAAATTTCGA
5216737 ATTACATAATTTATATAATATTAAGAT
1 ATTACATAATTTATATAATATTAAGAT
5216764 TACTTATATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.41
Consensus pattern (37 bp):
ATTACATAATTTATATAATATTAAGATAAAATTTCGA
Found at i:5216779 original size:57 final size:57
Alignment explanation
Indices: 5216705--5216874 Score: 241
Period size: 57 Copynumber: 3.0 Consensus size: 57
5216695 TTCGAATTAC
* * * *
5216705 ATAATTTATATAATATTAAGATAAAATTTCGAATTACATAATTTATATAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAAG
* ** * *
5216762 ATTACTTATATAATATTAAGATAAAATTGATAATTACATAACTCGTTTAATATTAAG
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAAG
* *
5216819 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAA
1 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAA
5216875 TTTCTAATTT
Statistics
Matches: 101, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 101 1.00
ACGTcount: A:0.47, C:0.06, G:0.05, T:0.41
Consensus pattern (57 bp):
ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAAG
Found at i:5216821 original size:94 final size:93
Alignment explanation
Indices: 5216612--5216822 Score: 305
Period size: 94 Copynumber: 2.3 Consensus size: 93
5216602 TAATATTAAG
* *
5216612 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTACATAACTTAT
1 ATAACTCATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTACATAACTTAT
**
5216677 ATAATATTAAGATAAAATTTCGAATTAC
66 ATAATATTAAGATAAAATTGAGAATTAC
* * * * *
5216705 ATAATTTATATAATATTAAGATAAAATTTCGAATTACATAATTTATATAATATTAAGATTACTTA
1 ATAACTCATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATT-ACATAACTTA
*
5216770 TATAATATTAAGATAAAATTGATAATTAC
65 TATAATATTAAGATAAAATTGAGAATTAC
* *
5216799 ATAACTCGTTTAATATTAAGATAA
1 ATAACTCATATAATATTAAGATAA
5216823 CTTATATAAT
Statistics
Matches: 105, Mismatches: 12, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 51 0.49
94 54 0.51
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (93 bp):
ATAACTCATATAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTACATAACTTAT
ATAATATTAAGATAAAATTGAGAATTAC
Found at i:5216852 original size:20 final size:20
Alignment explanation
Indices: 5216592--5216843 Score: 133
Period size: 20 Copynumber: 13.2 Consensus size: 20
5216582 AGGACACTTC
*
5216592 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
*
5216612 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
5216632 ATAAAATT-TCT-A-ATT-AC
1 AT-AAATTATATAATATTAAG
* *
5216649 ATAACTTATATAATATT-AC
1 ATAAATTATATAATATTAAG
*
5216668 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
** *
5216688 ATAAAATT-T-CGA-ATT-AC
1 AT-AAATTATATAATATTAAG
*
5216705 ATAATTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
** *
5216725 ATAAAATT-T-CGA-ATT-AC
1 AT-AAATTATATAATATTAAG
*
5216742 ATAATTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
5216762 ATTACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
5216782 ATAAA--AT-TGATAATT-AC
1 ATAAATTATATAAT-ATTAAG
* ** *
5216799 ATAACTCGTTTAATATTAAG
1 ATAAATTATATAATATTAAG
*
5216819 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
5216839 ATAAA
1 ATAAA
5216844 ATTTCTAATT
Statistics
Matches: 176, Mismatches: 36, Indels: 40
0.70 0.14 0.16
Matches are distributed among these distances:
16 12 0.07
17 21 0.12
18 17 0.10
19 35 0.20
20 79 0.45
21 12 0.07
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAAATTATATAATATTAAG
