Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 154 of 290
Found at i:49339692 original size:284 final size:283
Alignment explanation
Indices: 49339123--49340635 Score: 1485
Period size: 284 Copynumber: 5.3 Consensus size: 283
49339113 TCTTCTTCTT
* * * * *
49339123 AAGATATAGTGTAAATTTTTAAGAGGTTAAAAGGGAAATTTACATTGTGATGCATAG-AGAAGTG
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACA-TGTGATGCATAGCA-AACTT
* * * *
49339187 CTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGT
64 CTCGTGTCTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCGAATTTTGAGGCGAAGT
* * *
49339252 CCGTTACGGAATTATAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAGTTTACCACGTGAT
129 CCGTTACGGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGAT
** ** * * *
49339317 ATATGGCAAACTTCTCA-TGTTTTACGATTTTTTTAATTTCATTTTTAAATATTAAAATCCGAAT
194 GCATAACAAACTTCT-AGTGTTTTATGA-TTTTTTAATTTTATTTTTAAATATTAAAATTCGAAT
* * * **
49339381 TTCGAGACTAAGTCGGGAACA-AATCA
257 TTCAAGGCAAAGTCGGTTACAGAATCA
* * * * *** *
49339407 AATATAAAGTACAAATTTTTAAAAGCTTAAAACAAAAATTTACCATGTGATACATAGCAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTA-CATGTGATGCATAGCAAACTTC
* * *
49339472 TCGTGTCTTATGATTCTTTTTAATTTCATTTTTAACTATTAAAACTCGAATTTTGAGGCGAACTC
65 TCGTGTCTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCGAATTTTGAGGCGAAGTC
* * * *
49339537 CGTTATGAAATGAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGAAG
130 CGTTACGGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATG
* * **
49339602 CACAACAAACTACTAGTGTTTTATGATTTTTTAATTTCGTTTTTAAATATTAAAATTCGAATTTC
195 CATAACAAACTTCTAGTGTTTTATGATTTTTTAATTTTATTTTTAAATATTAAAATTCGAATTTC
* *
49339667 AAGGCAAAGTCGATTATAGAATCA
260 AAGGCAAAGTCGGTTACAGAATCA
* * *
49339691 AAGATACAA-TATAAATTTTTAACAGGTTAAAATGGAAATTTAAAATGTGATGCATAGCAAAGTT
1 AAGATA-AAGTATAAATTTTTAAGAGGTTAAAATGGAAATTT-ACATGTGATGCATAGCAAACTT
* * * * * * ** *
49339755 CTCGTGTCTTCTGATT-GTTTTAAGTTT-ATTTATAAATATTGAAACTTGAATTTTAAGGCTTAC
64 CTCGTGTCTTATGATTCTTTTTAA-TTTAATTTTTAAATATTAAAACTCGAATTTTGAGGCGAAG
* * * *
49339818 TTCGTTACGGAATTAAAGATAAAATACAAATTTTTAAGTA-GTTAAAATGGAAATTTACCATGCG
128 TCCGTTACGGAATTAAAGATAAAGTATAAATTTTTAAG-AGGTTAAAATGGAAATTTACCATGTG
* * * * *
49339882 ATGCATGGA-AAACTTCTTGTGTTATATGAATCTTTTTAATTTTATTTTTAAATATTAAAACTCA
192 ATGCAT-AACAAACTTCTAGTGTTTTATG-AT-TTTTTAATTTTATTTTTAAATATTAAAATTCG
* * * * *
49339946 AATTTCATGACGAAGTCGGTTATAAAATCA
254 AATTTCAAGGCAAAGTCGGTTACAGAATCA
* *
49339976 AAGAAAAAGTTAAAGTATATATTTTTAAGAGGTTAAAATGGAAATTCATA-ATTTGATGCATAGC
1 AAG----A--TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATT--TACATGTGATGCATAGC
* * * * * * *
49340040 GAAGTTCTCATGTGTTATTATTCTTTTTAATTTAATTTTTTAATATTAAAACTCGAATTTTGAAT
58 AAACTTCTCGTGTCTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCGAATTTTG-AG
* * * * *
49340105 G-GAAGTCTGTTATGGAATTAAATATAAAGTTTAAATATTTAAGAGGTTAAAATGGAAATTTACC
122 GCGAAGTCCGTTACGGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACC
* * *
49340169 ATGTGATGCATAGA-AAACTTGTTGCGTTTTATGATTTCATTTAATTTTATTTTTAAATATTAAA
187 ATGTGATGCATA-ACAAACTTCTAGTGTTTTATGATTT--TTTAATTTTATTTTTAAATATTAAA
* * * *
49340233 ATTTGATTTTCAAGGGAACGTCGGTTACAGAATC-
249 ATTCGAATTTCAAGGCAAAGTCGGTTACAGAATCA
* * * *
49340267 AAGATAAATTATAAATTTTTAAGAGGTTAAAATGGAAATTTATATGTGATGCATTGCAAACTTAT
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACATGTGATGCATAGCAAACTTCT
* * * * ** * * * * *
49340332 TGTGTTTTATGA---TTTTTATTTTAATTATTAAATATTAAAGTTCTAATTTCGAAGCCAAGTCA
66 CGTGTCTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCGAATTTTGAGGCGAAGTCC
** ** * *
49340394 GTTACCAAATTAAA-ATTAAAGTACCAATTTTTAAGAGGTTAAAATAGAAATTTACAATGTGATG
131 GTTACGGAATTAAAGA-TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATG
* * * * * * *
49340458 CATAGCGAAGTTCTCGTGTATTATGAATCTTTTTAATTTTATTTTTAAATATTGAAACTCGAATT
195 CATAACAAACTTCTAGTGTTTTATG-AT-TTTTTAATTTTATTTTTAAATATTAAAATTCGAATT
* * * *
49340523 T-AAGGCAAAGCCCGTTACGGAATTA
258 TCAAGGCAAAGTCGGTTACAGAATCA
* * * *
49340548 TAGATAAAGTATAAATTTTTAAAAGGTTAAAATGGAAATTTACCATGAGATGCATAACAAACTTC
1 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTA-CATGTGATGCATAGCAAACTTC
* *
49340613 TCGGGTCTTATGATTCTTCTTAA
65 TCGTGTCTTATGATTCTTTTTAA
49340636 GATATAGCGT
Statistics
Matches: 1008, Mismatches: 183, Indels: 75
0.80 0.14 0.06
Matches are distributed among these distances:
280 20 0.02
281 177 0.18
282 29 0.03
283 163 0.16
284 284 0.28
285 101 0.10
287 1 0.00
289 1 0.00
290 4 0.00
291 70 0.07
292 155 0.15
293 3 0.00
ACGTcount: A:0.37, C:0.10, G:0.15, T:0.38
