Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 161 of 182
Found at i:49560719 original size:137 final size:137
Alignment explanation
Indices: 49560558--49560862 Score: 425
Period size: 137 Copynumber: 2.2 Consensus size: 137
49560548 TTGGCTGTAA
*
49560558 TCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATGATCTACTCTACTGCAACTTCAGAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTGCAACTTCAGAGA
* *
49560623 GATAAGATATGTAATTTATAGCTTTAATCTGCTCC-ACTGCAACTTTAGGGAAATAAGATTCACT
66 GATAAGACATGTAATTTATAGCTTTAATCTGCTCCAAC-GCAACTTCAGGGAAATAAGATTCACT
49560687 ATC-TTCAG
130 ATCATT-AG
* * * * *
49560695 TCTGCTCCACTGCAACTTCCGGGAGATAAGGTTTGCCATGATCTGCTTTACTGCAACTTCAGAGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTGCAACTTCAGAGA
* * * * **
49560760 GATAAGACCTGTGATTTATAGCTTTAATCTGTTCCAACGCAGCTTCAGGGAAATAAGATTCGTTA
66 GATAAGACATGTAATTTATAGCTTTAATCTGCTCCAACGCAACTTCAGGGAAATAAGATTCACTA
49560825 TCATTAG
131 TCATTAG
* * *
49560832 TCTACTCCACTGCAACTTTAGGAAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
49560863 CTTCACTTCA
Statistics
Matches: 147, Mismatches: 19, Indels: 4
0.86 0.11 0.02
Matches are distributed among these distances:
137 143 0.97
138 4 0.03
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (137 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATGATCTACTCTACTGCAACTTCAGAGA
GATAAGACATGTAATTTATAGCTTTAATCTGCTCCAACGCAACTTCAGGGAAATAAGATTCACTA
TCATTAG
Found at i:49560724 original size:45 final size:44
Alignment explanation
Indices: 49560110--49561890 Score: 663
Period size: 45 Copynumber: 40.1 Consensus size: 44
49560100 CTGTAGCCCG
* * * * *
49560110 TCTTCAATCTACTCCACTGCAATTTCAGGGA-AGTGAGATCTGCTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGA-TAAGAT-TACTA
*
49560155 TCTTCAGTCTGC-CCTATTGCAACTTCAAGGG-GATAAG---ACT-
1 TCTTCAGTCTGCTCC-ACTGCAACTTC-AGGGAGATAAGATTACTA
* * ** ***
49560195 TGTT-ATGGTCTGCTCTACTGCAACTTCAGAAAGATAAGACCCGCTA
1 TCTTCA--GTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACTA
* * * * ** *
49560241 TCTTCAGTCTGCTCCACTGTAACTTTAGGGATATAA-ACTGGTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * * *
49560284 TCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* *
49560328 TCTGT-AATCTGCTCCTCTGCAACTTCAGGGAGATAAGATT--T-
1 TCT-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * *
49560369 TC--CATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTA
1 TCTTCA-G-TCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-CTA
* * * * * * *
49560418 TAGCTTTAATCTGTTCCACTGTAGCTTCAGGGAAATAAGATTCGCTA
1 T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ACTA
* *
49560465 TCATT-AGTCTGCTCCACTGCAACTTCAAGGAGATAAAACTTA--A
1 TC-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACTA
* * * * * *
49560508 T-TTCAATCTACTCTACTGCAACTTCAGGGAGATAGGATTATTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * *
49560551 GCTGT-AATCTGCTCCACTGCAACTTTAGGGAGATAAGATT--TG
1 TCT-TCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * * * * *
49560593 CCATGA-TCTACTCTACTGCAACTTCAGAGAGATAAGATATGTAATTTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG--AT-T-A-CTA
* * * *
49560641 TAGCTTTAATCTGCTCCACTGCAACTTTAGGGAAATAAGATTCACTA
1 T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ACTA
* * *
49560688 TCTTCAGTCTGCTCCACTGCAACTTCCGGGAGATAAGGTT--TG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * ** *
49560730 CCATGA-TCTGCTTTACTGCAACTTCAGAGG-GATAAGACCTGTGATTTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAG-GGAGATAAGA--T-T-A-CTA
* * * * *
49560778 TAGCTTTAATCTGTTCCAAC-GCAGCTTCAGGGAAATAAGATT-CGTTA
1 T--CTTCAGTCTGCTCC-ACTGCAACTTCAGGGAGATAAGATTAC--TA
* * *
49560825 TCATT-AGTCTACTCCACTGCAACTTTAGGAAGATAAGACTT-C-A
1 TC-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACTA
* * * * * * *
49560868 -CTTCAATCCGCTCCACTGCAACTTAAGGGTGATAGGATTATTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * * *
49560911 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATT--TG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * ** ** * *
49560953 CCATGA-TCCACTTTACTGCAACTTCAGAGAGATAAGATCTGTGATTTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA--T-T-A-CTA
* * * * * *
49561001 TAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTA
1 T--CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ACTA
* * * * * ** *
49561048 TCTTTAGTATGCTCTACTGCATCTTCAGGGAGATAAGACTGGTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* ** * *
49561092 TCTTCAATCCACTCGACTACAACTTCAGGGAGATAAGATTA-T-
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * *
49561134 TGGTTGTAATCTGCTCCACTGCAACTTCAAGGAGATAAGATT--T-
1 T-CTT-CAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * * *
49561177 TC--CATGATATGCTCTACTACAACTTCAGGGAAATAAGATTCGCTA
1 TCTTCA-G-TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ACTA
* *
49561222 TCATT-AGTCTGCTCCACTGCAACTTCAAGGAGATGAGATT--T-
1 TC-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * * *
49561263 TC--CATGATATGCTCTACTACAACTTCAGGGAAATAAGATTCGCTA
1 TCTTCA-G-TCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ACTA
*
49561308 TCATT-AGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTTA-TCA
1 TC-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACT-A
* * * * * * * *
49561353 -CTTTAATCCGCTCCACTACAATTTCAGGGAGATAGGATTATTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * * *
49561396 GCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTCACCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ACTA
* * * * *
49561441 TCTTCAGTCTACCCCACTACAACTTCAAGGG-GATAAGACTTGCTT
1 TCTTCAGTCTGCTCCACTGCAACTTC-AGGGAGATAAGA-TTACTA
* * * *
49561486 TCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATATGATTCGCCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATT-ACTA
* * * * *
49561531 TCTTCAGTCTGCCCCACTACAACTTCAGGGGGATAAGACTTGCTT
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACTA
* * *
49561576 TCTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTT-GTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACTA
* * * ** * * * * *
49561620 ACTTTAATCCACTCTACTGTAACTTCAGGGAGATAGGATTATTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * * * * *
49561664 GCATT-AATTTGCTTCACTACAACTTCAGGGAGATAAGATTTGCCA
1 TC-TTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACTA
* * * * *
49561709 TCTTCAGTCTGCCCCACTGTAACTTCAGAGG-GATAAAACTTGCTT
1 TCTTCAGTCTGCTCCACTGCAACTTCAG-GGAGATAAGA-TTACTA
* * * *
49561754 TCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATT-GTA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG-ATTACTA
* * * * * *
49561798 ACTTTAGTCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTG
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
* * * * * * *
49561842 GCTTTAATTTGCTCCACTACAACTTTAGGGAG-TAAGATTTACCA
1 TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGA-TTACTA
49561886 TCTTC
1 TCTTC
49561891 TTTGATTCAT
Statistics
Matches: 1301, Mismatches: 314, Indels: 243
0.70 0.17 0.13
Matches are distributed among these distances:
39 4 0.00
40 6 0.00
41 196 0.15
42 73 0.06
43 60 0.05
44 375 0.29
45 417 0.32
46 32 0.02
47 15 0.01
48 9 0.01
49 6 0.00
50 11 0.01
51 94 0.07
52 2 0.00
53 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.31
Consensus pattern (44 bp):
TCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGATTACTA
Found at i:49560739 original size:360 final size:359
Alignment explanation
Indices: 49560289--49561085 Score: 1186
Period size: 360 Copynumber: 2.2 Consensus size: 359
49560279 TGGTGTCTTC
* * * * * * * *
49560289 AATCCGCTCCACTGCAACTTCAGGGAGATAGGATT-ATTGTCTGTAATCTGCTCCTCTGCAACTT
1 AATCTGCTCCACTGCAACTTTAGGGAAATAAGATTCACTATCT-TAGTCTGCTCCACTGCAACTT
* *
49560353 CAGGGAGATAAGATTTTCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTA
65 CAGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGACCTGTGATTTA
* *
49560418 TAGCTTTAATCTGTTCC-ACTGTAGCTTCAGGGAAATAAGATTCGCTATCATTAGTCTGCTCCAC
130 TAGCTTTAATCTGTTCCAAC-GCAGCTTCAGGGAAATAAGATTCGCTATCATTAGTCTACTCCAC
* * * *
49560482 TGCAACTTCAAGG-AGATAAAACTTAATTTCAATCTACTCTACTGCAACTTCAGGGAGATAGGAT
194 TGCAACTT-AAGGAAGATAAAACTTAACTTCAATCCACTCCACTGCAACTTAAGGGAGATAGGAT
* * *
49560546 TATTGGCTGTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGCCATGATCTACTCTACTG
258 TATTGGCTGTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCCACTCTACTG
49560611 CAACTTCAGAGAGATAAGATATGTAATTTATAGCTTT
323 CAACTTCAGAGAGATAAGATATGTAATTTATAGCTTT
49560648 AATCTGCTCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTTAGGGAAATAAGATTCACTATCTT-AGTCTGCTCCACTGCAACTT
* * * *
49560713 CCGGGAGATAAGGTTTGCCATGATCTGCTTTACTGCAACTTCAGAGGGATAAGACCTGTGATTTA
65 CAGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGACCTGTGATTTA
*
49560778 TAGCTTTAATCTGTTCCAACGCAGCTTCAGGGAAATAAGATTCGTTATCATTAGTCTACTCCACT
130 TAGCTTTAATCTGTTCCAACGCAGCTTCAGGGAAATAAGATTCGCTATCATTAGTCTACTCCACT
* * * * *
49560843 GCAACTTTAGGAAGATAAGACTTCACTTCAATCCGCTCCACTGCAACTTAAGGGTGATAGGATTA
195 GCAACTTAAGGAAGATAAAACTTAACTTCAATCCACTCCACTGCAACTTAAGGGAGATAGGATTA
* *
49560908 TTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCCACTTTACTGCA
260 TTGGCTGTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCCACTCTACTGCA
* *
49560973 ACTTCAGAGAGATAAGATCTGTGATTTATAGCTTT
325 ACTTCAGAGAGATAAGATATGTAATTTATAGCTTT
* * * * *
49561008 AATCTGTTCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTATGCTCTACTGCATCTT
1 AATCTGCTCCACTGCAACTTTAGGGAAATAAGATTCACTATC-TTAGTCTGCTCCACTGCAACTT
49561073 CAGGGAGATAAGA
65 CAGGGAGATAAGA
49561086 CTGGTGTCTT
Statistics
Matches: 393, Mismatches: 40, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
359 35 0.09
360 354 0.90
361 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.32
Consensus pattern (359 bp):
AATCTGCTCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTAGTCTGCTCCACTGCAACTTC
AGGGAGATAAGATTTGCCATGATCTGCTCTACTGCAACTTCAGAGAGATAAGACCTGTGATTTAT
AGCTTTAATCTGTTCCAACGCAGCTTCAGGGAAATAAGATTCGCTATCATTAGTCTACTCCACTG
CAACTTAAGGAAGATAAAACTTAACTTCAATCCACTCCACTGCAACTTAAGGGAGATAGGATTAT
TGGCTGTAATCTGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATGATCCACTCTACTGCAA
CTTCAGAGAGATAAGATATGTAATTTATAGCTTT
Found at i:49561204 original size:225 final size:223
Alignment explanation
Indices: 49560654--49561215 Score: 705
Period size: 223 Copynumber: 2.5 Consensus size: 223
49560644 CTTTAATCTG
* * * * ** * * *
49560654 CTCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTGCTCCACTGCAACTTCCGGGA
1 CTCCACTACAACTTAAGGGAGATAAGATT-ATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGA
* * *
49560719 GATAAGGTTTGCCATGATCTGCTTTACTGCAACTTCAGAGGGATAAGACCTGTGATTTATAGCTT
65 GATAAGATTTGCCATGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTT
* * *
49560784 TAATCTGTTCCAACGCAGCTTCAGGGAAATAAGATTCGTTATCATTAGTCTACTCCACTGCAACT
130 TAATCTGTTCCAACGCAACTTCAGGGAAATAAGATTCGCTATCATTAGTATACTCCACTGCAACT
* *
49560849 TTAGGAAGATAAGACTTCACTTCAATCCG
195 TCAGGAAGATAAGACTTCACTTCAATCCA
* * * *
49560878 CTCCACTGCAACTTAAGGGTGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAG
1 CTCCACTACAACTTAAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
**
49560943 ATAAGATTTGCCATGATCCACTTTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTT
66 ATAAGATTTGCCATGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTT
* * * * *
49561008 AATCTGTTCC-ACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTATGCTCTACTGCATCT
131 AATCTGTTCCAAC-GCAACTTCAGGGAAATAAGATTCGCTATCATTAGTATACTCCACTGCAACT
* **
49561072 TCAGGGAGATAAGACTGGTGTCTTCAATCCA
195 TCAGGAAGATAAGACT--TCACTTCAATCCA
* * *
49561103 CTCGACTACAACTTCAGGGAGATAAGATTATTGG-TTGTAATCTGCTCCACTGCAACTTCAAGGA
1 CTCCACTACAACTTAAGGGAGATAAGATTATTGGCTT-TAATCTGCTCCACTGCAACTTCAGGGA
* * * * * *
49561167 GATAAGATTTTCCATGATATGCTCTACTACAACTTCAGGGAAATAAGAT
65 GATAAGATTTGCCATGATCTGCTTTACTGCAACTTCAGAGAGATAAGAT
49561216 TCGCTATCAT
Statistics
Matches: 290, Mismatches: 44, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
222 2 0.01
223 156 0.54
224 27 0.09
225 105 0.36
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (223 bp):
CTCCACTACAACTTAAGGGAGATAAGATTATTGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
ATAAGATTTGCCATGATCTGCTTTACTGCAACTTCAGAGAGATAAGATCTGTGATTTATAGCTTT
AATCTGTTCCAACGCAACTTCAGGGAAATAAGATTCGCTATCATTAGTATACTCCACTGCAACTT
CAGGAAGATAAGACTTCACTTCAATCCA
Found at i:49561252 original size:86 final size:85
Alignment explanation
Indices: 49561015--49561613 Score: 483
Period size: 86 Copynumber: 6.8 Consensus size: 85
49561005 TTTAATCTGT
* * * * * *