Found at i:5216985 original size:57 final size:57
Alignment explanation
Indices: 5216910--5217080 Score: 254
Period size: 57 Copynumber: 3.0 Consensus size: 57
5216900 TTTCTCATTT
* * *
5216910 GATAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAA
1 GATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAA
* * *
5216967 GATTAA-TTATATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAA
1 GA-TAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAA
* *
5217024 GATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAA
1 GATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAA
5217081 TTTCTAATTT
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
56 3 0.03
57 99 0.94
58 3 0.03
ACGTcount: A:0.46, C:0.09, G:0.05, T:0.40
Consensus pattern (57 bp):
GATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCATATAATATTAA
Found at i:5217004 original size:206 final size:206
Alignment explanation
Indices: 5216602--5217288 Score: 1063
Period size: 206 Copynumber: 3.3 Consensus size: 206
5216592 ATAACTTATA
** *
5216602 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTA
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTA
** * * * * * * ** ** * *
5216667 CATAACTTATAT-AATATTA-AGATAAAATTTCGAATTACATAATTTATATAATATTAAGATAAA
66 -ATTTCTAATTTGTA-AGTACACAT-CAATTTCTCATTTGATAACTTATACAATATTAAGATAAA
* * **
5216730 ATTTCGAATTACATAATTTATATAATATTAAGATTACTTATATAATATTAAGATAAAATTGATAA
128 ATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATCAAATTTCTAA
5216795 TTACATAACTCGTT
193 TTACATAACTCGTT
5216809 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTA
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTA
5216874 ATTTCTAATTTGTAAGTACACATCAATTTCTCATTTGATAACTTATACAATATTAAGATAAAATT
66 ATTTCTAATTTGTAAGTACACATCAATTTCTCATTTGATAACTTATACAATATTAAGATAAAATT
*
5216939 TCGAATTACATAACTTATATAATATTAAGATTAATTATATAATATTAAGATCAAATTTCTAATTA
131 TCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATCAAATTTCTAATTA
5217004 CATAACTCGTT
196 CATAACTCGTT
5217015 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTA
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTA
*
5217080 ATTTCTAATTTGTAAGTACACATCAATTTCTCATTTTAGGTAACTTATACAATATTAAGATAAAA
66 ATTTCTAATTTGTAAGTACACATCAATTTCTCA-TTT-GATAACTTATACAATATTAAGATAAAA
5217145 TTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATCAAATTTCTAAT
129 TTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATCAAATTTCTAAT
** *
5217210 TACATAACTTATA
194 TACATAACTCGTT
* *
5217223 TAATATTAAGATTACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGATTAATATTA
1 TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTA
5217288 A
66 A
5217289 GATAACTTAT
Statistics
Matches: 447, Mismatches: 29, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
206 214 0.48
207 69 0.15
208 164 0.37
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (206 bp):
TAATATTAAGATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTA
ATTTCTAATTTGTAAGTACACATCAATTTCTCATTTGATAACTTATACAATATTAAGATAAAATT
TCGAATTACATAACTTATATAATATTAAGATTACTTATATAATATTAAGATCAAATTTCTAATTA
CATAACTCGTT
Found at i:5217058 original size:20 final size:20
Alignment explanation
Indices: 5216948--5217049 Score: 86
Period size: 20 Copynumber: 5.2 Consensus size: 20
5216938 TTCGAATTAC
*
5216948 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
*
5216968 ATTAATTATATAATATTAAG
1 ATAAATTATATAATATTAAG
* *