Consensus pattern (283 bp):
AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACATGTGATGCATAGCAAACTTCT
CGTGTCTTATGATTCTTTTTAATTTAATTTTTAAATATTAAAACTCGAATTTTGAGGCGAAGTCC
GTTACGGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGC
ATAACAAACTTCTAGTGTTTTATGATTTTTTAATTTTATTTTTAAATATTAAAATTCGAATTTCA
AGGCAAAGTCGGTTACAGAATCA
Found at i:49340783 original size:195 final size:195
Alignment explanation
Indices: 49340451--49340808 Score: 556
Period size: 195 Copynumber: 1.8 Consensus size: 195
49340441 AAATTTACAA
* * * * *
49340451 TGTGATGCATAGCGAAGTTCTCGTGTATTATGAATCTTTTTAATTTTATTTTTAAATATTGAAAC
1 TGTGATGCATAGCAAAATGCTCGTGTATTATGAATCTTTTTAACTTCATTTTTAAATATTGAAAC
* * *
49340516 TCGAATTTAAGGCAAAGCCCGTTACGGAATTATAGATAAAGTATAAATTTTTAAAAGGTTAAAAT
66 TCGAATTTAAGACAAAGCCCGTTACGAAATTATAGATAAAGTATAAATTTTTAAAAGGATAAAAT
49340581 GGAAATTTACCATGAGATGCATAACAAACTTCTCGGGTCTTATGATTCTTCTTAAGATATAGCGT
131 GGAAATTTACCATGAGATGCATAACAAACTTCTCGGGTCTTATGATTCTTCTTAAGATATAGCGT
* *
49340646 TGTGATGCATAGCAAAATGCTCGTGTCTTATGATTCTTTTTAACTTCATTTTTAAATATTGAAAC
1 TGTGATGCATAGCAAAATGCTCGTGTATTATGAATCTTTTTAACTTCATTTTTAAATATTGAAAC
* * *
49340711 TCGAATTTTGAGACAAAGTCCGTTACGAAATTATAGATAAAGTATAAATTTTTAAGA-GATAAAA
66 TCGAA-TTTAAGACAAAGCCCGTTACGAAATTATAGATAAAGTATAAATTTTTAAAAGGATAAAA
* **
49340775 TGGAAATTTACCATGTGATGCATGGCAAACTTCT
130 TGGAAATTTACCATGAGATGCATAACAAACTTCT
49340809 AGTGTTTTAT
Statistics
Matches: 146, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
195 100 0.68
196 46 0.32
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (195 bp):
TGTGATGCATAGCAAAATGCTCGTGTATTATGAATCTTTTTAACTTCATTTTTAAATATTGAAAC
TCGAATTTAAGACAAAGCCCGTTACGAAATTATAGATAAAGTATAAATTTTTAAAAGGATAAAAT
GGAAATTTACCATGAGATGCATAACAAACTTCTCGGGTCTTATGATTCTTCTTAAGATATAGCGT
Found at i:49341319 original size:286 final size:282
Alignment explanation
Indices: 49340671--49341365 Score: 884
Period size: 281 Copynumber: 2.5 Consensus size: 282
49340661 AATGCTCGTG
* * *
49340671 TCTTATGATTCTTTTTAACTTCATTTTTAAATATTGAAACTCGAATTTTGAGACAAAGTCCGTTA
1 TCTTATGATTCTTTTTAA-TTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAAACTCCGTTA
* *
49340736 CGAAAT-TATAGATAAAGTATAAATTTTTAAGA-GATAAAATGGAAATTTACCATGTGATGCATG
65 CGAAATGTATAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA
* * * *
49340799 GCAAACTTCTAGTGTTTTATGAGTTTTTTAATTTTATTTTTAAATATTAAAATTTGAAATTCGAG
130 GCAAACTTCTAGAGTTTTATGAGTTTTTTAATTTCAGTTTTAAATATTAAAATTAGAAATTCGAG
* * * * * * * * * *
49340864 ACTAAGTCGGGTACAGAATCAAATATAAAGTATAAACTTTTAAAAGGTTAAAACGGAAATTTACC
195 ACCAAGTCAGCTACAGAATAAAAAAAAAACTATAAACTTTTAAAAGGTCAAAAAGGAAATTTACA
*
49340929 ATGTGATGCATAGCAAACTTTTG
260 ATGTGATGCATAGCAAACTTTTA
* * *
49340952 TCTTATGATTCTTTTTAATTTCATTTTTGACTATTGAAACTCGAATTTTGAGGCAAACTCCATTA
1 TCTTATGATTCTTTTTAATTT-ATTTTTAAATATTGAAACTCGAATTTTGAGGCAAACTCCGTTA
* * *
49341017 CGAAATG-AAAGATAAAGTACAAATTTTTAAGAGGTTAAAATGAAAATTTACCATGTGATGCATA
65 CGAAATGTATAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATA
* *
49341081 GCAAACTTCTAGAGTTTTATGA-TTTTTTAATTTCGGTTTTAAATATTAAAATTAGAATTTCGAG
130 GCAAACTTCTAGAGTTTTATGAGTTTTTTAATTTCAGTTTTAAATATTAAAATTAGAAATTCGAG
* * *
49341145 GCCAAGTCAGCTATCA-AATAGAAAAAAAAAACTATAAATTTTTAAGAGGTCAAAAAGGAAATTT
195 ACCAAGTCAGCTA-CAGAAT--AAAAAAAAAACTATAAACTTTTAAAAGGTCAAAAAGGAAATTT
*
49341209 ACAATGTGACT-CATAGCTTAA-TTCTCATA
257 ACAATGTGA-TGCATAGC-AAACTT-T--TA
* * * *
49341238 TCTTATGATTATTCTTAATTTATTTTTTCAATATTGAAACTCGAATTTTGAGGCGAACTCCGTTA
1 TCTTATGATTCTTTTTAATTTA-TTTTTAAATATTGAAACTCGAATTTTGAGGCAAACTCCGTTA
* * *
49341303 AG-GATGTATAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGGTGCAT
65 CGAAATGTATAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCAT
49341366 TGGAAACTAA
Statistics
Matches: 357, Mismatches: 44, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
280 2 0.01
281 134 0.38
282 51 0.14
283 51 0.14
284 4 0.01
285 4 0.01
286 111 0.31
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.37
Consensus pattern (282 bp):
TCTTATGATTCTTTTTAATTTATTTTTAAATATTGAAACTCGAATTTTGAGGCAAACTCCGTTAC
GAAATGTATAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAG
CAAACTTCTAGAGTTTTATGAGTTTTTTAATTTCAGTTTTAAATATTAAAATTAGAAATTCGAGA
CCAAGTCAGCTACAGAATAAAAAAAAAACTATAAACTTTTAAAAGGTCAAAAAGGAAATTTACAA
TGTGATGCATAGCAAACTTTTA
Found at i:49341393 original size:143 final size:141
Alignment explanation
Indices: 49340668--49341575 Score: 613
Period size: 141 Copynumber: 6.4 Consensus size: 141
49340658 CAAAATGCTC
* * *