49561015 TCCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTATGCTCTACTGCATCTTCAGGGAG
1 TCCACTACAACTTCAGGGAGATAAGATT-GCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAG
* * *
49561080 ATAAGACTGGTGT-CTTCA-ATCCAC
65 ATAAGA-T--TTTCCATCATAT--GC
* * * * *
49561104 TCGACTACAACTTCAGGGAGATAAGATT-AT-TGGTTGTAATCTGCTCCACTGCAACTTCAAGGA
1 TCCACTACAACTTCAGGGAGATAAGATTGCTAT-CTT-TAGTCTGCTCCACTGCAACTTCAGGGA
*
49561167 GATAAGATTTTCCATGATATGC
64 GATAAGATTTTCCATCATATGC
* * * *
49561189 TCTACTACAACTTCAGGGAAATAAGATTCGCTATCATTAGTCTGCTCCACTGCAACTTCAAGGAG
1 TCCACTACAACTTCAGGGAGATAAGATT-GCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAG
* *
49561254 ATGAGATTTTCCATGATATGC
65 ATAAGATTTTCCATCATATGC
* * * *
49561275 TCTACTACAACTTCAGGGAAATAAGATTCGCTATCATTAGTCTGCTCCACTGCAACTTCAAGGAG
1 TCCACTACAACTTCAGGGAGATAAGATT-GCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAG
* * *
49561340 ATAAGACTTATCACTTTA-ATCCGC
65 ATAAGA-TTTTC-CATCATAT--GC
* * ** ** * *
49561364 TCCACTACAATTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTCAGGGAGA
1 TCCACTACAACTTCAGGGAGATAAGATTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGA
** *
49561429 TAAGATTCACCATCTTCA-GTC
66 TAAGATTTTCCATCAT-ATG-C
*
49561450 TACCCCACTACAACTTCAAGGG-GATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAG
1 T---CCACTACAACTTC-AGGGAGATAAGA-TTGCTATCTTTAGTCTGCTCCACTGCAACTTCAG
* ** *
49561514 GGAGATATGATTCGCCATCTTCAGTCTGC
61 GGAGATAAGATTTTCCA---TCA-TATGC
* * * *
49561543 CCCACTACAACTTCAGGGGGATAAGACTTGCTTTCTTTAGTCTGCTCCATTGCAACTTCAGGGAG
1 TCCACTACAACTTCAGGGAGATAAGA-TTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAG
49561608 ATAAGA
65 ATAAGA
49561614 CTTGTAACTT
Statistics
Matches: 427, Mismatches: 58, Indels: 49
0.80 0.11 0.09
Matches are distributed among these distances:
85 30 0.07
86 125 0.29
87 17 0.04
88 68 0.16
89 72 0.17
90 110 0.26
93 3 0.01
94 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (85 bp):
TCCACTACAACTTCAGGGAGATAAGATTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTTTCCATCATATGC
Found at i:49561649 original size:268 final size:262
Alignment explanation
Indices: 49561016--49561781 Score: 900
Period size: 268 Copynumber: 2.9 Consensus size: 262
49561006 TTAATCTGTT
* * * * *
49561016 CCACTGCAACTTTAGGGAAATAAGATTCGCTATCTTTAGTATGCTCTACTGCATCTTCAGGGAGA
1 CCACTACAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGA
* ** * * *
49561081 TAAGACTGGTGTCTTCAATCCACTCGACTACAACTTCAGGGAGATAAGATTATTGG-TTGTAATC
66 TAAGACTTGTAACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTT-TAATC
* * * ** *
49561145 TGCTCCACTGCAACTTCAAGGAGATAAGATTTTCCATGAT-A-TGCT--CTACTACAACTTCAGG
130 TGCTCCACTACAACTTCAGGGAGATAAGATTTACCATCTTCAGT-CTCCCCACTACAACTTCAGG
* * * * ** *
49561206 GAAATAAGA-TTCGCTATCATTAGTCTGCTCCACTGCAACTTCAAGGAGATGAGATTTTCCATGA
194 G-GATAAGACTT-GCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATGAGATTCGCCATCA
*
49561270 TATGCT
257 TATGCC
* * *
49561276 CTACTACAACTTCAGGGAAATAAGATTCGCTATCATTAGTCTGCTCCACTGCAACTTCAAGGAGA
1 CCACTACAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGA
* * * *
49561341 TAAGACTTATCACTTTAATCCGCTCCACTACAATTTCAGGGAGATAGGATTATTGGCTTTAATCT
66 TAAGACTTGTAACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
*
49561406 GCTCCACTACAACTTCAGGGAGATAAGATTCACCATCTTCAGTCTACCCCACTACAACTTCAAGG
131 GCTCCACTACAACTTCAGGGAGATAAGATTTACCATCTTCAGTCT-CCCCACTACAACTTC-AGG
49561471 GGATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT-ATGATTCGCCATCTT
194 GGATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATGA-GATTCGCCA---T
*
49561535 CAGTCTGCC
255 CA-TATGCC
** * *
49561544 CCACTACAACTTCAGGGGGATAAGACTT-GCTTTCTTTAGTCTGCTCCATTGCAACTTCAGGGAG
1 CCACTACAACTTCAGGGAAATAAGA-TTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAG
* ** * *
49561608 ATAAGACTTGTAACTTTAATCCACTCTACTGTAACTTCAGGGAGATAGGATTATTGGCATTAATT
65 ATAAGACTTGTAACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATC
* * **
49561673 TGCTTCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGTAACTTCAGA
130 TGCTCCACTACAACTTCAGGGAGATAAGATTTACCATCTTCAGTCT-CCCCACTACAACTTCAG-
* * *
49561738 GGGATAAAACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAG
193 GGGATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAG
49561782 AGAAATAAGA
Statistics
Matches: 433, Mismatches: 58, Indels: 22
0.84 0.11 0.04
Matches are distributed among these distances:
260 143 0.33
261 5 0.01
262 1 0.00
263 1 0.00
264 60 0.14
265 6 0.01
267 4 0.01
268 211 0.49
269 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (262 bp):
CCACTACAACTTCAGGGAAATAAGATTCGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGA
TAAGACTTGTAACTTTAATCCACTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCT
GCTCCACTACAACTTCAGGGAGATAAGATTTACCATCTTCAGTCTCCCCACTACAACTTCAGGGG
ATAAGACTTGCTTTCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATGAGATTCGCCATCATATG
CC
Found at i:49561689 original size:178 final size:178
Alignment explanation
Indices: 49561495--49561890 Score: 596
Period size: 178 Copynumber: 2.2 Consensus size: 178
49561485 TTCTTTAGTC
* * * *
49561495 TGCTCCACTGCAACTTCAGGGAGATATGATTCGCCATCTTCAGTCTGCCCCACTACAACTTCAGG
1 TGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTACAACTTCAGA
* * * * * * *
49561560 GGGATAAGACTTGCTTTCTTTAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTAACTTT
66 GGGATAAAACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAACTTT
* *
49561625 AATCCACTCTACTGTAACTTCAGGGAGATAGGATTATTGGCATTAATT
131 AATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCATTAATT
* **
49561673 TGCTTCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTGTAACTTCAGA
1 TGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTACAACTTCAGA
49561738 GGGATAAAACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAACTTT
66 GGGATAAAACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAACTTT
* * *
49561803 AGTCCGCTCCACTGCAACTTCAGGGAGATAGGATTATTGGCTTTAATT
131 AATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCATTAATT
* *
49561851 TGCTCCACTACAACTTTAGGGAG-TAAGATTTACCATCTTC
1 TGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTC
49561891 TTTGATTCAT
Statistics
Matches: 196, Mismatches: 22, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
177 16 0.08
178 180 0.92
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (178 bp):
TGCTCCACTACAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCACTACAACTTCAGA
GGGATAAAACTTGCTTTCTTCAGTCTGCTCCACTACAACTTCAGAGAAATAAGAATTGTAACTTT
AATCCACTCCACTGCAACTTCAGGGAGATAGGATTATTGGCATTAATT
Found at i:49563213 original size:49 final size:50
Alignment explanation
Indices: 49563139--49563234 Score: 176
Period size: 49 Copynumber: 1.9 Consensus size: 50
49563129 TCTATTTTTT
49563139 TTTTGTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCGTC
1 TTTTGTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCGTC
*
49563189 TTTT-TTTTAGGACTCAAAGTGCCCTTTGCGGGTTTTCACCTTGGTC
1 TTTTGTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTC
49563235 CATTCTCCTT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 41 0.91
50 4 0.09
ACGTcount: A:0.12, C:0.23, G:0.23, T:0.42
Consensus pattern (50 bp):
TTTTGTTTTAGGACTCAAAGCGCCCTTTGCGGGTTTTCACCTTGGTCGTC
Found at i:49564180 original size:17 final size:18
Alignment explanation
Indices: 49564158--49564195 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
49564148 TGACTTCTCA
49564158 TTTTTCTT-TCCTTTTCT
1 TTTTTCTTCTCCTTTTCT
*
49564175 TTTTTCTTCTCTTTTTCT
1 TTTTTCTTCTCCTTTTCT
49564193 TTT
1 TTT
49564196 CTTTTTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (18 bp):
TTTTTCTTCTCCTTTTCT
Found at i:49564249 original size:30 final size:30
Alignment explanation
Indices: 49564213--49564281 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 30
49564203 CATCATTTTC
49564213 ATTTTTTCATTTTATTATTA-TTTTTGAAAT
1 ATTTTTTCATTTT-TTATTATTTTTTGAAAT
49564243 ATTTTTTTCATTTTTTATTATTTTTTTGAAAT
1 A-TTTTTTCATTTTTTATTA-TTTTTTGAAAT
49564275 ATTTTTT
1 ATTTTTT
49564282 GATTGGATCT
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
30 7 0.19
31 18 0.50
32 11 0.31
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.71
Consensus pattern (30 bp):
ATTTTTTCATTTTTTATTATTTTTTGAAAT
Found at i:49564269 original size:32 final size:31
Alignment explanation
Indices: 49564214--49564281 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 31
49564204 ATCATTTTCA
49564214 TTTTTTCATTTTATTATTATTTTTGAAATAT
1 TTTTTTCATTTTATTATTATTTTTGAAATAT
49564245 TTTTTTCATTTT-TTATTATTTTTTTGAAATAT
1 TTTTTTCATTTTATTATTA--TTTTTGAAATAT
49564277 TTTTT
1 TTTTT
49564282 GATTGGATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 6 0.17
31 12 0.34
32 17 0.49
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (31 bp):
TTTTTTCATTTTATTATTATTTTTGAAATAT
Found at i:49568196 original size:4 final size:4
Alignment explanation
Indices: 49568187--49568225 Score: 78
Period size: 4 Copynumber: 9.8 Consensus size: 4
49568177 AACAATATAT
49568187 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
49568226 AGTGAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:49569222 original size:6 final size:7
Alignment explanation
Indices: 49569201--49569225 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
49569191 AAAGGTATGA
49569201 TTTCTTT
1 TTTCTTT
49569208 TTTCTTT
1 TTTCTTT
49569215 TTTCTTT
1 TTTCTTT
49569222 TTTC
1 TTTC
49569226 ACATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTCTTT
Found at i:49575218 original size:28 final size:28
Alignment explanation
Indices: 49575155--49575235 Score: 137
Period size: 28 Copynumber: 2.9 Consensus size: 28
49575145 GAAGGGACTT
49575155 TAAGTGTAGACTTCACAAATGTG-TTTC
1 TAAGTGTAGACTTCACAAATGTGTTTTC
*
49575182 TAAATGTAGACTTCACAAATGTGTTTTC
1 TAAGTGTAGACTTCACAAATGTGTTTTC
*
49575210 TAAGTGTAGACTTCACAAATATGTTT
1 TAAGTGTAGACTTCACAAATGTGTTT
49575236 GATTTAAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
27 22 0.44
28 28 0.56
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (28 bp):
TAAGTGTAGACTTCACAAATGTGTTTTC
Found at i:49579395 original size:44 final size:44
Alignment explanation
Indices: 49579280--49579395 Score: 119
Period size: 44 Copynumber: 2.6 Consensus size: 44
49579270 GACTTCAATT
* * *
49579280 TGCTCCATTGCAACCTCAAGGAGATAAGATTTGCTTCTTCAGTC
1 TGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCAGTC
* ** * *
49579324 TGCCCCACTGTGACTTCAGGG-GTATAAGACTTG-TTTTCTCAGTC
1 TGCTCCACTGCAACCTCAGGGAG-ATAAGACTTGCTTCT-TCAGTC
*
49579368 TGCTCCACTGCAACCTGAGGGAGATAAG
1 TGCTCCACTGCAACCTCAGGGAGATAAG
49579396 GCCTGATGCG
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
43 4 0.07
44 51 0.91
45 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.29
Consensus pattern (44 bp):
TGCTCCACTGCAACCTCAGGGAGATAAGACTTGCTTCTTCAGTC
Found at i:49579503 original size:44 final size:45
Alignment explanation
Indices: 49579410--49579614 Score: 141
Period size: 44 Copynumber: 4.6 Consensus size: 45
49579400 GATGCGATCC
* * * * * * * *
49579410 ACTCTACTGCAACTTCAGAGAGATAAGATCTATTA-CTTTAATTT
1 ACTCCACTACAACTTTAGGGAGATAAGATTTATCAGCTTCAATCT
* * * *
49579454 GCTCCACTACAACTTCAGGGAGATAGGA-TTATCGGCTTCAATCT
1 ACTCCACTACAACTTTAGGGAGATAAGATTTATCAGCTTCAATCT
* * * *
49579498 ACTCCACTATAACTTTAGGGAGATAAGATTTGTCATCTTCGATCT
1 ACTCCACTACAACTTTAGGGAGATAAGATTTATCAGCTTCAATCT
* * ** *
49579543 AC-CACACTACAACTTTAGGGGGATAAGACCTGCTTA-C-TCAATCT
1 ACTC-CACTACAACTTTAGGGAGATAAGA-TTTATCAGCTTCAATCT
* * *
49579587 GCTCCGCTACAACTTCAGGGAGATAAGA
1 ACTCCACTACAACTTTAGGGAGATAAGA
49579615 CCTGATGCGA
Statistics
Matches: 127, Mismatches: 29, Indels: 10
0.77 0.17 0.06
Matches are distributed among these distances:
43 3 0.02
44 83 0.65
45 38 0.30
46 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (45 bp):
ACTCCACTACAACTTTAGGGAGATAAGATTTATCAGCTTCAATCT
Found at i:49579666 original size:218 final size:217
Alignment explanation
Indices: 49579176--49579715 Score: 695
Period size: 218 Copynumber: 2.5 Consensus size: 217
49579166 TATAGTCAGC
* ** * *
49579176 AAGACTTGATGCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCAGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTC
* * * * * * *
49579241 CATTACAACCTCAGGGAGATAGGATTATCGACTTCAATTTGCTCCATTGCAACCTCAAGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTACAACCTCAAGGAGATA
* * * *** * * * * *
49579306 AGATTTGCTTCTTCAGTCTGCCCCACTGTGACTTCAGGGGTATAAGACTTGTTTTCTCAGTCTGC
131 AGATTTGCATCTTCAGTCTACCACACTACAACTTCAGGGGGATAAGACCTGCTTACTCAATCTGC
* *
49579371 TCCACTGCAACCTGAGGGAGAT
196 TCCACTACAACCTCAGGGAGAT
* *