5216988 ATCAAATT-TCT-A-ATT-AC
1 AT-AAATTATATAATATTAAG
* ** *
5217005 ATAACTCGTTTAATATTAAG
1 ATAAATTATATAATATTAAG
*
5217025 ATAACTTATATAATATTAAG
1 ATAAATTATATAATATTAAG
5217045 ATAAA
1 ATAAA
5217050 ATTTCTAATT
Statistics
Matches: 64, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
16 3 0.05
17 5 0.08
18 4 0.06
19 4 0.06
20 44 0.69
21 4 0.06
ACGTcount: A:0.48, C:0.07, G:0.05, T:0.40
Consensus pattern (20 bp):
ATAAATTATATAATATTAAG
Found at i:5217076 original size:94 final size:94
Alignment explanation
Indices: 5216975--5217177 Score: 228
Period size: 94 Copynumber: 2.2 Consensus size: 94
5216965 AAGATTAATT
* * ** *
5216975 ATATAATATTAAGATCAAATTTCTAATTACATAACTCGTT-TAATATTAAGATAACTTATATAAT
1 ATATAATATTAAGATCAAATTTCTAAGTACACAACAAGTTCTAAT-TTAAGATAACTTATACAAT
*
5217039 ATTAAGATAAAATTTCTAATTACATAACTC
65 ATTAAGATAAAATTTCGAATTACATAACTC
* * ** * * * * * * *
5217069 GTTTAATATTAATTTCTAATTTGTAAGTACACATCAATTTCTCATTTTAGGTAACTTATACAATA
1 ATATAATATTAAGATCAAATTTCTAAGTACACAACAAGTTCTAATTTAAGATAACTTATACAATA
*
5217134 TTAAGATAAAATTTCGAATTACATAACTT
66 TTAAGATAAAATTTCGAATTACATAACTC
5217163 ATATAATATTAAGAT
1 ATATAATATTAAGAT
5217178 TACTTATATA
Statistics
Matches: 86, Mismatches: 22, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
94 83 0.97
95 3 0.03
ACGTcount: A:0.43, C:0.10, G:0.06, T:0.41
Consensus pattern (94 bp):
ATATAATATTAAGATCAAATTTCTAAGTACACAACAAGTTCTAATTTAAGATAACTTATACAATA
TTAAGATAAAATTTCGAATTACATAACTC
Found at i:5217183 original size:57 final size:57
Alignment explanation
Indices: 5217122--5217324 Score: 345
Period size: 57 Copynumber: 3.6 Consensus size: 57
5217112 ATTTTAGGTA
* *
5217122 ACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAGATT
*
5217179 ACTTATATAATATTAAGATCAAATTTCTAATTACATAACTTATATAATATTAAGATT
1 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAGATT
* *
5217236 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGAT-TAATATTAAGATA
1 ACTTATATAATATTAAGATAAAATTTCTAATTACATAACT-TATATAATATTAAGATT
5217293 ACTTATATAATATTAAGATAAAATTTCTAATT
1 ACTTATATAATATTAAGATAAAATTTCTAATT
5217325 CCGTAACCTA
Statistics
Matches: 139, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
57 137 0.99
58 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.40
Consensus pattern (57 bp):
ACTTATATAATATTAAGATAAAATTTCTAATTACATAACTTATATAATATTAAGATT
Found at i:5217184 original size:20 final size:20
Alignment explanation
Indices: 5217156--5217313 Score: 145
Period size: 20 Copynumber: 8.2 Consensus size: 20
5217146 TTCGAATTAC
5217156 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
*
5217176 ATTACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
* * *
5217196 ATCAAATT-TCT-A-ATT-AC
1 AT-AACTTATATAATATTAAG
5217213 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
*
5217233 ATTACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
* * *
5217253 ATAAAATT-TCT-A-ATT-AC
1 AT-AACTTATATAATATTAAG
*
5217270 ATAACTCGAT-TAATATTAAG
1 ATAACT-TATATAATATTAAG
5217290 ATAACTTATATAATATTAAG
1 ATAACTTATATAATATTAAG
5217310 ATAA
1 ATAA
5217314 AATTTCTAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 24
0.73 0.11 0.16
Matches are distributed among these distances:
16 7 0.06
17 9 0.08
18 9 0.08
19 10 0.09
20 68 0.62
21 6 0.06
ACGTcount: A:0.47, C:0.08, G:0.04, T:0.41
Consensus pattern (20 bp):
ATAACTTATATAATATTAAG
Found at i:5217218 original size:94 final size:94
Alignment explanation