49340668 GTGTCTTATGATTCTTTTTAACTTCA-TTTTTAAATATTGAAACTCGAATTTTGAGACAAAGTCC
1 GTGTTTTATGA-T-TTTTTAA-TTTATTTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCC
* * *
49340732 GTTACGAAAT-TATAGATAAAGTATAAATTTTTAAGA-GATAAAATGGAAATTTACCATGTGATG
63 GTTAAG-AATGTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATG
* ** *
49340795 CATGGCAAACTTCTA
127 CATTGCAAACTAATT
* * * * * * * *
49340810 GTGTTTTATGAGTTTTTTAATTT-TATTTTTAAATATTAAAATTTGAAATTCGAGACTAAGTCGG
1 GTGTTTTATGA-TTTTTTAATTTAT-TTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCG
* * * * * *
49340874 GTACAGAAT-CAAATATAAAGTATAAACTTTTAAAAGGTTAAAACGGAAATTTACCATGTGATGC
64 TTA-AGAATGTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGC
*
49340938 ATAGCAAACT--TT
128 ATTGCAAACTAATT
* * * *
49340950 -TGTCTTATGATTCTTTTTAATTTCA-TTTTTGACTATTGAAACTCGAATTTTGAGGCAAACTCC
1 GTGTTTTATGA-T-TTTTTAATTT-ATTTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCC
* * * *
49341013 ATTACGAAATG-AAAGATAAAGTACAAATTTTTAAGAGGTTAAAATGAAAATTTACCATGTGATG
63 GTTAAG-AATGTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATG
* ** *
49341077 CATAGCAAACTTCTA
127 CATTGCAAACTAATT
* *** * * * * * *
49341092 GAGTTTTATGATTTTTTAATTTCGGTTTTAAATATTAAAATTAGAATTTCGAGGCCAAGTCAGCT
1 GTGTTTTATGATTTTTTAATTTATTTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCG-T
* * * * * * * *
49341157 ATCA-AATAGAAAAAAAAAACTATAAATTTTTAAGAGGTCAAAAAGGAAATTTACAATGTGACT-
65 -TAAGAAT-GTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGA-TG
* *
49341220 CATAGC---TTAATT
127 CATTGCAAACTAATT
* * * * *
49341232 CTCATATCTTATGATTATTCTTAATTTATTTTTTCAATATTGAAACTCGAATTTTGAGGCGAACT
1 GT-GT-T-TTATGATT-TT-TTAATTTATTTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGT
* * *
49341297 CCGTTAAGGATGTATAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGGT
61 CCGTTAAGAATGTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGAT
*
49341362 GCATTGGAAACTAATT
126 GCATTGCAAACTAATT
* * ** * * * * * *
49341378 GTGTTTTTTGCTTATTTTGCTTTA-TTTGTAAATATTAAAATTCG-ATTTTCAAGGTAAAGTCGG
1 GTGTTTTATGATT-TTTTAATTTATTTTTTAAATATTGAAACTCGAATTTT-GAGGCAAAGTCCG
* * * * * *
49341441 TTACAAAAT-CAAAGATAAAGTATAACTTTTTAAGAGGTT----TTGAAATTTATCATGTGATTC
64 TTA-AGAATGTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGC
* * *
49341501 ATAGTAAACT-TTT
128 ATTGCAAACTAATT
* * * *
49341514 CGTGTTTTATGATTTTCTTAATTTCA-TTTTTAAATATTAAAAGTCGAATTTTAAGGCTAAGT
1 -GTGTTTTATGATTTT-TTAATTT-ATTTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGT
49341576 GTAACACCCT
Statistics
Matches: 597, Mismatches: 135, Indels: 72
0.74 0.17 0.09
Matches are distributed among these distances:
136 4 0.01
137 41 0.07
138 27 0.05
139 16 0.03
140 110 0.18
141 161 0.27
142 62 0.10
143 125 0.21
144 7 0.01
145 38 0.06
146 6 0.01
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (141 bp):
GTGTTTTATGATTTTTTAATTTATTTTTTAAATATTGAAACTCGAATTTTGAGGCAAAGTCCGTT
AAGAATGTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATT
GCAAACTAATT
Found at i:49347517 original size:142 final size:141
Alignment explanation
Indices: 49347360--49349197 Score: 1572
Period size: 142 Copynumber: 13.0 Consensus size: 141
49347350 CGTTGGTTAT
* * ** * * *
49347360 AGAATCAAACATAAAGTATAACCTTTAAAGATGTTAAAATGGAAATTTATC-ATGTGACGCATAG
1 AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTA-CAATGTGATGCATAG
*
49347424 CAAGTTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCGAGG
65 CAAG-TTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTTGAGG
49347489 CCAAGTCCATTAC
129 CCAAGTCCATTAC
** * * * *
49347502 AGAAACAAAGATAAAGTACAAATTTTTACGAGGTTAAAATGAAAATTTACAATGTAATGCATAGT
1 AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAG-
* * * * * *
49347567 GAAATTCTCATGTCTTATTG-TTGTTTTTAATTT-ATTGTTAGATATTGAAAA-TCGAATTTTGA
65 CAAGTTCTCGTGTTTTA-TGATT-TTTTTAATTTCATTTTTAAATATT-AAAATTCGAATTTTGA
* * * *
49347629 GTCGAACTCCATTAT
127 GGCCAAGTCCATTAC
* * * * * **
49347644 GGAATTAAAGATAAAGTATAATTTTTTAAGTGATTAAAATGGAAATTTACCATGTGATGCATATA
1 AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGC
* * ** ** * *
49347709 AATTTTCTCATGTTTTACAATTTTTTATAATTTCATTTTTAAATATTAAAATTTTAATTTCGATG
66 AA-GTTCTCGTGTTTTATGATTTTTT-TAATTTCATTTTTAAATATTAAAATTCGAATTTTGAGG
****
49347774 -CAATGTTGGCTAC
129 CCAA-GTCCATTAC
* * * * *
49347787 AGAATCAAAAATAAATTATAAATTTTTAAGAGGATAAACTGGAAATTTACAATGTGATGCATAGG
1 AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATA-G
* ** * * *
49347852 GAAGTTCTCGTGTCATATGATTGTTTT-A----A-TTTTAAATATTGAAA-CCGAATTTTGAGGC