49579393 AAGGCCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATTTGCTC
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTC
* * * *
49579458 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTATAACTTTAGGGAGATA
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTACAACCTCAAGGAGATA
*
49579523 AGATTTGTCATCTTC-GATCTACCACACTACAACTTTAGGGGGATAAGACCTGCTTACTCAATCT
131 AGATTTG-CATCTTCAG-TCTACCACACTACAACTTCAGGGGGATAAGACCTGCTTACTCAATCT
* *
49579587 GCTCCGCTACAACTTCAGGGAGAT
194 GCTCCACTACAACCTCAGGGAGAT
* * * *
49579611 AAGACCTGATGCGATCCACTCTGCTGCAACTTCAGAGAGATGAGATCTATTACTTTAATCTGTTG
1 AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTC
* *
49579676 CACTATAACTTCAGGGAGATAGGATTATCAGCTTCAATCT
66 CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCT
49579716 GCTTCCTTAC
Statistics
Matches: 279, Mismatches: 42, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
217 120 0.43
218 159 0.57
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (217 bp):
AAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTAATCTGCTC
CACTACAACTTCAGGGAGATAGGATTATCGGCTTCAATCTACTCCACTACAACCTCAAGGAGATA
AGATTTGCATCTTCAGTCTACCACACTACAACTTCAGGGGGATAAGACCTGCTTACTCAATCTGC
TCCACTACAACCTCAGGGAGAT
Found at i:49579923 original size:128 final size:128
Alignment explanation
Indices: 49579711--49580349 Score: 693
Period size: 128 Copynumber: 4.9 Consensus size: 128
49579701 TATCAGCTTC
* * * *
49579711 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTACTGCTTAGGG
1 AATCTGCTTCCTTACTCTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAGGG
* ** * * * *
49579776 AGACAATATCTGTACTTTCCAACCTATTCCACTGCTGGC-CAGGGATAT-AGGACTT-GTGGCCT
66 AGACAAGATCTACAATTT-CAACCTACTCCACTGCT-GCTCAGGGAGATAAGG-CTTGGTGGCAT
49579838 A
128 A
*
49579839 AATCTGCTTCCTTACTCTTGAAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGG
1 AATCTGCTTCCTTACTCTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAGGG
* * * * * *
49579904 AGACAAGATCTAAAATTTCCAACCTATTCCACTGCTGAC-CAGGGACAT-AGAACAT-GTGGCTT
66 AGACAAGATCTACAATTT-CAACCTACTCCACTGCTG-CTCAGGGAGATAAG-GCTTGGTGGCAT
49579966 A
128 A
* * * *
49579967 AATCTACTTCCTTACACTTGAAGATAAGATTCGTAGTCTTCGATCTGCTCCGCTACTGCTTAGGG
1 AATCTGCTTCCTTACTCTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAGGG
* * **
49580032 AAACAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCATA
66 AGACAAGATCTACAA-TTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCATA
* * * * * *
49580096 AATCTGCTTCC-CACTATCTTGGAAATATAAGATTTTTCGTCCTCGATCTGCTCCACTACTACTT
1 AATCTGCTTCCTTAC--TCTT-G-AAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTT
* *
49580160 AGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTTGGTGGC
62 AGGGAGACAAGATCTACAAT-TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGC
49580225 ATA
126 ATA
* * * * *
49580228 AATTTGCTTCC-CACTATCTTGGAAAGATAAGATTT-TCCGTCCTCGATCTACTCCACTACTGCT
1 AATCTGCTTCCTTAC--TCTT-G-AAGATAAGATTTGT-CGTCTTCGATCTGCTCCGCTACTGCT
*
49580291 TAGGGAGATAAGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
61 TAGGGAGACAAGATCTACAAT-TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
49580350 AGCAATTTCA
Statistics
Matches: 450, Mismatches: 49, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
127 2 0.00
128 212 0.47
129 22 0.05
130 3 0.01
131 3 0.01
132 208 0.46
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (128 bp):
AATCTGCTTCCTTACTCTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAGGG
AGACAAGATCTACAATTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCATA
Found at i:49580161 original size:132 final size:129
Alignment explanation
Indices: 49579711--49580349 Score: 688
Period size: 132 Copynumber: 4.9 Consensus size: 129
49579701 TATCAGCTTC
* * * *
49579711 AATCTGCTTCCTTAC-A-CTTGAAGATAAGATTCGCCGTCTTCGATCTACTCCGCTACTGCTTAG
1 AATCTGCTTCC-CACTATCTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAG
* ** * * * * *
49579774 GGAGACAATATCTGTACTTTCCAACCTATTCCACTGCTGGC-CAGGGATAT-AGGACTTGTGGCC
65 GGAGACAAGATCTACAATTTTCAACCTACTCCACTGCT-GCTCAGGGAGATAAGG-CTTGTGGCA
49579837 TA
128 TA
* *
49579839 AATCTGCTT-CC-TTACTCTTGAAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTTAG
1 AATCTGCTTCCCACTA-TCTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAG
* * * * * * *
49579902 GGAGACAAGATCTAAAATTTCCAACCTATTCCACTGCTGAC-CAGGGACAT-AGAACATGTGGCT
65 GGAGACAAGATCTACAATTTTCAACCTACTCCACTGCTG-CTCAGGGAGATAAG-GCTTGTGGCA
49579965 TA
128 TA
* * * *
49579967 AATCTACTTCCTTAC-A-CTTGAAGATAAGATTCGTAGTCTTCGATCTGCTCCGCTACTGCTTAG
1 AATCTGCTTCC-CACTATCTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAG
* * **
49580030 GGAAACAAAATCTGTAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGGTGGCAT
65 GGAGACAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTT-GTGGCAT
49580095 A
129 A
* * * * *
49580096 AATCTGCTTCCCACTATCTTGGAAATATAAGATTTTTCGTCCTCGATCTGCTCCACTACTACTTA
1 AATCTGCTTCCCACTATCTT-G-AAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTA
* * *
49580161 GGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCTTGGTGGCA
64 GGGAGACAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTT-GTGGCA
49580226 TA
128 TA
* * * *
49580228 AATTTGCTTCCCACTATCTTGGAAAGATAAGATTT-TCCGTCCTCGATCTACTCCACTACTGCTT
1 AATCTGCTTCCCACTATCTT-G-AAGATAAGATTTGT-CGTCTTCGATCTGCTCCGCTACTGCTT
* *
49580292 AGGGAGATAAGATCTACAATATTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
63 AGGGAGACAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCT
49580350 AGCAATTTCA
Statistics
Matches: 443, Mismatches: 52, Indels: 28
0.85 0.10 0.05
Matches are distributed among these distances:
126 1 0.00
127 3 0.01
128 203 0.46
129 21 0.05
130 4 0.01
131 2 0.00
132 209 0.47
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (129 bp):
AATCTGCTTCCCACTATCTTGAAGATAAGATTTGTCGTCTTCGATCTGCTCCGCTACTGCTTAGG
GAGACAAGATCTACAATTTTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTTGTGGCATA
Found at i:49581598 original size:15 final size:15
Alignment explanation
Indices: 49581575--49581608 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
49581565 AGCCTCTCCA
49581575 TTTTAATTTTTCATT
1 TTTTAATTTTTCATT
*
49581590 TTTTCATTTTTCATT
1 TTTTAATTTTTCATT
49581605 TTTT
1 TTTT
49581609 TTCTTTGACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTAATTTTTCATT
Found at i:49585498 original size:108 final size:106
Alignment explanation
Indices: 49585310--49585504 Score: 302
Period size: 108 Copynumber: 1.8 Consensus size: 106
49585300 AAAATCTAAG
*
49585310 AGGATATTTGGCTATTTGGTTAAACGAGAAATCGAAACCTAGCACATTAGGACACATTTCCTCGA
1 AGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCTAGCACATTAGGACACATTTCCTCGA
49585375 ATTTCCAAACACAAAATATTGTCTTATTTCGAAATTTTAAA
66 ATTTCCAAACACAAAATATTGTCTTATTTCGAAATTTTAAA
* * * *
49585416 AGGATATTTAGCTATTTGGTTGAATGAGAAAAATCGAAA-CTCAGCACATTAGGGCACGTTTCCT
1 AGGATATTTAGCTATTTGGTTAAACGAG--AAATCGAAACCT-AGCACATTAGGACACATTTCCT
*
49585480 CGAATTTCCAAACGCAAAATATTGT
63 CGAATTTCCAAACACAAAATATTGT
49585505 GTTTATTATT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
106 25 0.31
107 2 0.03
108 53 0.66
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (106 bp):
AGGATATTTAGCTATTTGGTTAAACGAGAAATCGAAACCTAGCACATTAGGACACATTTCCTCGA
ATTTCCAAACACAAAATATTGTCTTATTTCGAAATTTTAAA
Found at i:49586470 original size:3 final size:3
Alignment explanation
Indices: 49586434--49586536 Score: 109
Period size: 3 Copynumber: 34.3 Consensus size: 3
49586424 AAATAGAAAT
* * * * * **
49586434 ATA ATG ATA ATA ACA ATA ACA TTA ATA CTA ATA ATA ATA GA-A AGG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA
* *
49586479 ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
49586527 ATA ATA ATA A
1 ATA ATA ATA A
49586537 AATTGCTAAA
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
2 1 0.01
3 83 0.98
4 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:49592514 original size:17 final size:18
Alignment explanation
Indices: 49592494--49592535 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
49592484 ATTTTAAAGT
49592494 AAAAGAATTAATA-AATA
1 AAAAGAATTAATATAATA
*
49592511 AAAA-AATTTATATAATA
1 AAAAGAATTAATATAATA
49592528 AACAAGAA
1 AA-AAGAA
49592536 AAGGCAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.33
17 10 0.48
18 2 0.10
19 2 0.10
ACGTcount: A:0.69, C:0.02, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAAGAATTAATATAATA
Found at i:49592551 original size:5 final size:5
Alignment explanation
Indices: 49592541--49592565 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
49592531 AAGAAAAGGC
49592541 AAAAT AAAAT AAAAT AAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT
49592566 CCCTAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:49592806 original size:16 final size:16
Alignment explanation
Indices: 49592777--49592809 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
49592767 TCTCATTCAT
49592777 TTAATATTTATAAATA
1 TTAATATTTATAAATA
49592793 TTAA-ATTTATTAAATA
1 TTAATATTTA-TAAATA
49592809 T
1 T
49592810 ATATAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATATTTATAAATA
Found at i:49594400 original size:8 final size:8
Alignment explanation
Indices: 49594389--49594454 Score: 51
Period size: 8 Copynumber: 7.5 Consensus size: 8
49594379 AAAAATATAA
49594389 AAAATTAT
1 AAAATTAT
49594397 AAAATTAT
1 AAAATTAT
49594405 AAAATTTTAAT
1 AAAA--TT-AT
*
49594416 AAAAATAT
1 AAAATTAT
*
49594424 AAAAATATT
1 AAAATTA-T
*
49594433 CAAAATTAGA
1 -AAAATTA-T
49594443 AAAATTAT
1 AAAATTAT
49594451 AAAA
1 AAAA
49594455 AAATTTGTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
8 25 0.52
9 9 0.19
10 8 0.17
11 6 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (8 bp):
AAAATTAT
Found at i:49594438 original size:37 final size:37
Alignment explanation
Indices: 49594377--49594458 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
49594367 ACATATGGCA
* * *
49594377 AAAAAAATATAAAAAATTATAAAATTA-TAAAATTTT
1 AAAAAAATATAAAAAATTACAAAATTAGAAAAATTAT
49594413 AATAAAAATATAAAAATATT-CAAAATTAGAAAAATTAT
1 AA-AAAAATATAAAAA-ATTACAAAATTAGAAAAATTAT
49594451 AAAAAAAT
1 AAAAAAAT
49594459 TTGTAACATT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 2 0.05
37 26 0.65
38 12 0.30
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (37 bp):
AAAAAAATATAAAAAATTACAAAATTAGAAAAATTAT
Found at i:49594455 original size:10 final size:10
Alignment explanation
Indices: 49594377--49594495 Score: 56
Period size: 10 Copynumber: 12.4 Consensus size: 10
49594367 ACATATGGCA
*
49594377 AAAAAAATAT
1 AAAAAATTAT
49594387 AAAAAATTAT
1 AAAAAATTAT
49594397 --AAAATTAT
1 AAAAAATTAT
*
49594405 --AAAATTTT
1 AAAAAATTAT
*
49594413 AATAAAAATAT
1 AA-AAAATTAT
49594424 -AAAAA-TAT
1 AAAAAATTAT
**
49594432 TCAAAATTA-
1 AAAAAATTAT
*
49594441 GAAAAATTAT
1 AAAAAATTAT
49594451 AAAAAAATT-T
1 -AAAAAATTAT
** * *
49594461 GTAACATTTT
1 AAAAAATTAT
*
49594471 ATAAAAATCAT
1 A-AAAAATTAT
49594482 AAAAAATTAT
1 AAAAAATTAT
49594492 AAAA
1 AAAA
49594496 TGTATCAAAA
Statistics
Matches: 83, Mismatches: 17, Indels: 18
0.70 0.14 0.15
Matches are distributed among these distances:
8 18 0.22
9 20 0.24
10 26 0.31
11 19 0.23
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.31
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:49594834 original size:20 final size:20
Alignment explanation
Indices: 49594803--49594854 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
49594793 TTTCTATATA
*
49594803 TTTTATAATTTTTACA-CTT
1 TTTTAAAATTTTTACAGCTT
49594822 TTTGTAAAA-TTTTACAGCTT
1 TTT-TAAAATTTTTACAGCTT
*
49594842 TTTTATAATTTTT
1 TTTTAAAATTTTT
49594855 TTACCATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.62
Consensus pattern (20 bp):
TTTTAAAATTTTTACAGCTT
Found at i:49594911 original size:29 final size:27
Alignment explanation
Indices: 49594878--49594939 Score: 72
Period size: 28 Copynumber: 2.3 Consensus size: 27
49594868 ATTTTTTCTA
*
49594878 ATTTTGAATAAATTTTAAATATTTTTAT
1 ATTTTTAATAAATTTTAAATATTTTT-T
* *
49594906 ATTTTTATTAAAATTT-AATAATTTTTT
1 ATTTTTAATAAATTTTAAAT-ATTTTTT
49594933 ATTTTTA
1 ATTTTTA
49594940 TCAGTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
ATTTTTAATAAATTTTAAATATTTTTT
Found at i:49595953 original size:17 final size:17
Alignment explanation
Indices: 49595920--49595973 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
49595910 TGACTTAGGT
*
49595920 TAATTTTTTTATTTATTA
1 TAATTTTTTT-TATATTA
49595938 TAATTTTTTTTATATT-
1 TAATTTTTTTTATATTA
* *
49595954 TATATTTATATTATATTA
1 TA-ATTTTTTTTATATTA
49595972 TA
1 TA
49595974 TTAATTTTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