Indices: 5217025--5217234 Score: 230
Period size: 94 Copynumber: 2.2 Consensus size: 94
5217015 TAATATTAAG
* * * **
5217025 ATAACTTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAATTTCTAATT
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATCTAATT
* * * *
5217090 TGTAAGTACACATCAATTTCTCATTTTAG
66 TATAAGTAAACATCAATTTCTCATATTAC
* * * *
5217119 GTAACTTATACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGAT-TACTT
1 ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATCTAATT
*
5217183 ATATAA-TATTAAGATCAAATTTCT-A-ATTAC
66 -TATAAGTA--AACATC-AATTTCTCATATTAC
5217213 ATAACTTATATAATATTAAGAT
1 ATAACTTATATAATATTAAGAT
5217235 TACTTATATA
Statistics
Matches: 96, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
93 6 0.06
94 78 0.81
95 5 0.05
96 7 0.07
ACGTcount: A:0.43, C:0.10, G:0.05, T:0.41
Consensus pattern (94 bp):
ATAACTTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATCTAATT
TATAAGTAAACATCAATTTCTCATATTAC
Found at i:5217275 original size:151 final size:151
Alignment explanation
Indices: 5216612--5217293 Score: 384
Period size: 151 Copynumber: 4.5 Consensus size: 151
5216602 TAATATTAAG
* ** * * * * *
5216612 ATAACTTATATAATATTAAGATAAAATTTCTAA-T-TACATAACTTATATAATATTACATAACTT
1 ATAACTCATATAATATTAAGATCTAATTTATAAGTAAACATAAATT-TCTCATATTACATAACTT
* * * **
5216675 ATATAATATTAAGATAAAATTTCGAATTACATAATTTATATAATATTAAGATAAAATT-T-CGA-
65 ATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGAT-AACTTATATAAT
* * * *
5216737 ATT-ACAT-AATTTATATAATATTAAG
129 ATTAAGATAAAATT-TCT-A-ATT-AC
* * ** * * * * *
5216762 ATTACTTATATAATATTAAGATAAAATTGATAA-T-TACATAACTCGTT-TAATATTAAGATAAC
1 ATAACTCATATAATATTAAGATCTAATTTATAAGTAAACATAAAT--TTCTCATATT-ACATAAC
* * * ** *
5216824 TTATATAATATTAAGATAAAATTTCTAATTACATAACTCGTTTAATATTAATTTCTAA-TT-TGT
63 TTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAA--GATAACTTATAT
* * * * **
5216887 AAGTA--CACAT-CAATTTCTCATTTG
126 AA-TATTAAGATAAAATTTCTAATTAC
* * ** ** * * * * *
5216911 ATAACTTATACAATATTAAGATAAAATTTCGAA-T-TACATAACTTATATAATATTAAGATTAA-
1 ATAACTCATATAATATTAAGATCTAATTTATAAGTAAACATAAATT-TCTCATATT-ACA-TAAC
* * * *
5216973 TTATATAATATTAAGATCAAATTTCTAATTACATAACTCGTTTAATATTAAGATAACTTATATAA
63 TTATATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATAACTTATATAA
5217038 TATTAAGATAAAATTTCTAATTAC
128 TATTAAGATAAAATTTCTAATTAC
* * ** * * * * **
5217062 ATAACTCGTTTAATATTAATTTCTAATTTGTAAGTACACATCAATTTCTCATTTTAGGTAACTTA
1 ATAACTCATATAATATTAAGATCTAATTTATAAGTAAACATAAATTTCTCATATTACATAACTTA
* * *
5217127 TACAATATTAAGATAAAATTTCGAATTACATAACTTATATAATATTAAGATTACTTATATAATAT
66 TATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATAACTTATATAATAT
*
5217192 TAAGATCAAATTTCTAATTAC
131 TAAGATAAAATTTCTAATTAC
* * *
5217213 ATAACTTATATAATATTAAGAT-TACTTATATAA-TATTAAGATAAAATTTCT-A-ATTACATAA
1 ATAACTCATATAATATTAAGATCTAATT-TATAAGTA--AACAT-AAATTTCTCATATTACATAA
*
5217274 CTCGAT-TAATATTAAGATAA
62 CT-TATATAATATTAAGATAA
5217294 CTTATATAAT
Statistics
Matches: 434, Mismatches: 73, Indels: 49
0.78 0.13 0.09
Matches are distributed among these distances:
147 4 0.01
148 5 0.01
149 104 0.24
150 65 0.15
151 214 0.49
152 19 0.04
153 22 0.05
154 1 0.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (151 bp):
ATAACTCATATAATATTAAGATCTAATTTATAAGTAAACATAAATTTCTCATATTACATAACTTA
TATAATATTAAGATAAAATTTCGAATTACATAACTCATATAATATTAAGATAACTTATATAATAT
TAAGATAAAATTTCTAATTAC
Done.