65 CAAGTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTTGAGGC
* * **
49347910 GAACTCTGTTAC
130 CAAGTCCATTAC
* * * * * *
49347922 GGAATTAAAGATAAAGTATAACTTTTCAAGTGGTTAAAATGAAAATTTACCATGTGATGCATAGA
1 AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAG-
* * * * *
49347987 AAACTTCTCGTGTTTTATGAGTTTTTATAATTTCATTTTTAAATATTAAAATTTGAATTTCGAGG
65 CAAGTTCTCGTGTTTTATGA-TTTTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTTGAGG
49348052 -CAAGGT-CAGTTAC
129 CCAA-GTCCA-TTAC
* * * * * *
49348065 AGAATAAAAAATAAACTAT-AATTTTTAAGAAGTTAATATGAAAATTTACAATGTGATGCATAGC
1 AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGC
* * * * *
49348129 AAAGTTCTCGTGTCTTATGATTGTTTTTAGTTTCATTTTTAAATATTGATACTCGAATTTTGAGG
66 -AAGTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTTGAGG
*
49348194 CCAAGTCCGTTA-
129 CCAAGTCCATTAC
* * *
49348206 TGTAATTAAAGACAAA-TATAAAATTTTAA-ATGGTTAAAATGGAAATTTA-ACATGTGATGCAT
1 AG-AATTAAAGATAAAGTATAAATTTTTAAGA-GGTTAAAATGGAAATTTACA-ATGTGATGCAT
* * * * * *
49348268 AGCAAACTTCTAGTGTTTTATGA-TTTTTTAATTTCGTTATTAAATATTAAAATTCAAATCTTGA
63 AGC-AAGTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTTGA
* *
49348332 GTCCAAGTCAATTAC
127 GGCCAAGTCCATTAC
* * * * *
49348347 CGAATAAAAAATAAAGTATAAATTCTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATCGC
1 AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGC
* * * * *
49348412 TAAGTTCTCGTGTTTTATGATTCTTTTTAATAT-A-TTTTCAATATTGAAACTCAAATTTTGAGG
66 -AAGTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTTGAGG
* * *
49348475 CGAAG-CCTGTTTC
129 CCAAGTCC-ATTAC
* * * * *
49348488 GGAATTAAAGAGAATGTATAAATTTTTAAGTTGG-TAAAATGGAAATTTACCATGTGATGCATAG
1 AGAATTAAAGATAAAGTATAAATTTTTAAG-AGGTTAAAATGGAAATTTACAATGTGATGCATAG
* * * * * * * * *
49348552 AAAACTTCTTGTGTTTTATAATTTTTTTTAAATTTCATCTCTAAATTTTAAAATTTGAATTTCGA
65 -CAAGTTCTCGTGTTTTATGA-TTTTTTT-AATTTCATTTTTAAATATTAAAATTCGAATTTTGA
** * * *
49348617 GGTGAATTCAATTAT
127 GGCCAAGTCCATTAC
* * *
49348632 AGAATCAAATACAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGT
1 AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAG-
* ** * * *
49348697 GAAGTGGTTGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGGAACATT-GAATTTTGA
65 CAAGTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATT--AAAATTCGAATTTTGA
* *
49348761 GGCAAAGTCCTTTAC
127 GGCCAAGTCCATTAC
*
49348776 -GAAATTATAA-ATAAAGTAT-AACTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATA
1 AG-AATTA-AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATA
* * * * *
49348838 GTGAAGTGCTTGTGTCTTATGATTCTTTTTAATTTCATTTTTAAATATTGGAACATT-GAATTTT
64 G-CAAGTTCTCGTGTTTTATGATT-TTTTTAATTTCATTTTTAAATATT--AAAATTCGAATTTT
* *
49348902 GAGGCAAAGTCCTTTAC
125 GAGGCCAAGTCCATTAC
* *
49348919 -GAAATTATAA-ATAAAGTATAACTTTTTAAGAGGTTAAAATGGAAATTTACAATTTGATGCATA
1 AG-AATTA-AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATA
* * * *
49348982 GCGAAGTGCTCGTGTCTTATGATACTTTTTTAATTTCATTTTTAAATACTGAAACTT-GAATTTT
64 GC-AAGTTCTCGTGTTTTATGAT--TTTTTTAATTTCATTTTTAAATA-TTAAAATTCGAATTTT
*
49349046 GAGGCAAAGTCC-TATAC
125 GAGGCCAAGTCCAT-TAC
* *
49349063 -GAAATTATAGATAAAGTATAAATTTTTAAGAGGTTAAAATGAAAATTTATC-ATGTGATGCATA
1 AG-AATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTA-CAATGTGATGCATA
* * * *
49349126 GCAAACTTCTAGTGTTTTATGATGTTTTT-ATTTCTTTTTTAAATATTAAAATTC-ATATTTTGA
64 GC-AAGTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCGA-ATTTTGA
*
49349189 GGTCAAGTC
127 GGCCAAGTC
49349198 AGCAATAGAA
Statistics
Matches: 1380, Mismatches: 254, Indels: 125
0.78 0.14 0.07
Matches are distributed among these distances:
134 1 0.00
135 81 0.06
136 21 0.02
137 2 0.00
140 61 0.04
141 210 0.15
142 366 0.27
143 317 0.23
144 288 0.21
145 31 0.02
146 2 0.00
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (141 bp):
AGAATTAAAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGC
AAGTTCTCGTGTTTTATGATTTTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTTGAGGCC
AAGTCCATTAC
Found at i:49350438 original size:20 final size:20
Alignment explanation
Indices: 49350415--49350458 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
49350405 TTATTCTGTA
* *
49350415 CATTATTCTGTTATGTGTTG
1 CATTATTCCGTTATGTGTCG
49350435 CATTATTCCGTTATGTGTCG
1 CATTATTCCGTTATGTGTCG
49350455 CATT
1 CATT
49350459 GGCACTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.16, C:0.16, G:0.18, T:0.50
Consensus pattern (20 bp):
CATTATTCCGTTATGTGTCG
Found at i:49351983 original size:40 final size:40
Alignment explanation
Indices: 49351906--49352167 Score: 420