16 2 0.06
17 17 0.55
18 12 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TAATTTTTTTTATATTA
Found at i:49598369 original size:24 final size:24
Alignment explanation
Indices: 49598337--49598422 Score: 163
Period size: 24 Copynumber: 3.6 Consensus size: 24
49598327 CATTCCCACA
*
49598337 ACCATCATTCCCAAGGCCATCCAT
1 ACCATCATTCCCAAAGCCATCCAT
49598361 ACCATCATTCCCAAAGCCATCCAT
1 ACCATCATTCCCAAAGCCATCCAT
49598385 ACCATCATTCCCAAAGCCATCCAT
1 ACCATCATTCCCAAAGCCATCCAT
49598409 ACCATCATTCCCAA
1 ACCATCATTCCCAA
49598423 GGCCTGGGGT
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 61 1.00
ACGTcount: A:0.33, C:0.42, G:0.05, T:0.21
Consensus pattern (24 bp):
ACCATCATTCCCAAAGCCATCCAT
Found at i:49599578 original size:31 final size:31
Alignment explanation
Indices: 49599540--49599602 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
49599530 TAAGACATAA
49599540 AGTGGTGCTTAATTTTTTTATATTGTCTTTG
1 AGTGGTGCTTAATTTTTTTATATTGTCTTTG
* *
49599571 AGTGGTGCTTATTTTTTTTATATTGTGTTTG
1 AGTGGTGCTTAATTTTTTTATATTGTCTTTG
49599602 A
1 A
49599603 TTTCATTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.16, C:0.05, G:0.21, T:0.59
Consensus pattern (31 bp):
AGTGGTGCTTAATTTTTTTATATTGTCTTTG
Found at i:49603284 original size:12 final size:12
Alignment explanation
Indices: 49603263--49603387 Score: 56
Period size: 12 Copynumber: 9.8 Consensus size: 12
49603253 AAAAACGAAA
*
49603263 TGATTAAAAACT
1 TGATGAAAAACT
* *
49603275 TGATGGAAAATT
1 TGATGAAAAACT
*
49603287 TTATGAAAAGACT
1 TGATGAAAA-ACT
49603300 TGATGAAAAACT
1 TGATGAAAAACT
* *
49603312 TTA-AAAAGAACT
1 TGATGAAA-AACT
*
49603324 TGCT-ACAAAACT
1 TGATGA-AAAACT
*
49603336 TGATAAAAAAAACT
1 TGAT--GAAAAACT
*
49603350 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
49603365 TGATAAAAGAACT
1 TGATGAAA-AACT
*
49603378 AGATGAAAAA
1 TGATGAAAAA
49603388 TACTTGAAGA
Statistics
Matches: 86, Mismatches: 16, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
11 3 0.03
12 41 0.48
13 22 0.26
14 8 0.09
15 10 0.12
17 2 0.02
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.26
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:49603324 original size:24 final size:25
Alignment explanation
Indices: 49603271--49603387 Score: 87
Period size: 25 Copynumber: 4.6 Consensus size: 25
49603261 AATGATTAAA
* *
49603271 AACTTGATGGAAAATTTTATGAAAAG
1 AACTTGATGAAAAACTTTAT-AAAAG
49603297 -ACTTGATGAAAAACTTTA-AAAAG
1 AACTTGATGAAAAACTTTATAAAAG
* * *
49603320 AACTTGCT-ACAAAACTTGATAAAAAA
1 AACTTGATGA-AAAACTTTAT-AAAAG
* *
49603346 AACTTGGTAATTAAAAACTTGATAAAAG
1 AACTT-G--ATGAAAAACTTTATAAAAG
*
49603374 AACTAGATGAAAAA
1 AACTTGATGAAAAA
49603388 TACTTGAAGA
Statistics
Matches: 74, Mismatches: 9, Indels: 17
0.74 0.09 0.17
Matches are distributed among these distances:
23 6 0.08
24 14 0.19
25 23 0.31
26 9 0.12
27 2 0.03
28 8 0.11
29 11 0.15
30 1 0.01
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.26
Consensus pattern (25 bp):
AACTTGATGAAAAACTTTATAAAAG
Found at i:49603363 original size:15 final size:14
Alignment explanation
Indices: 49603330--49603394 Score: 60
Period size: 14 Copynumber: 4.6 Consensus size: 14
49603320 AACTTGCTAC
49603330 AAAACTTGATAAAA
1 AAAACTTGATAAAA
* *
49603344 AAAACTTGGTAATTA
1 AAAACTTGATAA-AA
49603359 AAAACTTGAT-AAA
1 AAAACTTGATAAAA
* * *
49603372 AGAACTAGATGAAA
1 AAAACTTGATAAAA
*
49603386 AATACTTGA
1 AAAACTTGA
49603395 AGAAAGAAAA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
13 9 0.22
14 21 0.52
15 10 0.25
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (14 bp):
AAAACTTGATAAAA
Found at i:49603413 original size:21 final size:21
Alignment explanation
Indices: 49603383--49603422 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
49603373 GAACTAGATG
*
49603383 AAAAATACTTGAA-GAAAGAAA
1 AAAAACACTT-AATGAAAGAAA
49603404 AAAAACACTTAATGAAAGA
1 AAAAACACTTAATGAAAGA
49603423 CTTAATTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.65, C:0.07, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAAACACTTAATGAAAGAAA
Found at i:49604722 original size:7 final size:6
Alignment explanation
Indices: 49604706--49604763 Score: 55
Period size: 6 Copynumber: 9.3 Consensus size: 6
49604696 TGTTTCCTGC
* *
49604706 AAAAAT AAAAAT GAAAAT -AAAAT AAAATAGT AAAAAT AAATAAT AATAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA-A-T AAAAAT AAA-AAT AAAAAT
*
49604756 AATAAT AA
1 AAAAAT AA
49604764 TAGGAAAATT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
5 5 0.11
6 29 0.63
7 7 0.15
8 5 0.11
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.22
Consensus pattern (6 bp):
AAAAAT
Found at i:49604743 original size:19 final size:18
Alignment explanation
Indices: 49604707--49604763 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
49604697 GTTTCCTGCA
*
49604707 AAAATAAAA-ATGAAAAT
1 AAAATAAAATATAAAAAT
49604724 AAAATAAAATAGTAAAAAT
1 AAAATAAAATA-TAAAAAT
*
49604743 -AAATAATAATAATAATAAT
1 AAAATAA-AAT-ATAAAAAT
49604762 AA
1 AA
49604764 TAGGAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
17 9 0.27
18 7 0.21
19 15 0.45
20 2 0.06
ACGTcount: A:0.74, C:0.00, G:0.04, T:0.23
Consensus pattern (18 bp):
AAAATAAAATATAAAAAT
Found at i:49608235 original size:13 final size:12
Alignment explanation
Indices: 49608191--49608316 Score: 63
Period size: 12 Copynumber: 9.8 Consensus size: 12
49608181 AAAAACGAAA
*
49608191 TGATTAAAAACT
1 TGATGAAAAACT
* *
49608203 TGATGGAAAATT
1 TGATGAAAAACT
*
49608215 TTATGAAAAGACT
1 TGATGAAAA-ACT
49608228 TGATGAAAAACT
1 TGATGAAAAACT
* **
49608240 ATAAAAAAAAACT
1 -TGATGAAAAACT
* *
49608253 TGCTGCAAAACT
1 TGATGAAAAACT
*
49608265 TGATAAAGAAAACT
1 TGAT-GA-AAAACT
*
49608279 TGGTAATTAAAAACT
1 T-G--ATGAAAAACT
*
49608294 TGATAAAAGAACT
1 TGATGAAA-AACT
*
49608307 AGATGAAAAA
1 TGATGAAAAA
49608317 TACCTGAAGA
Statistics
Matches: 84, Mismatches: 22, Indels: 16
0.69 0.18 0.13
Matches are distributed among these distances:
12 36 0.43
13 29 0.35
14 8 0.10
15 8 0.10
16 1 0.01
17 2 0.02
ACGTcount: A:0.52, C:0.08, G:0.14, T:0.25
Consensus pattern (12 bp):
TGATGAAAAACT
Found at i:49608276 original size:14 final size:13
Alignment explanation
Indices: 49608259--49608316 Score: 53
Period size: 14 Copynumber: 4.2 Consensus size: 13
49608249 AACTTGCTGC
49608259 AAAACTTGATAAA
1 AAAACTTGATAAA
*
49608272 GAAAACTTGGTAATTA
1 -AAAACTTGATAA--A
49608288 AAAACTTGATAAA
1 AAAACTTGATAAA
* *
49608301 AGAACTAGATGAAA
1 AAAACTTGAT-AAA
49608315 AA
1 AA
49608317 TACCTGAAGA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
13 9 0.25
14 15 0.42
15 11 0.31
16 1 0.03
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.22
Consensus pattern (13 bp):
AAAACTTGATAAA
Found at i:49609183 original size:26 final size:26
Alignment explanation
Indices: 49609130--49609184 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
49609120 TAATGTAATG
*
49609130 ATTTTCATTATGATTTAATATAATAT
1 ATTTTCATTATGAGTTAATATAATAT
* *
49609156 ATTTTCATATATTAGTTAATTTAAATAT
1 ATTTTCAT-TATGAGTTAATAT-AATAT
49609184 A
1 A
49609185 ATATAAGTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 8 0.33
27 10 0.42
28 6 0.25
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.53
Consensus pattern (26 bp):
ATTTTCATTATGAGTTAATATAATAT
Found at i:49612510 original size:15 final size:15
Alignment explanation
Indices: 49612490--49612524 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
49612480 TTATTTTTAG
49612490 TCTCACCAAAATTAA
1 TCTCACCAAAATTAA
49612505 TCTCACCAAAATTAA
1 TCTCACCAAAATTAA
49612520 TCTCA
1 TCTCA
49612525 ACATTGATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (15 bp):
TCTCACCAAAATTAA
Found at i:49625418 original size:14 final size:14
Alignment explanation
Indices: 49625401--49625446 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
49625391 TAAATAGCAC
49625401 ATAATAAATTGAAA
1 ATAATAAATTGAAA
*
49625415 ATAAT---TTTAAA
1 ATAATAAATTGAAA
*
49625426 AAAATAAATTGAAA
1 ATAATAAATTGAAA
49625440 ATAATAA
1 ATAATAA
49625447 TAATGATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
11 9 0.36
14 16 0.64
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.30
Consensus pattern (14 bp):
ATAATAAATTGAAA
Found at i:49625463 original size:23 final size:23
Alignment explanation
Indices: 49625429--49625472 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
49625419 TTTTAAAAAA
49625429 ATAAATTGAAAATAATAATAATG
1 ATAAATTGAAAATAATAATAATG
*
49625452 ATAAACTT-AAAATAATGATAA
1 ATAAA-TTGAAAATAATAATAA
49625473 CCTAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
ATAAATTGAAAATAATAATAATG
Found at i:49625480 original size:16 final size:17
Alignment explanation
Indices: 49625445--49625483 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
49625435 TGAAAATAAT
*
49625445 AATAATGATAAACTTAA
1 AATAATGATAAACCTAA
49625462 AATAATGAT-AACCTAA
1 AATAATGATAAACCTAA
49625478 AATAAT
1 AATAAT
49625484 AATATATGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.28
Consensus pattern (17 bp):
AATAATGATAAACCTAA
Found at i:49627728 original size:18 final size:18
Alignment explanation
Indices: 49627668--49627721 Score: 74
Period size: 18 Copynumber: 3.0 Consensus size: 18
49627658 CTATTATAAC
*
49627668 TATT-TATATATACCATCT
1 TATTATATATATA-TATCT
*
49627686 TATTATATATTTATATCT
1 TATTATATATATATATCT
49627704 TATTATATATATATATCT
1 TATTATATATATATATCT
49627722 CTTTATAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 25 0.78
19 7 0.22
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (18 bp):
TATTATATATATATATCT
Found at i:49627879 original size:30 final size:29
Alignment explanation
Indices: 49627843--49627899 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 29
49627833 TTTTATATAT
49627843 ATATACATACTTACACTATTTTATTTTACG
1 ATATACATACTTACA-TATTTTATTTTACG
*
49627873 ATATACATACTTATATATTTTATTTTA
1 ATATACATACTTACATATTTTATTTTA
49627900 TGTAATATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 12 0.46
30 14 0.54
ACGTcount: A:0.35, C:0.12, G:0.02, T:0.51
Consensus pattern (29 bp):
ATATACATACTTACATATTTTATTTTACG
Found at i:49631126 original size:21 final size:22
Alignment explanation
Indices: 49631093--49631133 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
49631083 TTATTCTTTT
* *
49631093 ATTCTTTCTTTCA-AATCATTC
1 ATTCATTCATTCATAATCATTC
49631114 ATTCATTCATTCATAATCAT
1 ATTCATTCATTCATAATCAT
49631134 ACTGTACAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.29, C:0.22, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTCATTCATTCATAATCATTC
Found at i:49633992 original size:50 final size:49
Alignment explanation
Indices: 49633872--49634414 Score: 340
Period size: 50 Copynumber: 10.9 Consensus size: 49
49633862 ATACCATAGT
* * * ** *
49633872 TTGCAATTCAAAAGATTGAGGCCACAACGGAAAATCTTACCTTCCCAGGCGA
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTA-CTTCCC-GAC-A
*** * * **
49633924 -TGCAGCGGAACAGATTGAAGCTACAACGCCGAATCTCGCTTCCTCGACA
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCC-CGACA
* * * **
49633973 TTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTCCC-AGG
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCGACA
* * * * *
49634021 TGATGCAGTGGAACAGATTGAAGCTACAACGACGAATCTCACTTCCCCGACA
1 T--TGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTT-CCCGACA
* * ** **
49634073 TTGCAATTTAAAAGATTGAAGCCACAACGGAAAATCTTACTTCCC-AGG
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCGACA
** * * **
49634121 TGATGC-AGCGAAATAGATTGAAGCTACGATGGCGAATCACACTTCCCCGACA
1 T--TGCAATTGAAA-AGATTGAAGCTACAACGGCGAATCTTACTT-CCCGACA
* * * * *
49634173 TTGCAATTTAAAATATTGAAGCCACAATGGCGAATCTTACTTCCCAGGCA
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC-GACA
* * * * * *
49634223 ATGCAGTGGAACAGATTGAAGCTACAATGGCGAATCTTGCTTCCCCGACA
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTT-CCCGACA
* * * * *
49634273 TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTCCCAGGCA
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCC-GACA
* *** * * * * *
49634323 ATGCAGCAGAACAGATTGAAGCTACGATGGTGAATCTCGT-TTTCCCGACA
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCT--TACTTCCCGACA
* * *
49634373 TTGCAATTAAAAAGATTGAAGCTACAATGGCTAATCTTACTT
1 TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTT
49634415 TCCAGGCGGT
Statistics
Matches: 362, Mismatches: 111, Indels: 39
0.71 0.22 0.08
Matches are distributed among these distances:
48 5 0.01
49 17 0.05
50 290 0.80
51 45 0.12
52 5 0.01
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.23
Consensus pattern (49 bp):
TTGCAATTGAAAAGATTGAAGCTACAACGGCGAATCTTACTTCCCGACA