Period size: 40 Copynumber: 6.6 Consensus size: 40
49351896 AAACCAAGTA
* * *
49351906 CCTTCGGGAATTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
49351945 CCTTCGGGATTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
49351985 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* *
49352025 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
49352065 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
49352105 CCTTCGGGACTTAGCCCGATTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
49352145 CCTTTGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
49352168 CATTCGAATA
Statistics
Matches: 210, Mismatches: 11, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 14 0.07
40 196 0.93
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:49365246 original size:39 final size:40
Alignment explanation
Indices: 49365146--49365370 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
49365136 TTGAATGATG
* * * *
49365146 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
49365186 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49365226 TTCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
49365265 TCCGGGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
49365305 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
49365346 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
49365371 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
39 36 0.22
40 118 0.72
41 10 0.06
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:49373509 original size:143 final size:141
Alignment explanation
Indices: 49373053--49374435 Score: 1133
Period size: 143 Copynumber: 9.8 Consensus size: 141
49373043 CCTATGAATC
* * *
49373053 TTTTTAAATTCATTTTTAAATATTAAAATTCGAATTTCGAGGCTAATTCGGCTACAGAATCAAAG
1 TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCGAGGC-AAGTCGGTTACAGAATCAAAG
* ** * * **
49373118 ATAAAGTATAAATTTTTAAGAGGTCAAAATAAAAATTTACCATGAGATGCATAGCGAAGTTCTTA
65 ATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTCTCG
* * *
49373183 CGCTTTATGATT
130 TGTTTTATTATT
* * * * * *
49373195 GTTTTTCAATTTCATTTTTAAATATTAAAACTCTAATTTTGAGTCGAAGTTC-GTTATAGAATTA
1 -TTTTT-AATTTCATTTTTAAATATTAAAATTCGAATTTCGAGGC-AAG-TCGGTTACAGAATCA
* **
49373259 AAGATAAAGTATAATTTTTTAAGCA-GTTAAAATGGAAATTTACCGA-GTGATGCATAGAAAACT
62 AAGATAAAGTATAAATTTTTAAG-AGGTTAAAATGGAAATTTACC-ATGTGATGCATAGCGAACT
** * * *
49373322 AATTGTTTTTTTTTCATT
125 TCTCGTGTTTTATT-ATT
* * * * *
49373340 TTTTTAATTTTATATTTAAATATTAAAATTTGAACTTCAAGGCAACGTCGGTTACAGAATCAAAG
1 TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCGAGGCAA-GTCGGTTACAGAATCAAAG
* * *
49373405 ATAAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTATCATGGGATGCATAGCAAACTTCTC
65 AT-AAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTCTC
*
49373470 GTATTTTATTATT
129 GTGTTTTATTATT
** * * *
49373483 TTTTTAATTTGTTTTTTAAATATTAAAATTTGAATTTCGAGGCCAAATCAGTTACAGAATCAAAG
1 TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCGAGG-CAAGTCGGTTACAGAATCAAAG
* * * * *
49373548 ATAAAGTATAAATTTTTAA-ATGGATAAAATGAAAATTTACAATCTGATGCATAGCGAAGTTCT-
65 ATAAAGTATAAATTTTTAAGA-GGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTCTC
***
49373611 -TG-TGCCTTA--
129 GTGTTTTATTATT
* * ** * * * ** *
49373620 ----TGA-TTC-TTTTTAAATATTGAAACACGAATTTTGAGCCAAAATCCATTAC-GAATTTAAA
1 TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCGAGGC-AAGTCGGTTACAGAA-TCAAA
* * * * * *
49373678 TATAAAGTATAAAATTTTAAGTGATTAAAATGAAAATTTACCATGTGATGCATACCGAACTTCTC
64 GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTCTC
*
49373743 GTGTTTTATTACT
129 GTGTTTTATTATT
* * * *
49373756 TTTTT--TTTCATTTTTAAATATTAAAATTTGAATTTTGCA-GCGAAGTTGGTTATAGAATCAAA
1 TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCG-AGGC-AAGTCGGTTACAGAATCAAA
* * * * *
49373818 TATAAAGTATAAAATTTTAAGAGGTTAAAATGGAAATTTACAATGTGATGCATAGCGAAGTTCTT
64 GATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTCTC
*
49373883 GTGTCTTATTATT
129 GTGTTTTATTATT
* * * * * * *
49373896 CTTTTTTATTTCATTTTTAAATATTGAAACTCGAATTTTGTGGCAAAGTTC-GAT-CTAGAATTA
1 -TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCGAGGC-AAG-TCGGTTAC-AGAATCA
* ** * ** **
49373959 TAGATAAAGTATAAATTTTTATTAGGTTAAAATTGAAATTTACCATGTGATGCATAGAAAACTAA
62 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTC
* **
49374024 TTGTGTTTTATGCTT
127 TCGTGTTTTATTATT
* * * * *
49374039 TTTTGAAATCTT-ATTTTTAAATTTTTAAATTCGAATTT-GAAGGCAACATTGGTTACAGAATCA
1 TTTT-TAAT-TTCATTTTTAAATATTAAAATTCGAATTTCG-AGGCAA-GTCGGTTACAGAATCA
* * * ** * *
49374102 AAGACAAAGTATAAAGTTTTAAGATGTTAAAATAAAAATTTATCATGTGATGCATAGCAAACTTC
62 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTC
*
49374167 TCATGTTTTA-TATT
127 TCGTGTTTTATTATT
* * ** * * * *
49374181 TTTTAAATTTCATTTCTATTTATTAAAATTCGAATTTCAAGGCCAAGTCAGTTACAAAATCAAAT
1 TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCGAGG-CAAGTCGGTTACAGAATCAAAG
* * * * *
49374246 ATAAAGAATAAATTTGTAAGAGGTTAAAATGGATATTTACAATGTGATGCATAGCGAAGTTCTCG
65 ATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTCTCG
* *
49374311 TGTCTTATGATT
130 TGTTTTATTATT
* * * * * ** *
49374323 CCTTTTAATTTCATTTTTAAATAATCAAAACTCGAATTTTGAGGCGAAG-CTTGTTATGGAATTA
1 -TTTTTAATTTCATTTTTAAAT-ATTAAAATTCGAATTTCGAGGC-AAGTC-GGTTACAGAATCA
* * *
49374387 TAGATAAAGTATAAAATTTTAAGAGGTTAAAATAGAAATTTACCATGTG
62 AAGATAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTG
49374436 TGATGATCAC
Statistics
Matches: 985, Mismatches: 207, Indels: 95
0.77 0.16 0.07
Matches are distributed among these distances:
130 4 0.00
131 91 0.09
132 2 0.00
133 4 0.00
134 4 0.00
139 7 0.01
140 107 0.11
141 110 0.11
142 75 0.08
143 333 0.34
144 241 0.24
145 7 0.01
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.39
Consensus pattern (141 bp):
TTTTTAATTTCATTTTTAAATATTAAAATTCGAATTTCGAGGCAAGTCGGTTACAGAATCAAAGA
TAAAGTATAAATTTTTAAGAGGTTAAAATGGAAATTTACCATGTGATGCATAGCGAACTTCTCGT
GTTTTATTATT
Found at i:49374059 original size:557 final size:560
Alignment explanation
Indices: 49372743--49374435 Score: 1471
Period size: 557 Copynumber: 3.0 Consensus size: 560
49372733 ATTTTCACAA
* * * * * *
49372743 AATGTGATGCATAGCGAAGTGCTCGTGTCTTATGATTCTCTTTAACTTCATTTTTAAATATTCAA
1 AATGTGATGCATAGCGAAGTACTTGTGTCTTATTATTCTTTTTAATTTCATTTTTAAATATTAAA
* * *
49372808 ACTCGAATTTTGAGGCAAAGTCCATTACAGAATTATAGATAAAGTATAAACTTCTATAAGGTTAA
66 ACTCGAATTTTGAGGCAAAGTCGATTA-AGAATTATAGATAAAGTATAAATTTTTATAAGGTTAA
* *
49372873 AATGGAAA-TTACAATGTGATGCATA-ACAAACTTCTTTTGTTTTATGAATTTTTTAATTTTATT
130 AATGGAAATTTACCATGTGATGCATAGA-AAACTTCTTGTGTTTTATG-ATTTTTTAA-TTTATT
* * * * * * **
49372936 TTTAAGTATTAAAATTCAAATTTCGAGTCGAAGTTAGTTACAAAATCAAAGATGCAGTATAAATT
192 TTTAAATATTAAAATTCGAATTTCGAGGCCAAATTAGTTACAGAATCAAAGATAAAGTATAAATT
* * * * * *
49373001 TTT-AA-GAAGTTAGATGAAAATTTACAATGTGATG--T-G-TAATGTCCTATGAATCTTTTTAA
257 TTTAAATGGA-TAAAATGAAAATTTACAATGTGATGCATAGCGAATGTCCTATG-ATCCTTATAA
** * * * **
49373060 ATTCATTTTTAAATATTAAAATTCGAATTTCGAGGCTAATTCGGCTACAGAATCAAAGATAAAGT
320 ATTCATTTTTAAATATTAAAACACGAATTTCGAGCCAAAATCCACTACAGAATCAAAGATAAAGT
* * * * *
49373125 ATAAATTTTTAAGAGGTCAAAATAAAAATTTACCATGAGATGCATAGCGAAGTTCTTACGCTTTA
385 ATAAAATTTTAAGAGATCAAAATAAAAATTTACCATGAGATGCATACCGAACTTCTCACGCTTTA
*
49373190 TGATTGTTTTTCAATTTCATTTTTAAATATTAAAACTCTAATTTTGAGTCGAAGTTCGTTATAGA
450 TGACTGTTTTT--ATTTCATTTTTAAATATTAAAACTCTAATTTTGAGTCGAAGTTCGTTATAGA
* **
49373255 ATTAAAGATAAAGTATAATTTTTTAAGCAGTTAAAATGGAAATTTACC
513 ATCAAAGATAAAGTATAAAATTTTAAGCAGTTAAAATGGAAATTTACC
* ** * * * * * * *
49373303 GA-GTGATGCATAGAAAACTAATTGTTTTTTTTTCATT-TTTTTAATTTTATATTTAAATATTAA
1 AATGTGATGCATAGCGAAGTACTTGTGTCTTATT-ATTCTTTTTAATTTCATTTTTAAATATTAA
* * * ** * * * *
49373366 AATTTGAACTTCAAGGCAACGTCGGTTACAGAATCAAAGATAAAAGTATAAATTTTTA-AGAGGT
65 AACTCGAATTTTGAGGCAAAGTCGATTA-AGAATTATAGAT-AAAGTATAAATTTTTATA-AGGT
* * * * * * *
49373430 TAAAATGGAAATTTATCATGGGATGCATAGCAAACTTCTCGTATTTTATTATTTTTTTAATTTGT
127 TAAAATGGAAATTTACCATGTGATGCATAGAAAACTTCTTGTGTTTTATGA-TTTTTTAATTT-A
* *
49373495 TTTTTAAATATTAAAATTTGAATTTCGAGGCCAAATCAGTTACAGAATCAAAGATAAAGTATAAA
190 TTTTTAAATATTAAAATTCGAATTTCGAGGCCAAATTAGTTACAGAATCAAAGATAAAGTATAAA
* *
49373560 TTTTTAAATGGATAAAATGAAAATTTACAATCTGATGCATAGCGAA-GTTCT-TG-TGCCTTAT-
255 TTTTTAAATGGATAAAATGAAAATTTACAATGTGATGCATAGCGAATGTCCTATGAT-CCTTATA
* * * * * *
49373621 GATTC-TTTTTAAATATTGAAACACGAATTTTGAGCCAAAATCCATTAC-GAATTTAAATATAAA
319 AATTCATTTTTAAATATTAAAACACGAATTTCGAGCCAAAATCCACTACAGAA-TCAAAGATAAA
* * * * ** *
49373684 GTATAAAATTTTAAGTGATTAAAATGAAAATTTACCATGTGATGCATACCGAACTTCTCGTGTTT
383 GTATAAAATTTTAAGAGATCAAAATAAAAATTTACCATGAGATGCATACCGAACTTCTCACGCTT
* * *
49373749 TATTACT-TTTTT-TTTCATTTTTAAATATTAAAA-TTTGAATTTTGCAG-CGAAGTTGGTTATA
448 TATGACTGTTTTTATTTCATTTTTAAATATTAAAACTCT-AATTTTG-AGTCGAAGTTCGTTATA
*
49373810 GAATCAAATATAAAGTATAAAATTTTAAG-AGGTTAAAATGGAAATTTA-C
511 GAATCAAAGATAAAGTATAAAATTTTAAGCA-GTTAAAATGGAAATTTACC
* * *
49373859 AATGTGATGCATAGCGAAGTTCTTGTGTCTTATTATTCTTTTTTATTTCATTTTTAAATATTGAA
1 AATGTGATGCATAGCGAAGTACTTGTGTCTTATTATTCTTTTTAATTTCATTTTTAAATATTAAA
* *