Found at i:49634047 original size:100 final size:100
Alignment explanation
Indices: 49633872--49634443 Score: 748
Period size: 100 Copynumber: 5.7 Consensus size: 100
49633862 ATACCATAGT
* * **
49633872 TTGCAATTCAAAAGATTGAGGCCACAACGGAAAATCTTACCTTCCCAGGCGATGCAGCGGAACAG
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTA-CTTCCCAGGCGATGCAGCGGAACAG
* * *
49633937 ATTGAAGCTACAACGCCGAATCTCGCTTCCTCGACA
65 ATTGAAGCTACAATGGCGAATCTCGCTTCCCCGACA
* * *
49633973 TTGCAATTTAAAAGATTGAAGCCACAACAGCGAATCTTACTTCCCAGGTGATGCAGTGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * *
49634038 TTGAAGCTACAACGACGAATCTCACTTCCCCGACA
66 TTGAAGCTACAATGGCGAATCTCGCTTCCCCGACA
** * * *
49634073 TTGCAATTTAAAAGATTGAAGCCACAACGGAAAATCTTACTTCCCAGGTGATGCAGCGAAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * *
49634138 TTGAAGCTACGATGGCGAATCACACTTCCCCGACA
66 TTGAAGCTACAATGGCGAATCTCGCTTCCCCGACA
* * * *
49634173 TTGCAATTTAAAATATTGAAGCCACAATGGCGAATCTTACTTCCCAGGCAATGCAGTGGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
*
49634238 TTGAAGCTACAATGGCGAATCTTGCTTCCCCGACA
66 TTGAAGCTACAATGGCGAATCTCGCTTCCCCGACA
* * * *
49634273 TTGCAATTTAAAAGATTGAGGCCACAACGGCGGATCTTACTTCCCAGGCAATGCAGCAGAACAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
* * * *
49634338 TTGAAGCTACGATGGTGAATCTCGTTTTCCCGACA
66 TTGAAGCTACAATGGCGAATCTCGCTTCCCCGACA
* * * * * * * * *
49634373 TTGCAATTAAAAAGATTGAAGCTACAATGGCTAATCTTACTTTCCAGGCGGTGCAACGAAATAGA
1 TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
49634438 TTGAAG
66 TTGAAG
49634444 TTGCACAACG
Statistics
Matches: 414, Mismatches: 57, Indels: 1
0.88 0.12 0.00
Matches are distributed among these distances:
100 380 0.92
101 34 0.08
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.23
Consensus pattern (100 bp):
TTGCAATTTAAAAGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCGATGCAGCGGAACAGA
TTGAAGCTACAATGGCGAATCTCGCTTCCCCGACA
Found at i:49635697 original size:16 final size:16
Alignment explanation
Indices: 49635676--49635706 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49635666 GTTTTCCAAC
49635676 TTTATTTATCTATTTA
1 TTTATTTATCTATTTA
*
49635692 TTTATTTTTCTATTT
1 TTTATTTATCTATTT
49635707 TTGATTTGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTATCTATTTA
Found at i:49640894 original size:16 final size:16
Alignment explanation
Indices: 49640873--49640903 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49640863 CCAGAGAGAA
49640873 TTTTTTCTTTCTTTTG
1 TTTTTTCTTTCTTTTG
*
49640889 TTTTTTTTTTCTTTT
1 TTTTTTCTTTCTTTT
49640904 CAATGCCCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (16 bp):
TTTTTTCTTTCTTTTG
Found at i:49641554 original size:18 final size:17
Alignment explanation
Indices: 49641533--49641579 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
49641523 CTATTATAAC
49641533 TATTTATATATAGCATCT
1 TATTTATATATA-CATCT
* *
49641551 TATTATATATTTATATCT
1 TATT-TATATATACATCT
49641569 TA-TTATATATA
1 TATTTATATATA
49641580 TCTATATATC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
16 7 0.28
17 1 0.04
18 10 0.40
19 7 0.28
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTTATATATACATCT
Found at i:49650212 original size:18 final size:18
Alignment explanation
Indices: 49650189--49650230 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
49650179 GCAATGTTTT
*
49650189 TAAAAAGTACTTTTGAGA
1 TAAAAAGCACTTTTGAGA
*
49650207 TAAAAAGCGCTTTTGAGA
1 TAAAAAGCACTTTTGAGA
49650225 TAAAAA
1 TAAAAA
49650231 CATTCTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.07, G:0.17, T:0.29
Consensus pattern (18 bp):
TAAAAAGCACTTTTGAGA
Found at i:49662044 original size:30 final size:33
Alignment explanation
Indices: 49661972--49662047 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 33
49661962 ATTTTAAATT
* *
49661972 AATAAAAATAAATTTATATTTTAATTCTTTTAAA
1 AATAATAA-AAATTTATATTTTAATTCTCTTAAA
49662006 AATAATAAAAATTTA-A-TTTAA-TCTCTTAAA
1 AATAATAAAAATTTATATTTTAATTCTCTTAAA
* *
49662036 ATTTATAAAAAT
1 AATAATAAAAAT
49662048 ATAAGATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 18 0.47
31 5 0.13
32 1 0.03
33 7 0.18
34 7 0.18
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (33 bp):
AATAATAAAAATTTATATTTTAATTCTCTTAAA
Found at i:49663332 original size:19 final size:19
Alignment explanation
Indices: 49663297--49663339 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
49663287 CAGAGGTAAT
*
49663297 CTTTTAAAATTTCTTTC-A
1 CTTTTAAAATTTATTTCTA
*
49663315 CTTTCTAAATTTTATTTCTA
1 CTTT-TAAAATTTATTTCTA
49663335 CTTTT
1 CTTTT
49663340 GTTGGTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 4 0.19
19 12 0.57
20 5 0.24
ACGTcount: A:0.23, C:0.16, G:0.00, T:0.60
Consensus pattern (19 bp):
CTTTTAAAATTTATTTCTA
Found at i:49666086 original size:105 final size:105
Alignment explanation
Indices: 49665928--49666280 Score: 460
Period size: 105 Copynumber: 3.4 Consensus size: 105
49665918 CCAGTGCTAG
* *
49665928 ATAGGTTGCGATCTTAAATTA-CTTAACAC-TTATAAAATCAACTGTGAAAGTAGGTTATCGAGC
1 ATAGGTTGCAATCTTAAATTAGC-TAAC-CTTTATAAAATCAACTGTGAAAGTAGGTCATCGAGC
*
49665991 TGTTTAGGAGTTGCGATCTTAAATCAGCTAACTCAAAGATGA
64 TGTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGATGA
* * * * * * * *
49666033 ATAAGTTGCAATATTAAATTAGTTAACCTTTATATAATCAGCTATGAATGTAGGTCATCGAGCTA
1 ATAGGTTGCAATCTTAAATTAGCTAACCTTTATAAAATCAACTGTGAAAGTAGGTCATCGAGCTG
* * * * *
49666098 TTTAGAAGTTACAATTTTAAATCAGCTAACTTAAAGATGA
66 TTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGATGA
* * * *
49666138 ATAGGTTGCAACCTTAAATCAGCTAACCTTTATAAAATCAATTGTGAACA-TAGGTCATTGAGCT
1 ATAGGTTGCAATCTTAAATTAGCTAACCTTTATAAAATCAACTGTGAA-AGTAGGTCATCGAGCT
*
49666202 GTTTAGGAGTTGCGATATTAAATCAACTAACTCAAAGATGA
65 GTTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGATGA
*
49666243 ATAGGTTGCAATCTTAAATAAGCTAACCTTTATAAAAT
1 ATAGGTTGCAATCTTAAATTAGCTAACCTTTATAAAAT
49666281 TAGGATCTGT
Statistics
Matches: 210, Mismatches: 35, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
104 1 0.00
105 209 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (105 bp):
ATAGGTTGCAATCTTAAATTAGCTAACCTTTATAAAATCAACTGTGAAAGTAGGTCATCGAGCTG
TTTAGGAGTTGCGATATTAAATCAGCTAACTCAAAGATGA
Found at i:49671094 original size:50 final size:49
Alignment explanation
Indices: 49670978--49671220 Score: 315
Period size: 50 Copynumber: 4.9 Consensus size: 49
49670968 GATAATAACA
* * ** *
49670978 TGCCAAAGCCATGTCCAAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTC-G
* * * * **
49671029 TTCCCATGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
*
49671079 TGCCAACGCCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
*
49671128 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTCGG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
*
49671179 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49671221 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 136 0.81
51 31 0.18
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.27
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:49672062 original size:13 final size:13
Alignment explanation
Indices: 49672044--49672069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49672034 TGATCAAAAA
49672044 TTGGCTTTTAATT
1 TTGGCTTTTAATT
49672057 TTGGCTTTTAATT
1 TTGGCTTTTAATT
49672070 CATTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGGCTTTTAATT
Found at i:49678682 original size:50 final size:50
Alignment explanation
Indices: 49678607--49678854 Score: 246
Period size: 50 Copynumber: 4.8 Consensus size: 50
49678597 TTTCTTGTAC
* * * * *
49678607 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAACTCTCATATGGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * * *
49678657 TGCCAATGCCATGTCCTAGACATGGTCTTACAGGGGACCTCTCGTCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
* * * *
49678707 TGCCAACGCCATG-CCCCGCACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAG-ACATGGTCTTACATGGGACCTCTCATATTGG
* * * * *
49678757 TGTCAACGCCATGTCCCAGACATGGTCTTACATAGTACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T---TGG
* *
49678813 TGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCTCT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49678855 TTACCCAAAT
Statistics
Matches: 162, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
49 3 0.02
50 117 0.72
51 4 0.02
53 1 0.01
56 37 0.23
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATTGG
Found at i:49679696 original size:13 final size:13
Alignment explanation
Indices: 49679678--49679703 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49679668 TGATCAAAAA
49679678 TTGGCTTTTAATT
1 TTGGCTTTTAATT
49679691 TTGGCTTTTAATT
1 TTGGCTTTTAATT
49679704 CATTTTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (13 bp):
TTGGCTTTTAATT
Found at i:49680820 original size:50 final size:49
Alignment explanation
Indices: 49680704--49680946 Score: 315
Period size: 50 Copynumber: 4.9 Consensus size: 49
49680694 GATAATAACA
* * ** *
49680704 TGCCAAAGCCATGTCCAAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTC-G
* * * * **
49680755 TTCCCATGCCATGTCCCATACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
* *
49680805 TGCCAACGCCATGTCCTAGACATAGTCTTACATGGGACCTCTCATCTCG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
49680854 ATGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTC-G
*
49680905 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
49680947 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 22, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
49 1 0.01
50 136 0.81
51 31 0.18
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (49 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG
Found at i:49682259 original size:21 final size:21
Alignment explanation
Indices: 49682234--49682276 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
49682224 CTCTTTCCTC
49682234 TACTGCTAAAGCCAACAAAAA
1 TACTGCTAAAGCCAACAAAAA
49682255 TACTGCTAAAGCCAACAAAAA
1 TACTGCTAAAGCCAACAAAAA
49682276 T
1 T
49682277 CTTACCACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.23, G:0.09, T:0.16
Consensus pattern (21 bp):
TACTGCTAAAGCCAACAAAAA
Found at i:49688216 original size:109 final size:109
Alignment explanation
Indices: 49688017--49688218 Score: 255
Period size: 109 Copynumber: 1.9 Consensus size: 109
49688007 CAATTTTTAA
* * * **
49688017 ATGTAAGACTATAGCTGGGCTATGGCATTTTCATGAAAAGACCATAATTGGGTTATGGCACCTTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTCATGAAAAGACCATAACTGGGTTATGGCACCTCA
**
49688082 AACGTAAGACCATGGTTGGACTATGGCAGTATATATATATATAT
66 AACGTAAGACCATGGAAGGACTATGGCAGTATATATATATATAT
* * * *
49688126 ATGTAAGACCATAGTTGGGCTATGGCATTCTGATGATAAGACTATAACTGGGTTATGGCA-CTAC
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTCATGAAAAGACCATAACTGGGTTATGGCACCT-C
* *
49688190 AAATGTAAGACCATGGCAAGG-TTATGGCA
65 AAACGTAAGACCATGG-AAGGACTATGGCA
49688219 ATGCATGTGT
Statistics
Matches: 78, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
108 2 0.03
109 74 0.95
110 2 0.03
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.29
Consensus pattern (109 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTCTCATGAAAAGACCATAACTGGGTTATGGCACCTCA
AACGTAAGACCATGGAAGGACTATGGCAGTATATATATATATAT
Found at i:49691474 original size:33 final size:33
Alignment explanation
Indices: 49691403--49691479 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
49691393 GTATATATAT
* * **
49691403 ATAAGACCATAGCTGGGCTATGGCATTCTGATG
1 ATAAGACCATAACTGGGCTATGGCATACAAATG
*
49691436 ATAAGACCATAACTGGGTTATGGCACTACAAATG
1 ATAAGACCATAACTGGGCTATGGCA-TACAAATG
49691470 -TAAGACCATA
1 ATAAGACCATA
49691480 GTTGGAATAT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
33 33 0.87
34 5 0.13
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (33 bp):
ATAAGACCATAACTGGGCTATGGCATACAAATG
Found at i:49698167 original size:27 final size:27
Alignment explanation
Indices: 49698145--49698546 Score: 427
Period size: 27 Copynumber: 15.0 Consensus size: 27
49698135 AAGGGTATAA
49698145 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* *
49698172 CGGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
49698199 CGGTCATTTTATCCTATGGGGTTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
*
49698226 CAGTCATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
49698253 CGGTTATTTTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
49698280 C-GATCATTTTACTCTATTGAGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
*
49698307 CAGTCATTCTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