49373924 ACTCGAATTTTGTGGCAAAGTTCGATCT-AGAATTATAGATAAAGTATAAATTTTTATTAGGTTA
66 ACTCGAATTTTGAGGCAAAG-TCGAT-TAAGAATTATAGATAAAGTATAAATTTTTATAAGGTTA
* ** *
49373988 AAATTGAAATTTACCATGTGATGCATAGAAAACTAATTGTGTTTTATGCTTTTTTGAAATCTTAT
129 AAATGGAAATTTACCATGTGATGCATAGAAAACTTCTTGTGTTTTATGATTTTTT--AAT-TTAT
* * * *
49374053 TTTTAAATTTTTAAATTCGAATTT-GAAGG-CAACATTGGTTACAGAATCAAAGACAAAGTATAA
191 TTTTAAATATTAAAATTCGAATTTCG-AGGCCAA-ATTAGTTACAGAATCAAAGATAAAGTATAA
* * * *
49374116 AGTTTTAAGAT-GTTAAAATAAAAATTTATC-ATGTGATGCATAGCAAACT-T-CTCATGTTTTA
254 ATTTTTAA-ATGGATAAAATGAAAATTTA-CAATGTGATGCATAGCGAA-TGTCCT-ATG----A
** * * ** ** * * * *
49374177 TATTTTTTAAATTTCATTTCTATTTATTAAAATTCGAATTTCAAGGCC-AAGT-CAGTTACAAAA
311 T-CCTTATAAA-TTCATTTTTAAATATTAAAACACGAATTTCGA-GCCAAAATCCA-CTACAGAA
* * * * ** * * * *
49374240 TCAAATATAAAGAAT-AAATTTGTAAGAGGTTAAAATGGATATTTACAATGTGATGCATAGCGAA
372 TCAAAGATAAAGTATAAAATTT-TAAGAGATCAAAATAAAAATTTACCATGAGATGCATACCGAA
* ** * * * * * *
49374304 GTTCTCGTG-TCTTATGATTCCTTTTAATTTCATTTTTAAATAATCAAAACTCGAATTTTGAGGC
436 CTTCTCACGCT-TTATGACT-GTTTTTATTTCATTTTTAAAT-ATTAAAACTCTAATTTTGAGTC
* * * *
49374368 GAAGCTT-GTTATGGAATTATAGATAAAGTATAAAATTTTAAG-AGGTTAAAATAGAAATTTACC
498 GAAG-TTCGTTATAGAATCAAAGATAAAGTATAAAATTTTAAGCA-GTTAAAATGGAAATTTACC
49374431 -ATGTG
1 AATGTG
49374436 TGATGATCAC
Statistics
Matches: 909, Mismatches: 169, Indels: 99
0.77 0.14 0.08
Matches are distributed among these distances:
555 6 0.01
556 73 0.08
557 246 0.27
558 12 0.01
559 77 0.08
560 45 0.05
561 197 0.22
562 29 0.03
563 6 0.01
564 7 0.01
565 6 0.01
566 14 0.02
567 90 0.10
568 5 0.01
569 4 0.00
570 16 0.02
571 72 0.08
572 4 0.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (560 bp):
AATGTGATGCATAGCGAAGTACTTGTGTCTTATTATTCTTTTTAATTTCATTTTTAAATATTAAA
ACTCGAATTTTGAGGCAAAGTCGATTAAGAATTATAGATAAAGTATAAATTTTTATAAGGTTAAA
ATGGAAATTTACCATGTGATGCATAGAAAACTTCTTGTGTTTTATGATTTTTTAATTTATTTTTA
AATATTAAAATTCGAATTTCGAGGCCAAATTAGTTACAGAATCAAAGATAAAGTATAAATTTTTA
AATGGATAAAATGAAAATTTACAATGTGATGCATAGCGAATGTCCTATGATCCTTATAAATTCAT
TTTTAAATATTAAAACACGAATTTCGAGCCAAAATCCACTACAGAATCAAAGATAAAGTATAAAA
TTTTAAGAGATCAAAATAAAAATTTACCATGAGATGCATACCGAACTTCTCACGCTTTATGACTG
TTTTTATTTCATTTTTAAATATTAAAACTCTAATTTTGAGTCGAAGTTCGTTATAGAATCAAAGA
TAAAGTATAAAATTTTAAGCAGTTAAAATGGAAATTTACC
Found at i:49374292 original size:141 final size:139
Alignment explanation
Indices: 49372743--49374435 Score: 1045
Period size: 143 Copynumber: 12.0 Consensus size: 139
49372733 ATTTTCACAA
* * * * *
49372743 AATGTGATGCATAGCGAAGTGCTCGTGTCTTATGATTCTCTTTAACTTCATTTTTAAATATTCAA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTAT-ATT-T-TTTAATTTCATTTTTAAATATTAAA
* ** * ** * * * *
49372808 ACTCGAATTTTGAGGCAAAGTCCATTACAGAATTATAGATAAAGTATAAACTTCTATA-AGGTTA
63 ATTCGAATTTCAAGGCCAAGTCGGTTACAGAATCAAATATAAAGTATAAA-TTTTA-AGAGGTTA
49372872 AAATGGAAA-TTAC
126 AAATGGAAATTTAC
* * ** * *
49372885 AATGTGATGCATAACAAACTTCTTTTGTTTTATGAATTTTTTAATTTTATTTTTAAGTATTAAAA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTAT--ATTTTTTAATTTCATTTTTAAATATTAAAA
* * * * ** * * ** * *
49372950 TTCAAATTTCGAGTCGAAGTTAGTTACAAAATCAAAGATGCAGTATAAATTTTTAAGAAGTT-AG
64 TTCGAATTTCAAGGCCAAGTCGGTTACAGAATCAAATATAAAGTATAAA-TTTTAAGAGGTTAAA
*
49373014 ATGAAAATTTAC
128 ATGGAAATTTAC
* * * *
49373026 AATGTGATG--T-G-TAA-TGTC-C---TATGA-ATCTTTTTAAATTCATTTTTAAATATTAAAA
1 AATGTGATGCATAGCGAACT-TCTCGTGTTTTATAT-TTTTTAATTTCATTTTTAAATATTAAAA
* * * * * *
49373081 TTCGAATTTCGAGGCTAATTCGGCTACAGAATCAAAGATAAAGTATAAATTTTTAAGAGGTCAAA
64 TTCGAATTTCAAGGCCAAGTCGGTTACAGAATCAAATATAAAGTATAAA-TTTTAAGAGGTTAAA
**
49373146 ATAAAAATTTAC
128 ATGGAAATTTAC
* * * *** *
49373158 CATGAGATGCATAGCGAAGTTCTTACGCTTTATGATTGTTTTTCAATTTCATTTTTAAATATTAA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTAT-A-T-TTTTT-AATTTCATTTTTAAATATTAA
* * ** * * * * * *
49373223 AACTCTAATTTTGAGTCGAAGTTC-GTTATAGAATTAAAGATAAAGTATAATTTTTTAAGCA-GT
62 AATTCGAATTTCAAGGCCAAG-TCGGTTACAGAATCAAATATAAAGTATAA-ATTTTAAG-AGGT
49373286 TAAAATGGAAATTTACC
124 TAAAATGGAAATTTA-C
* ** ** * * * * *
49373303 GA-GTGATGCATAGAAAACTAATTGTTTTTTTTTCATTTTTTTAATTTTATATTTAAATATTAAA
1 AATGTGATGCATAGCGAACTTCTCG-TGTTTTAT-A-TTTTTTAATTTCATTTTTAAATATTAAA
* * *
49373367 ATTTGAACTTCAAGG-CAACGTCGGTTACAGAATCAAAGATAAAAGTATAAATTTTTAAGAGGTT
63 ATTCGAATTTCAAGGCCAA-GTCGGTTACAGAATCAAATAT-AAAGTATAAA-TTTTAAGAGGTT
49373431 AAAATGGAAATTTATC
125 AAAATGGAAATTTA-C
* * * **
49373447 -ATGGGATGCATAGCAAACTTCTCGTATTTTATTATTTTTTTAATTTGTTTTTTAAATATTAAAA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTA-TA-TTTTTTAATTTCATTTTTAAATATTAAAA