49698334 C-GATCATTCTACCCCAT-AGGGTATTT
1 CAG-TCATTTTACCCTATGGGGGTATTT
* *
49698360 TAGTCATTTTACCCTAT-GGGGTTTTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** *
49698386 TGGTAATTTTACCCTAT-GGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
49698412 CAATCATTCTACCCTATAGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * * *
49698439 CGGTTATTTTACCTTATGGAGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
** * * *
49698466 TGGTTATTTTACCTTATTGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
49698493 CAGTCATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
* * *
49698520 TAGTTATTTTACCCTATGGCGGTATTT
1 CAGTCATTTTACCCTATGGGGGTATTT
49698547 TGGTCGCCTC
Statistics
Matches: 317, Mismatches: 53, Indels: 10
0.83 0.14 0.03
Matches are distributed among these distances:
26 64 0.20
27 252 0.79
28 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.44
Consensus pattern (27 bp):
CAGTCATTTTACCCTATGGGGGTATTT
Found at i:49702513 original size:32 final size:32
Alignment explanation
Indices: 49702477--49702543 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
49702467 TCCCCTTTGC
* *
49702477 TATAGCATTTCCAGTTATTTACTAATTCCATA
1 TATAGCATTTCAAATTATTTACTAATTCCATA
49702509 TATAGCATTTCAAATTATTTACTAATTCCATA
1 TATAGCATTTCAAATTATTTACTAATTCCATA
49702541 TAT
1 TAT
49702544 TACTCATCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.16, G:0.04, T:0.45
Consensus pattern (32 bp):
TATAGCATTTCAAATTATTTACTAATTCCATA
Found at i:49703977 original size:44 final size:43
Alignment explanation
Indices: 49703913--49704071 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 43
49703903 AATGTGTTAT
49703913 CGTGTAAGACCATGTCTAGGACATTGGCATCGATTTTAGATTTA
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATTTTAGA-TTA
* * * *
49703957 TGTGTAAGACCATGTCTAGGACATTGACGTCG--TATATGATTA
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATTTTA-GATTA
* *
49703999 CGTGTAAGAACC-TGTCT-GTGACAATGGCATTGATATTT-GATTA
1 CGTGTAAG-ACCATGTCTAG-GACATTGGCATCGAT-TTTAGATTA
* * *
49704042 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCATGTCTAGGACATTGGCAT
49704072 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 30 0.32
44 30 0.32
45 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACATTGGCATCGATTTTAGATTA
Found at i:49704073 original size:43 final size:43
Alignment explanation
Indices: 49703913--49704071 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
49703903 AATGTGTTAT
49703913 CGTGTAAGACCATGTCTAGGACATTGGCATCGAT-TTTAGATTTA
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATATTT-GA-TTA
* * * *
49703957 TGTGTAAGACCATGTCTAGGACATTGACGTCG-TATATGATTA
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTA
* *
49703999 CGTGTAAGAACC-TGTCT-GTGACAATGGCATTGATATTTGATTA
1 CGTGTAAG-ACCATGTCTAG-GACATTGGCATCGATATTTGATTA
* * *
49704042 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCATGTCTAGGACATTGGCAT
49704072 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 35 0.37
44 32 0.34
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTA
Found at i:49706610 original size:53 final size:52
Alignment explanation
Indices: 49706542--49706757 Score: 407
Period size: 52 Copynumber: 4.2 Consensus size: 52
49706532 TTTAAAATAC
49706542 TTTTAAAATAATTTTTTTTATTTTTTATTTTTAAAATAATTTTTTTAATGTT
1 TTTTAAAATAATTTTTTTTATTTTTTATTTTTAAAATAATTTTTTTAATGTT
49706594 TTTTAAAATAATTTTTTTTATTTTTTATTTTTAAAATAATTTTTTTAATGTT
1 TTTTAAAATAATTTTTTTTATTTTTTATTTTTAAAATAATTTTTTTAATGTT
49706646 TTTTAAAATAATTTTTTTTATTTTTTATTTTTAAAATAATTTTTTTAATGTT
1 TTTTAAAATAATTTTTTTTATTTTTTATTTTTAAAATAATTTTTTTAATGTT
49706698 TTTTAAAATAATTTTTTTTATTTTTTTATTTTTAAAATAA-TTTTTTAATGTT
1 TTTTAAAATAATTTTTTTTA-TTTTTTATTTTTAAAATAATTTTTTTAATGTT
*
49706750 TATTAAAA
1 TTTTAAAA
49706758 AATGGGTCAG
Statistics
Matches: 162, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
52 143 0.88
53 19 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (52 bp):
TTTTAAAATAATTTTTTTTATTTTTTATTTTTAAAATAATTTTTTTAATGTT
Found at i:49711113 original size:44 final size:43
Alignment explanation
Indices: 49711049--49711207 Score: 157
Period size: 42 Copynumber: 3.7 Consensus size: 43
49711039 AATGTGTTAT
49711049 CGTGTAAGACCATGTCTAGGACATTGGCATCGATTTTAGATTTA
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATTTTAGA-TTA
* * * *
49711093 TGTGTAAGACCATGTCTAGGACATTGACGTCG--TATATGATTA
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATTTTA-GATTA
* *
49711135 CGTGTAAGAACC-TGTCT-GTGACAATGGCATTGATATTT-GATTA
1 CGTGTAAG-ACCATGTCTAG-GACATTGGCATCGAT-TTTAGATTA
* * *
49711178 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCATGTCTAGGACATTGGCAT
49711208 TGTACGAGCT
Statistics
Matches: 93, Mismatches: 14, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
41 1 0.01
42 30 0.32
43 30 0.32
44 30 0.32
45 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACATTGGCATCGATTTTAGATTA
Found at i:49711209 original size:43 final size:43
Alignment explanation
Indices: 49711049--49711207 Score: 173
Period size: 43 Copynumber: 3.7 Consensus size: 43
49711039 AATGTGTTAT
49711049 CGTGTAAGACCATGTCTAGGACATTGGCATCGAT-TTTAGATTTA
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATATTT-GA-TTA
* * * *
49711093 TGTGTAAGACCATGTCTAGGACATTGACGTCG-TATATGATTA
1 CGTGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTA
* *
49711135 CGTGTAAGAACC-TGTCT-GTGACAATGGCATTGATATTTGATTA
1 CGTGTAAG-ACCATGTCTAG-GACATTGGCATCGATATTTGATTA
* * *
49711178 CATGTAAGACCACGTCTAGGACGTTGGCAT
1 CGTGTAAGACCATGTCTAGGACATTGGCAT
49711208 TGTACGAGCT
Statistics
Matches: 95, Mismatches: 14, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
41 1 0.01
42 27 0.28
43 35 0.37
44 32 0.34
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACATTGGCATCGATATTTGATTA
Found at i:49715436 original size:24 final size:26
Alignment explanation
Indices: 49715408--49715456 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
49715398 GTCTTGGATA
49715408 AATCAAAATTCAACT-AGA-AAAAAT
1 AATCAAAATTCAACTAAGAGAAAAAT
* *
49715432 AATCAAAGTTTAACTAAGAGAAAAA
1 AATCAAAATTCAACTAAGAGAAAAA
49715457 AATTGAGTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 13 0.62
25 3 0.14
26 5 0.24
ACGTcount: A:0.61, C:0.10, G:0.08, T:0.20
Consensus pattern (26 bp):
AATCAAAATTCAACTAAGAGAAAAAT
Found at i:49717815 original size:13 final size:14
Alignment explanation
Indices: 49717796--49717835 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
49717786 CAACGGCATA
49717796 GAAATAATATAAAC
1 GAAATAATATAAAC
49717810 -AAATAA-ATAAAC
1 GAAATAATATAAAC
49717822 GAAATGAATATAAA
1 GAAAT-AATATAAA
49717836 AAACAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 6 0.26
13 10 0.43
14 2 0.09
15 5 0.22
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (14 bp):
GAAATAATATAAAC
Found at i:49718597 original size:23 final size:24
Alignment explanation
Indices: 49718553--49718608 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 24
49718543 CAAATTGAAA
* *
49718553 TTAAAAATAAATTAAAGGTTAATT
1 TTAAAAATAAAATAAAGCTTAATT
49718577 TTAAAAATAAAATAAA-CTTAATT
1 TTAAAAATAAAATAAAGCTTAATT
*
49718600 GTAAAAATA
1 TTAAAAATA
49718609 TTAAAAGGTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
23 14 0.48
24 15 0.52
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (24 bp):
TTAAAAATAAAATAAAGCTTAATT
Found at i:49720094 original size:44 final size:44
Alignment explanation
Indices: 49720043--49720160 Score: 123
Period size: 44 Copynumber: 2.7 Consensus size: 44
49720033 GATGTGATCT
* *
49720043 ACTCTACTG-CATCTTTAGAGAGATAAGATCT-GTGGTTTTAATCC
1 ACTCTACTGCCA-CTTCAGAGAGATAAGAT-TAGTGGCTTTAATCC
* *
49720087 ACTCTACTGCCACTTCAGAGAGATAGGATTAGTGGCTTTAATCT
1 ACTCTACTGCCACTTCAGAGAGATAAGATTAGTGGCTTTAATCC
* * * * *
49720131 GCTCCATTGCAACTTCAGGGAGATAAGATT
1 ACTCTACTGCCACTTCAGAGAGATAAGATT
49720161 CGCCATCTTC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
43 1 0.02
44 59 0.95
45 2 0.03
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.32
Consensus pattern (44 bp):
ACTCTACTGCCACTTCAGAGAGATAAGATTAGTGGCTTTAATCC
Found at i:49721024 original size:169 final size:169
Alignment explanation
Indices: 49720538--49721171 Score: 880
Period size: 169 Copynumber: 3.8 Consensus size: 169
49720528 TTACGACTTC
* * * * * * ** *
49720538 AATCTTTTTCACTGTAATGCCAAAGAGATAGGATTCGCTACCCACAGCTTCAATCCACTCCACTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGAATTCACTACCCACAGCTTTAATCTGCTTCACTT
* * * ** * * *
49720603 CAGCTAATCCAAGTCTTAATGCCAGGGAGATAAGATTCTCTGCCCTCAGCTTTAATCTGCTCCAC
66 CAGCTATTTCAACTCTTAACACCAAGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
*
49720668 TGCAACACTAGGGAAACAAGATTCACTACCTTTAGCTTT
131 TGCAACACTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* *
49720707 AATCTGTACCACTATAATGCCAAAGAGATAGAATTCGCTACCCACAGCTTTAATCTG-TTC-CAT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGAATTCACTACCCACAGCTTTAATCTGCTTCAC-T
*
49720770 TCAGCTATTTCAACTCTTAACA-CAAGGGAGATAAGATTCGCTGCCCTCAGCTTTAATATGCTCC
65 TCAGCTATTTCAACTCTTAACACCAA-GGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCC
49720834 GCTGCAACACTAGGGAAACAAGATTCGCTACCTTTAGCTTT
129 GCTGCAACACTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* * * *
49720875 AATCCGTTCCACTACAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTTAATCTGCTTCACTT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGAATTCACTACCCACAGCTTTAATCTGCTTCACTT
* * *
49720940 CAGCTATTTCAACTATTAACACCAAGGAGATAAGATTTGCTGCCCTCAGCTTTAATTTGCTCCGC
66 CAGCTATTTCAACTCTTAACACCAAGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
* *
49721005 TGCAACGCTAAGGAAACAAGATTCGCTACCTTTAGCTTT
131 TGCAACACTAGGGAAACAAGATTCGCTACCTTTAGCTTT
* **
49721044 AATTTGTTCCACTATAATGCCAAAGAGATAGAATTCACTGGCCACAGCTTTAATCTGC-TCTACT
1 AATCTGTTCCACTATAATGCCAAAGAGATAGAATTCACTACCCACAGCTTTAATCTGCTTC-ACT
* * * *
49721108 TCAGCTATTTCAAGTCTTAACGCCAGGGAGATAAGATTCGCTGCCCTTAGCTTTAATCTGCTCC
65 TCAGCTATTTCAACTCTTAACACCAAGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCC
49721172 ACTATAACGT
Statistics
Matches: 417, Mismatches: 42, Indels: 12
0.89 0.09 0.03
Matches are distributed among these distances:
167 3 0.01
168 148 0.35
169 262 0.63
170 4 0.01
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.29
Consensus pattern (169 bp):
AATCTGTTCCACTATAATGCCAAAGAGATAGAATTCACTACCCACAGCTTTAATCTGCTTCACTT
CAGCTATTTCAACTCTTAACACCAAGGAGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCCGC
TGCAACACTAGGGAAACAAGATTCGCTACCTTTAGCTTT
Found at i:49721982 original size:12 final size:12
Alignment explanation
Indices: 49721965--49721989 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49721955 TGACAACAAA
49721965 ATCTGAAGGGAT
1 ATCTGAAGGGAT
49721977 ATCTGAAGGGAT
1 ATCTGAAGGGAT
49721989 A
1 A
49721990 GTCTCAATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.32, T:0.24
Consensus pattern (12 bp):
ATCTGAAGGGAT
Found at i:49725365 original size:30 final size:30
Alignment explanation
Indices: 49725329--49725402 Score: 148
Period size: 30 Copynumber: 2.5 Consensus size: 30
49725319 GGCTCATCAT
49725329 AGTAAATTTCTTTAGAAAACTTTACTAGAA
1 AGTAAATTTCTTTAGAAAACTTTACTAGAA
49725359 AGTAAATTTCTTTAGAAAACTTTACTAGAA
1 AGTAAATTTCTTTAGAAAACTTTACTAGAA
49725389 AGTAAATTTCTTTA
1 AGTAAATTTCTTTA
49725403 CATAAAATGG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.39
Consensus pattern (30 bp):
AGTAAATTTCTTTAGAAAACTTTACTAGAA
Found at i:49726138 original size:157 final size:157
Alignment explanation
Indices: 49725852--49726165 Score: 628
Period size: 157 Copynumber: 2.0 Consensus size: 157
49725842 ATAGAATCCA
49725852 ATACAATCAACAAATAATAAAACACCTATTCGGGTATCTACTAGGGTTCAGTGTAGTTCTACCTA
1 ATACAATCAACAAATAATAAAACACCTATTCGGGTATCTACTAGGGTTCAGTGTAGTTCTACCTA
49725917 AAGTGAATTCCTAAGGTTCACTATATGAGGTTCGGCTTCTAGGGCAAAGGTACCCGAACCAGCAG
66 AAGTGAATTCCTAAGGTTCACTATATGAGGTTCGGCTTCTAGGGCAAAGGTACCCGAACCAGCAG
49725982 ATTCCTCGATCTTCACTCATTATAGGT
131 ATTCCTCGATCTTCACTCATTATAGGT
49726009 ATACAATCAACAAATAATAAAACACCTATTCGGGTATCTACTAGGGTTCAGTGTAGTTCTACCTA
1 ATACAATCAACAAATAATAAAACACCTATTCGGGTATCTACTAGGGTTCAGTGTAGTTCTACCTA
49726074 AAGTGAATTCCTAAGGTTCACTATATGAGGTTCGGCTTCTAGGGCAAAGGTACCCGAACCAGCAG
66 AAGTGAATTCCTAAGGTTCACTATATGAGGTTCGGCTTCTAGGGCAAAGGTACCCGAACCAGCAG
49726139 ATTCCTCGATCTTCACTCATTATAGGT
131 ATTCCTCGATCTTCACTCATTATAGGT
49726166 TCATATAGAT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
157 157 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (157 bp):
ATACAATCAACAAATAATAAAACACCTATTCGGGTATCTACTAGGGTTCAGTGTAGTTCTACCTA
AAGTGAATTCCTAAGGTTCACTATATGAGGTTCGGCTTCTAGGGCAAAGGTACCCGAACCAGCAG
ATTCCTCGATCTTCACTCATTATAGGT
Found at i:49727312 original size:13 final size:14
Alignment explanation
Indices: 49727294--49727342 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 14
49727284 AACGGCATAG
49727294 AAATAATATAAAC-
1 AAATAATATAAACA
49727307 AAATAA-ATAAACA
1 AAATAATATAAACA
*
49727320 AAATGAATATAAAAA
1 AAAT-AATATAAACA
49727335 ACAATAAT
1 A-AATAAT
49727343 CCATGACATG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 6 0.19
13 10 0.32
14 2 0.06
15 10 0.32
16 3 0.10
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATAATATAAACA
Found at i:49728382 original size:13 final size:14
Alignment explanation
Indices: 49728364--49728412 Score: 57
Period size: 13 Copynumber: 3.5 Consensus size: 14
49728354 AACGGCATAG
49728364 AAATAATATAAAC-
1 AAATAATATAAACA
49728377 AAATAA-ATAAACA
1 AAATAATATAAACA
*
49728390 AAATGAATATAAAAA
1 AAAT-AATATAAACA
49728405 ACAATAAT
1 A-AATAAT
49728413 CCATGACATG
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
12 6 0.19
13 10 0.32
14 2 0.06
15 10 0.32
16 3 0.10
ACGTcount: A:0.71, C:0.06, G:0.02, T:0.20
Consensus pattern (14 bp):
AAATAATATAAACA
Found at i:49730397 original size:21 final size:20
Alignment explanation
Indices: 49730360--49730398 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
49730350 TTTAAAGGTA
*
49730360 AATTATATTAGTATTTATTT
1 AATTATATTAATATTTATTT
*
49730380 AATTATTATTAATTTTTAT
1 AATTA-TATTAATATTTAT
49730399 CAAAATGGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (20 bp):
AATTATATTAATATTTATTT
Found at i:49742557 original size:22 final size:23
Alignment explanation
Indices: 49742529--49742577 Score: 82
Period size: 22 Copynumber: 2.2 Consensus size: 23
49742519 GTCTGCCAAA
*
49742529 CATATTATCACTTGTTTATTAT-
1 CATATTATCACATGTTTATTATG
49742551 CATATTATCACATGTTTATTATG
1 CATATTATCACATGTTTATTATG
49742574 CATA
1 CATA
49742578 ATGTAAAACC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (23 bp):
CATATTATCACATGTTTATTATG
Found at i:49747682 original size:44 final size:44
Alignment explanation
Indices: 49747634--49747721 Score: 117
Period size: 44 Copynumber: 2.0 Consensus size: 44
49747624 AAAACTTTTA
*
49747634 AAAAAATAAAT-TTTTTTGA-TTAAAAATAAAAAAATAAAACAATT
1 AAAAAATAAATCTTATTT-ACTTAAAAAT-AAAAAATAAAACAATT
* *
49747678 AAAAAATGAATCTTATTTACTTAAAAATAAAAAATAAAATAATT
1 AAAAAATAAATCTTATTTACTTAAAAATAAAAAATAAAACAATT
49747722 GAATTGAATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
44 26 0.67
45 13 0.33
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (44 bp):
AAAAAATAAATCTTATTTACTTAAAAATAAAAAATAAAACAATT
Found at i:49747853 original size:12 final size:12
Alignment explanation
Indices: 49747836--49747860 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49747826 GGTGTTCATT
49747836 CGGTTAACCGAC
1 CGGTTAACCGAC
49747848 CGGTTAACCGAC
1 CGGTTAACCGAC
49747860 C
1 C
49747861 CGAAATAACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:49748034 original size:9 final size:9
Alignment explanation
Indices: 49748021--49748096 Score: 100
Period size: 9 Copynumber: 8.4 Consensus size: 9
49748011 TTTGGTTAAA
*
49748021 AATTAACCA
1 AATTAACCG
49748030 AATTAACCG
1 AATTAACCG
*
49748039 AATTACCCG
1 AATTAACCG
*
49748048 AATTACCCG
1 AATTAACCG
49748057 AATTAACCG
1 AATTAACCG
49748066 AATT-ACCTG
1 AATTAACC-G
49748075 AATTAACCG
1 AATTAACCG
*
49748084 AATTAACCA
1 AATTAACCG
49748093 AATT
1 AATT
49748097 GAATCACTAC
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
8 3 0.05
9 55 0.90
10 3 0.05
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:49748060 original size:27 final size:27
Alignment explanation
Indices: 49748021--49748096 Score: 116
Period size: 27 Copynumber: 2.8 Consensus size: 27
49748011 TTTGGTTAAA
*
49748021 AATTAACCAAATTAACCGAATTACCCG
1 AATTAACCGAATTAACCGAATTACCCG
* *
49748048 AATTACCCGAATTAACCGAATTACCTG
1 AATTAACCGAATTAACCGAATTACCCG
*
49748075 AATTAACCGAATTAACCAAATT
1 AATTAACCGAATTAACCGAATT
49748097 GAATCACTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.43, C:0.24, G:0.08, T:0.25
Consensus pattern (27 bp):
AATTAACCGAATTAACCGAATTACCCG
Found at i:49748243 original size:18 final size:18
Alignment explanation
Indices: 49748203--49748246 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
49748193 TAATTTTATG
**
49748203 ATTGGGTTGGGTTAGGTA
1 ATTGGGTTGGGTTAAATA
49748221 ATTGGGTTGGGTTAAATA
1 ATTGGGTTGGGTTAAATA
*
49748239 CTTGGGTT
1 ATTGGGTT
49748247 TAGATTGGGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.18, C:0.02, G:0.39, T:0.41
Consensus pattern (18 bp):
ATTGGGTTGGGTTAAATA
Found at i:49752229 original size:43 final size:43
Alignment explanation
Indices: 49752168--49752255 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
49752158 GTTAGAGGAC
49752168 TAAAAAATAAATTTGACCAAAAAGACAATTGATACTTATTAGT
1 TAAAAAATAAATTTGACCAAAAAGACAATTGATACTTATTAGT
49752211 TAAAAAATAAATTTGACCAAAAAGACAATTGATACTTATTAGT
1 TAAAAAATAAATTTGACCAAAAAGACAATTGATACTTATTAGT
49752254 TA
1 TA
49752256 GAATGTGTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (43 bp):
TAAAAAATAAATTTGACCAAAAAGACAATTGATACTTATTAGT
Found at i:49768416 original size:24 final size:24
Alignment explanation
Indices: 49768389--49768489 Score: 85
Period size: 24 Copynumber: 4.2 Consensus size: 24
49768379 GCGTTAAGAG
*
49768389 TCTTTGCTTGACATGTATTAGGCA
1 TCTTTGCTTAACATGTATTAGGCA
* * * *
49768413 TCTTTACTTGACATGTGTTATGCA
1 TCTTTGCTTAACATGTATTAGGCA
* * * * *
49768437 CCTTTGCATAACATGTGTTAAGAA
1 TCTTTGCTTAACATGTATTAGGCA
* * *
49768461 TATTTGCTTAACATGCATTTGGCA
1 TCTTTGCTTAACATGTATTAGGCA
49768485 TCTTT
1 TCTTT
49768490 ATACGACATG
Statistics
Matches: 59, Mismatches: 18, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
24 59 1.00
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.43
Consensus pattern (24 bp):
TCTTTGCTTAACATGTATTAGGCA
Found at i:49768498 original size:72 final size:72
Alignment explanation
Indices: 49768361--49768500 Score: 192
Period size: 72 Copynumber: 1.9 Consensus size: 72
49768351 AGAATGTTGG
* * * * *
49768361 TGCACCTTTGCAAAACATGCGTTAAGAGTCTTTGCTTGACATGTATTAGGCATCTTTACTTGACA
1 TGCACCTTTGCAAAACATGCGTTAAGAATATTTGCTTAACATGCATTAGGCATCTTTACTCGACA
49768426 TGTGTTA
66 TGTGTTA
* * *
49768433 TGCACCTTTGCATAACATGTGTTAAGAATATTTGCTTAACATGCATTTGGCATCTTTA-TACGAC
1 TGCACCTTTGCAAAACATGCGTTAAGAATATTTGCTTAACATGCATTAGGCATCTTTACT-CGAC
49768497 ATGT
65 ATGT
49768501 CTTAGTATTT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
71 1 0.02
72 58 0.98
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.38
Consensus pattern (72 bp):
TGCACCTTTGCAAAACATGCGTTAAGAATATTTGCTTAACATGCATTAGGCATCTTTACTCGACA
TGTGTTA
Found at i:49768986 original size:23 final size:23
Alignment explanation
Indices: 49768960--49769003 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
49768950 ACCATATTTG
*
49768960 TAATATCCCGAAAATTACTACTA
1 TAATACCCCGAAAATTACTACTA
*
49768983 TAATACCCCGAAAATTGCTAC
1 TAATACCCCGAAAATTACTAC
49769004 AGTAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.41, C:0.25, G:0.07, T:0.27
Consensus pattern (23 bp):
TAATACCCCGAAAATTACTACTA
Found at i:49775651 original size:23 final size:23
Alignment explanation
Indices: 49775497--49775658 Score: 164
Period size: 23 Copynumber: 6.9 Consensus size: 23
49775487 CGTTATTGTG
* *
49775497 AAAGAATGAATTGATGAAAATGT
1 AAAGGATGAATTGACGAAAATGT
* *
49775520 AAAGGATGACTTGATGGAAAATGT
1 AAAGGATGAATTGA-CGAAAATGT
* * *
49775544 AAAGGAGGAACTGATGGAAAATGT
1 AAAGGATGAATTGA-CGAAAATGT
* * **
49775568 AAAGGAGGAACTGACGGTAATGT
1 AAAGGATGAATTGACGAAAATGT
*
49775591 AAAGGATGAATTGAC-AGTAATGT
1 AAAGGATGAATTGACGA-AAATGT
*
49775614 AAAGGATGAATTGACGACAATGT
1 AAAGGATGAATTGACGAAAATGT
49775637 AAAGGATGAATTGACGACAAAT
1 AAAGGATGAATTGACGA-AAAT
49775659 TGTCTAAGTA
Statistics
Matches: 121, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
23 74 0.61
24 47 0.39
ACGTcount: A:0.45, C:0.06, G:0.28, T:0.22
Consensus pattern (23 bp):
AAAGGATGAATTGACGAAAATGT
Found at i:49781177 original size:16 final size:16
Alignment explanation
Indices: 49781158--49781191 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
49781148 AAATATGTGC
49781158 TGGACTAAATTGAATA
1 TGGACTAAATTGAATA
49781174 TGGACTAAATTGAATA
1 TGGACTAAATTGAATA
49781190 TG
1 TG
49781192 AATTATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.06, G:0.21, T:0.32
Consensus pattern (16 bp):
TGGACTAAATTGAATA
Found at i:49781201 original size:16 final size:16
Alignment explanation
Indices: 49781161--49781204 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 16
49781151 TATGTGCTGG
*
49781161 ACTAAATTGAATATGG
1 ACTAAATTGAATATGA
49781177 ACTAAATTGAATATGA
1 ACTAAATTGAATATGA
* *
49781193 ATTATATTGAAT
1 ACTAAATTGAAT
49781205 TAAGTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.45, C:0.05, G:0.14, T:0.36
Consensus pattern (16 bp):
ACTAAATTGAATATGA
Found at i:49781567 original size:25 final size:25
Alignment explanation
Indices: 49781527--49781661 Score: 207
Period size: 25 Copynumber: 5.4 Consensus size: 25
49781517 CACAACTCTT
* *
49781527 ATGAGCTTCTCGATATTTAGCTCAC
1 ATGAGCTTCCCAATATTTAGCTCAC
49781552 ATGAGCTTCCCAATATTTAGCTCAC
1 ATGAGCTTCCCAATATTTAGCTCAC
49781577 ATGAGCTTCCCAATATTTAGCTCAC
1 ATGAGCTTCCCAATATTTAGCTCAC
*
49781602 ATGAGCTTCCCGATATTTAGCTCAC
1 ATGAGCTTCCCAATATTTAGCTCAC
* * **
49781627 ATGAGCTTTCCAATACTTAGCTTGC
1 ATGAGCTTCCCAATATTTAGCTCAC
49781652 ATGAGCTTCC
1 ATGAGCTTCC
49781662 TGTTATTCAG
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 101 1.00
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (25 bp):
ATGAGCTTCCCAATATTTAGCTCAC
Found at i:49781673 original size:25 final size:25
Alignment explanation
Indices: 49781654--49781711 Score: 116
Period size: 25 Copynumber: 2.3 Consensus size: 25
49781644 TAGCTTGCAT
49781654 GAGCTTCCTGTTATTCAGCTCAAAA
1 GAGCTTCCTGTTATTCAGCTCAAAA
49781679 GAGCTTCCTGTTATTCAGCTCAAAA
1 GAGCTTCCTGTTATTCAGCTCAAAA
49781704 GAGCTTCC
1 GAGCTTCC
49781712 CGTTTATAGC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (25 bp):
GAGCTTCCTGTTATTCAGCTCAAAA
Found at i:49781674 original size:50 final size:50
Alignment explanation
Indices: 49781527--49781686 Score: 203
Period size: 50 Copynumber: 3.2 Consensus size: 50
49781517 CACAACTCTT
* * * *
49781527 ATGAGCTTCTCGATATTTAGCTCACATGAGCTTCCCAATATTTAGCTCAC
1 ATGAGCTTCCCAATACTTAGCTCACATGAGCTTCCCGATATTTAGCTCAC
*
49781577 ATGAGCTTCCCAATATTTAGCTCACATGAGCTTCCCGATATTTAGCTCAC
1 ATGAGCTTCCCAATACTTAGCTCACATGAGCTTCCCGATATTTAGCTCAC
* ** * * * *
49781627 ATGAGCTTTCCAATACTTAGCTTGCATGAGCTTCCTGTTATTCAGCTCAA
1 ATGAGCTTCCCAATACTTAGCTCACATGAGCTTCCCGATATTTAGCTCAC
*
49781677 AAGAGCTTCC
1 ATGAGCTTCC
49781687 TGTTATTCAG
Statistics
Matches: 97, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 97 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (50 bp):
ATGAGCTTCCCAATACTTAGCTCACATGAGCTTCCCGATATTTAGCTCAC
Found at i:49781674 original size:75 final size:75
Alignment explanation
Indices: 49781527--49781712 Score: 228
Period size: 75 Copynumber: 2.5 Consensus size: 75
49781517 CACAACTCTT
* *
49781527 ATGAGCTTCTCGATATTTAGCTCACATGAGCTTCCCAATATTTAGCTCACATGAGCTTCCCAATA
1 ATGAGCTTCCCGATATTTAGCTCACATGAGCTTCCCAATACTTAGCTCACATGAGCTTCCCAATA
* *
49781592 TTTAGCTCAC
66 TTCAGCTCAA
* ** ***
49781602 ATGAGCTTCCCGATATTTAGCTCACATGAGCTTTCCAATACTTAGCTTGCATGAGCTTCCTGTTA
1 ATGAGCTTCCCGATATTTAGCTCACATGAGCTTCCCAATACTTAGCTCACATGAGCTTCCCAATA
49781667 TTCAGCTCAA
66 TTCAGCTCAA
* * * * * *
49781677 AAGAGCTTCCTGTTATTCAGCTCAAAAGAGCTTCCC
1 ATGAGCTTCCCGATATTTAGCTCACATGAGCTTCCC
49781713 GTTTATAGCT
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 94 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (75 bp):
ATGAGCTTCCCGATATTTAGCTCACATGAGCTTCCCAATACTTAGCTCACATGAGCTTCCCAATA
TTCAGCTCAA
Found at i:49786560 original size:6 final size:6
Alignment explanation
Indices: 49786549--49786579 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
49786539 CTTCACTAGT
49786549 TCTATA TCTATA TCTATA TCTATA TCTATA T
1 TCTATA TCTATA TCTATA TCTATA TCTATA T
49786580 TGTTTATTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (6 bp):
TCTATA
Found at i:49789189 original size:37 final size:37
Alignment explanation
Indices: 49789119--49789236 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
49789109 AACTATAAAG
49789119 GCCGAATGC--ACATAT-T-CACTTATACCCACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
* * *
49789152 GCCGAATGCATACATATATACACTTATATCTATCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
*
49789189 GCCGAATGCATACA-A-AT--A--TATATCCACCTAT
1 GCCGAATGCATACATATATACACTTATACCCACCTAT
*
49789220 GCCGAATGCCTACATAT
1 GCCGAATGCATACATAT
49789237 GCACACATAA
Statistics
Matches: 73, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
31 24 0.33
32 1 0.01
33 10 0.14
35 8 0.11
36 2 0.03
37 28 0.38
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (37 bp):
GCCGAATGCATACATATATACACTTATACCCACCTAT
Found at i:49789471 original size:41 final size:41
Alignment explanation
Indices: 49789421--49789507 Score: 147
Period size: 41 Copynumber: 2.1 Consensus size: 41
49789411 AATTCATCAT
* *
49789421 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
49789462 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
49789503 ATTCA
1 ATTCA
49789508 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:49795528 original size:33 final size:35
Alignment explanation
Indices: 49795489--49795566 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 35
49795479 CTATAAAGGT
49795489 CGAATGCACATAT-T-CACTTATACCCACCTATGC
1 CGAATGCACATATATACACTTATACCCACCTATGC
* * *
49795522 CGAATGCATACATATATACACTTATATCTATCTATGC
1 CGAATGC--ACATATATACACTTATACCCACCTATGC
49795559 CGAATGCA
1 CGAATGCA
49795567 TACAAATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
33 7 0.18
35 7 0.18
36 1 0.03
37 23 0.61
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.29
Consensus pattern (35 bp):
CGAATGCACATATATACACTTATACCCACCTATGC
Found at i:49795547 original size:37 final size:37
Alignment explanation
Indices: 49795498--49795576 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
49795488 TCGAATGCAC
* *
49795498 ATATTCACTTATACCCACCTATGCCGAATGCATACAT
1 ATATACACTTATACCCACCTATGCCGAATGCATACAA
* * *
49795535 ATATACACTTATATCTATCTATGCCGAATGCATACAA
1 ATATACACTTATACCCACCTATGCCGAATGCATACAA
49795572 ATATA
1 ATATA
49795577 TATCCACCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.37, C:0.24, G:0.08, T:0.32
Consensus pattern (37 bp):
ATATACACTTATACCCACCTATGCCGAATGCATACAA
Found at i:49795960 original size:41 final size:41
Alignment explanation
Indices: 49795785--49795953 Score: 293
Period size: 41 Copynumber: 4.1 Consensus size: 41
49795775 AATTCATCAT
* *
49795785 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
49795826 ATTCAGATCACCGGCACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
49795867 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
49795908 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
49795949 ATTCA
1 ATTCA
49795954 ATTCACCAAT
Statistics
Matches: 120, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 120 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:49796220 original size:19 final size:17
Alignment explanation
Indices: 49796175--49796221 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
49796165 TGTTCGATCC
49796175 ACACATATATATATATT
1 ACACATATATATATATT
*
49796192 ACACACATATATATATTT
1 ACACATATATATATA-TT
*
49796210 GCACAT-TATATA
1 ACACATATATATA
49796222 AACACAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 20 0.77
18 6 0.23
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (17 bp):
ACACATATATATATATT
Found at i:49798566 original size:3 final size:3
Alignment explanation
Indices: 49798558--49798597 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
49798548 TAATAGCTCC
49798558 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
49798598 ATGTTATTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:49806732 original size:19 final size:20
Alignment explanation
Indices: 49806708--49806748 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
49806698 AGATCATAAA
*
49806708 AAAAATT-ATAAAAATGTTT
1 AAAAATTAATAAAAATATTT
49806727 AAAAATTAATAAAAATATTT
1 AAAAATTAATAAAAATATTT
49806747 AA
1 AA
49806749 TTTTTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATTAATAAAAATATTT
Found at i:49806739 original size:10 final size:9
Alignment explanation
Indices: 49806708--49806838 Score: 50
Period size: 10 Copynumber: 13.6 Consensus size: 9
49806698 AGATCATAAA
49806708 AAAAATTAT
1 AAAAATTAT
*
49806717 AAAAATGTTT
1 AAAAAT-TAT
49806727 AAAAATTAAT
1 AAAAATT-AT
*
49806737 AAAAATATTT
1 AAAAAT-TAT
***
49806747 AATTTTTTTAT
1 AA--AAATTAT
*
49806758 AAAAATTCTT
1 AAAAATT-AT
49806768 AAAAA-TATT
1 AAAAATTA-T
* *
49806777 AGAAATGATT
1 AAAAATTA-T
49806787 AAAAA-TAT
1 AAAAATTAT
**
49806795 TGAAATTGAT
1 AAAAATT-AT
49806805 ATAAAATTAT
1 A-AAAATTAT
49806815 AAAAATTAT
1 AAAAATTAT
*
49806824 AAAAAATCAT
1 -AAAAATTAT
49806834 AAAAA
1 AAAAA
49806839 CTTGAATTGG
Statistics
Matches: 89, Mismatches: 21, Indels: 24
0.66 0.16 0.18
Matches are distributed among these distances:
8 4 0.04
9 30 0.34
10 44 0.49
11 10 0.11
12 1 0.01
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.36
Consensus pattern (9 bp):
AAAAATTAT
Found at i:49806811 original size:19 final size:19
Alignment explanation
Indices: 49806766--49806810 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 19
49806756 ATAAAAATTC
49806766 TTAAAAATATTAGAAATGA
1 TTAAAAATATTAGAAATGA
49806785 TTAAAAATATT-GAAATTGA
1 TTAAAAATATTAGAAA-TGA
49806804 TATAAAA
1 T-TAAAA
49806811 TTATAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.17
19 15 0.62
20 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (19 bp):
TTAAAAATATTAGAAATGA
Found at i:49806829 original size:19 final size:20
Alignment explanation
Indices: 49806797--49806843 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
49806787 AAAAATATTG
* *
49806797 AAATTGATATAAAATTATAA
1 AAATTGATAAAAAATCATAA
49806817 AAATT-ATAAAAAATCATAA
1 AAATTGATAAAAAATCATAA
49806836 AAACTTGA
1 AAA-TTGA
49806844 ATTGGACCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 15 0.65
20 7 0.30
21 1 0.04
ACGTcount: A:0.62, C:0.04, G:0.04, T:0.30
Consensus pattern (20 bp):
AAATTGATAAAAAATCATAA
Found at i:49807455 original size:39 final size:40
Alignment explanation
Indices: 49807421--49807501 Score: 109
Period size: 39 Copynumber: 2.1 Consensus size: 40
49807411 AGTTTTTATG
49807421 ATTTTATAAAATTTTA-AATATT-TTAGATATGTTTTATCA
1 ATTTTATAAAATTTTATAAT-TTATTAGATATGTTTTATCA
*
49807460 ATTTTATATAATTTTATAATTTATTAGAT-T-TTTTAT-A
1 ATTTTATAAAATTTTATAATTTATTAGATATGTTTTATCA
49807497 ATTTT
1 ATTTT
49807502 TATGAATTTA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
37 6 0.15
38 6 0.15
39 18 0.46
40 9 0.23
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (40 bp):
ATTTTATAAAATTTTATAATTTATTAGATATGTTTTATCA
Found at i:49807503 original size:47 final size:47
Alignment explanation
Indices: 49807452--49807550 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
49807442 TTTAGATATG
*
49807452 TTTTATCAATTT-TATATAATTTTATAATTTAT-TA-GATTTTTTATAAT
1 TTTTATCAATTTATAT-TAATTTAAT-ATTTATGTATGA-TTTTTATAAT
* * *
49807499 TTTTATGAATTTATATTAATTTAATATTTTTGTATGATTTTTCTAAT
1 TTTTATCAATTTATATTAATTTAATATTTATGTATGATTTTTATAAT
49807546 TTTTA
1 TTTTA
49807551 AATATTTTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
46 5 0.11
47 35 0.78
48 5 0.11
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.63
Consensus pattern (47 bp):
TTTTATCAATTTATATTAATTTAATATTTATGTATGATTTTTATAAT
Found at i:49807509 original size:10 final size:10
Alignment explanation
Indices: 49807404--49807520 Score: 56
Period size: 10 Copynumber: 12.2 Consensus size: 10
49807394 TTTCAATAAA
*
49807404 TTTTATGAGT
1 TTTTATGAAT
49807414 TTTTATG-A-
1 TTTTATGAAT
* *
49807422 TTTTATAAAA
1 TTTTATGAAT
49807432 TTTTA--AAT
1 TTTTATGAAT
49807440 ATTTTA-GATAT
1 -TTTTATGA-AT
*
49807451 GTTTTATCAAT
1 -TTTTATGAAT
49807462 TTTATAT-AA-
1 TTT-TATGAAT
49807471 TTTTAT-AAT
1 TTTTATGAAT
*
49807480 TTATTA-GATT
1 TT-TTATGAAT
49807490 TTTTAT-AAT
1 TTTTATGAAT
49807499 TTTTATGAAT
1 TTTTATGAAT
* *
49807509 TTATATTAAT
1 TTTTATGAAT
49807519 TT
1 TT
49807521 AATATTTTTG
Statistics
Matches: 86, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
8 13 0.15
9 22 0.26
10 38 0.44
11 12 0.14
12 1 0.01
ACGTcount: A:0.33, C:0.01, G:0.06, T:0.60
Consensus pattern (10 bp):
TTTTATGAAT
Found at i:49815058 original size:24 final size:24
Alignment explanation
Indices: 49815005--49815052 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
49814995 GACAGATTAA
49815005 AAATTTTATTACAAATAGACACAT
1 AAATTTTATTACAAATAGACACAT
*
49815029 AAATTTTATTATAAATAGACACAT
1 AAATTTTATTACAAATAGACACAT
49815053 GTATTTATCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATTTTATTACAAATAGACACAT
Found at i:49817727 original size:94 final size:94
Alignment explanation
Indices: 49817566--49817742 Score: 259
Period size: 94 Copynumber: 1.9 Consensus size: 94
49817556 CTTGGGGTAA
* * *
49817566 TTGGCTGCTCATATCAAGATAAGTACTTTGTCACTTATGTCTTGTTTATGGTTAATACTTATTAA
1 TTGGCTGCTCATATCAAGATAAGTACTTGGTCACTTATGTCTTGTTGATGGTTAATACTTAATAA
*
49817631 GGTACTTAGTTGCTTAAGGGAATTTGTGG
66 GGTACTTAGTTACTTAAGGGAATTTGTGG
* *
49817660 TTGGCTGCTCATATCAAGATATA-TACTTGGTTACTTTTGTCGTT-TTGATGGTTAATACTTAAT
1 TTGGCTGCTCATATCAAGATA-AGTACTTGGTCACTTATGTC-TTGTTGATGGTTAATACTTAAT
*
49817723 AAGGTACTTTGTTACTTAAG
64 AAGGTACTTAGTTACTTAAG
49817743 AGACTTTATG
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
94 71 0.96
95 3 0.04
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.44
Consensus pattern (94 bp):
TTGGCTGCTCATATCAAGATAAGTACTTGGTCACTTATGTCTTGTTGATGGTTAATACTTAATAA
GGTACTTAGTTACTTAAGGGAATTTGTGG
Found at i:49817862 original size:221 final size:218
Alignment explanation
Indices: 49817459--49817880 Score: 514
Period size: 221 Copynumber: 1.9 Consensus size: 218
49817449 ACATACATAT
*
49817459 ATATATACTTGGTTACTTATTTTCTTTGATGGTTAATACTTAAGAAGGTACGTAGTTAACTGATA
1 ATATATACTTGGTTACTTATTGTCTTTGATGGTTAATACTTAAGAAGGTACGTAGTTAACT-ATA
* ** * * *
49817524 AAAATTTTTGGGTGGTAAAATTGAATCTATTTCTTGGGGTAATTGGCTGCTCATATCAAGATAAG
65 AAAATTTATGGGTGGTAAAATTGAATAAATTTCGTGAGGTAATTGGCTGCTCATATCAAGATAAA
* * * * **
49817589 TACTTTGTCACTTATGTCTTGTTTATGGTTAATACTTATTAAGGTACTTAGTTGCTTAAGGGAAT
130 TACTTGGTCACTTATGTCGTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTTAAGAAAAT
49817654 TTGTGGTTGGCTGCTCATATCAAG
195 TTGTGGTTGGCTGCTCATATCAAG
* * *
49817678 ATATATACTTGGTTACTT-TTGTCGTTTTGATGGTTAATACTTAATAAGGTACTTTGTT-ACT-T
1 ATATATACTTGGTTACTTATTGTC--TTTGATGGTTAATACTTAAGAAGGTACGTAGTTAACTAT
* * *
49817740 AAGAGACTTTATGGGTGGTAGAATTGAATAAATTT-GT-AGGTAATTTGCTGCTCATATCAAGAT
64 AA-A-AATTTATGGGTGGTAAAATTGAATAAATTTCGTGAGGTAATTGGCTGCTCATATCAAG--
* * *
49817803 ATATATATACTTGGTTACTT-TTTGCGTGTTGATGGTTAATACTTTTTAAGGTACTTAGTTACTT
125 ATA-A-ATACTTGGTCACTTATGT-CGTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTT
49817867 AAGAAAATTTGTGG
187 AAGAAAATTTGTGG
49817881 GTGGAATTGG
Statistics
Matches: 172, Mismatches: 22, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
217 25 0.15
218 6 0.03
219 49 0.28
220 33 0.19
221 59 0.34
ACGTcount: A:0.28, C:0.09, G:0.20, T:0.43
Consensus pattern (218 bp):
ATATATACTTGGTTACTTATTGTCTTTGATGGTTAATACTTAAGAAGGTACGTAGTTAACTATAA
AAATTTATGGGTGGTAAAATTGAATAAATTTCGTGAGGTAATTGGCTGCTCATATCAAGATAAAT
ACTTGGTCACTTATGTCGTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTTAAGAAAATT
TGTGGTTGGCTGCTCATATCAAG
Found at i:49817909 original size:104 final size:101
Alignment explanation
Indices: 49817769--49818087 Score: 325
Period size: 95 Copynumber: 3.1 Consensus size: 101
49817759 AGAATTGAAT
* * * *
49817769 AAATTTGTAGGT--AATTTGCTGCTCATATCAAGATATATATATACTTGGTTACTT-TTTGCGTG
1 AAATTTGTGGGTGGAATTGGCTGCTCATATCAA-ATATATATATA-TTGGTTACTTATGT-CCTG
**
49817831 TTGATGGTTAATACTTTTTAAGGTACTTAGTTACTTAAGA
63 TTGATGGTTAATACTTCATAAGGTACTTAGTTACTT-AGA
* *
49817871 AAATTTGTGGGTGGAATTGGCTGCTCATACCAATATATATATGTATATGTTTTGTTACTTATGTC
1 AAATTTGTGGGTGGAATTGGCTGCTCATATCAA-ATATATA--TATA---TTGGTTACTTATGTC
*
49817936 TTGTTGATGGTTAATACTTCATAAGGTACTTAGTTACTT-G-
60 CTGTTGATGGTTAATACTTCATAAGGTACTTAGTTACTTAGA
* * *
49817976 -AATTTGTGGGTGG--TTGGCTGCTAATATC-AAGATATATAT-TTGGTTTACTTATGTCCTTTT
1 AAATTTGTGGGTGGAATTGGCTGCTCATATCAAATATATATATATTGG-TTACTTATGTCCTGTT
*
49818036 GATGGTTAATACTTCATAAGGTAATTAGTTACTTCAGA
65 GATGGTTAATACTTCATAAGGTACTTAGTTACTT-AGA
* *
49818074 TAATTTTTGGGTGG
1 AAATTTGTGGGTGG
49818088 TAGAAGTGAA
Statistics
Matches: 187, Mismatches: 18, Indels: 27
0.81 0.08 0.12
Matches are distributed among these distances:
94 3 0.02
95 47 0.25
97 1 0.01
98 3 0.02
99 12 0.06
100 6 0.03
101 1 0.01
102 24 0.13
104 37 0.20
106 5 0.03
108 46 0.25
109 2 0.01
ACGTcount: A:0.26, C:0.10, G:0.20, T:0.44
Consensus pattern (101 bp):
AAATTTGTGGGTGGAATTGGCTGCTCATATCAAATATATATATATTGGTTACTTATGTCCTGTTG
ATGGTTAATACTTCATAAGGTACTTAGTTACTTAGA
Done.