* * * * * *
49373511 TTTGAATTTCGAGGCCAAATCAGTTACAGAATCAAAGATAAAGTATAAATTTTTAA-ATGGATAA
64 TTCGAATTTCAAGGCCAAGTCGGTTACAGAATCAAATATAAAGTATAAA-TTTTAAGA-GGTTAA
*
49373575 AATGAAAATTTAC
127 AATGGAAATTTAC
* * * ** * * **
49373588 AATCTGATGCATAGCGAAGTTCTTGTG-CCT-TA-----TGA-TTC-TTTTTAAATATTGAAACA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTATATTTTTTAATTTCATTTTTAAATATTAAAATT
** * ** * * *
49373644 CGAATTTTGA-GCCAAAATCCATTAC-GAATTTAAATATAAAGTATAAAATTTTAAGTGATTAAA
66 CGAATTTCAAGGCC-AAGTCGGTTACAGAA-TCAAATATAAAGTAT-AAATTTTAAGAGGTTAAA
*
49373707 ATGAAAATTTAC
128 ATGGAAATTTAC
* *
49373719 CATGTGATGCATACCGAACTTCTCGTGTTTTATTACTTTTTT--TTTCATTTTTAAATATTAAAA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTA-TA-TTTTTTAATTTCATTTTTAAATATTAAAA
* * * *
49373782 TTTGAATTTTGC-A-GCGAAGTTGGTTATAGAATCAAATATAAAGTATAAAATTTTAAGAGGTTA
64 TTCGAA-TTT-CAAGGCCAAGTCGGTTACAGAATCAAATATAAAGTAT-AAATTTTAAGAGGTTA
49373845 AAATGGAAATTTAC
126 AAATGGAAATTTAC
* * * * *
49373859 AATGTGATGCATAGCGAAGTTCTTGTGTCTTATTATTCTTTTTTATTTCATTTTTAAATATTGAA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTA-TA-T-TTTTTAATTTCATTTTTAAATATTAAA
* *** * * * * * **
49373924 ACTCGAATTTTGTGGCAAAGTTC-GAT-CTAGAATTATAGATAAAGTATAAATTTTTATTAGGTT
63 ATTCGAATTTCAAGGCCAAG-TCGGTTAC-AGAATCAAATATAAAGTATAAA-TTTTAAGAGGTT
*
49373987 AAAATTGAAATTTAC
125 AAAATGGAAATTTAC
* ** ** * * * *
49374002 CATGTGATGCATAGAAAACTAATTGTGTTTTATGCTTTTTTGAAATCTT-ATTTTTAAATTTTTA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTAT-ATTTTTT--AAT-TTCATTTTTAAATATTAA
* * * * * *
49374066 AATTCGAATTTGAAGG-CAACATTGGTTACAGAATCAAAGACAAAGTATAAAGTTTTAAGATGTT
62 AATTCGAATTTCAAGGCCAA-GTCGGTTACAGAATCAAATATAAAGTATAAA-TTTTAAGAGGTT
**
49374130 AAAATAAAAATTTATC
125 AAAATGGAAATTTA-C
* * * **
49374146 -ATGTGATGCATAGCAAACTTCTCATGTTTTATATTTTTTAAATTTCATTTCTATTTATTAAAAT
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTATATTTTTT-AATTTCATTTTTAAATATTAAAAT
* * *
49374210 TCGAATTTCAAGGCCAAGTCAGTTACAAAATCAAATATAAAGAATAAATTTGTAAGAGGTTAAAA
65 TCGAATTTCAAGGCCAAGTCGGTTACAGAATCAAATATAAAGTATAAATTT-TAAGAGGTTAAAA
*
49374275 TGGATATTTAC
129 TGGAAATTTAC
* * *
49374286 AATGTGATGCATAGCGAAGTTCTCGTGTCTTATGATTCCTTTTAATTTCATTTTTAAATAATCAA
1 AATGTGATGCATAGCGAACTTCTCGTGTTTTAT-ATT--TTTTAATTTCATTTTTAAAT-ATTAA
* ** * * ** * * *
49374351 AACTCGAATTTTGAGGCGAAG-CTTGTTATGGAATTATAGATAAAGTATAAAATTTTAAGAGGTT
62 AATTCGAATTTCAAGGCCAAGTC-GGTTACAGAATCAAATATAAAGTAT-AAATTTTAAGAGGTT
*
49374415 AAAATAGAAATTTAC
125 AAAATGGAAATTTAC
*
49374430 CATGTG
1 AATGTG
49374436 TGATGATCAC
Statistics
Matches: 1217, Mismatches: 256, Indels: 154
0.75 0.16 0.09
Matches are distributed among these distances:
130 8 0.01
131 165 0.14
132 25 0.02
133 5 0.00
134 3 0.00
135 1 0.00
136 5 0.00
137 5 0.00
139 6 0.00
140 114 0.09
141 201 0.17
142 108 0.09
143 325 0.27
144 228 0.19
145 18 0.01
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (139 bp):
AATGTGATGCATAGCGAACTTCTCGTGTTTTATATTTTTTAATTTCATTTTTAAATATTAAAATT
CGAATTTCAAGGCCAAGTCGGTTACAGAATCAAATATAAAGTATAAATTTTAAGAGGTTAAAATG
GAAATTTAC
Found at i:49378955 original size:25 final size:25
Alignment explanation
Indices: 49378907--49378955 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
49378897 AACTAAGAAT
* * **
49378907 AATAATAATAGTCAAGATTGAAATG
1 AATAATAATAATCAAAATAAAAATG
49378932 AATAATAATAATCAAAATAAAAAT
1 AATAATAATAATCAAAATAAAAAT
49378956 AAAGATAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.61, C:0.04, G:0.08, T:0.27
Consensus pattern (25 bp):
AATAATAATAATCAAAATAAAAATG
Found at i:49378958 original size:6 final size:6
Alignment explanation
Indices: 49378935--49379007 Score: 53
Period size: 6 Copynumber: 12.2 Consensus size: 6
49378925 TGAAATGAAT
* * *
49378935 AATAAT AATCAA AATAAA AATAAA GATAAAGA AATAAA AAT-AA AAT-AA
1 AATAAA AATAAA AATAAA AATAAA AAT-AA-A AATAAA AATAAA AATAAA
* *
49378983 GAT-AA AATAAA ATAAAAA AATAAA A
1 AATAAA AATAAA A-ATAAA AATAAA A
49379008 TAGGGAAAAG
Statistics
Matches: 54, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
5 13 0.24
6 29 0.54
7 9 0.17
8 3 0.06
ACGTcount: A:0.77, C:0.01, G:0.04, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:49378971 original size:20 final size:19
Alignment explanation
Indices: 49378946--49379007 Score: 78
Period size: 20 Copynumber: 3.4 Consensus size: 19
49378936 ATAATAATCA
49378946 AAATAAAAATAAAGATAAAG
1 AAATAAAAATAAA-ATAAAG
49378966 AAATAAAAATAAAAT-AAG
1 AAATAAAAATAAAATAAAG
*
49378984 --AT-AAAATAAAATAAAA
1 AAATAAAAATAAAATAAAG
49379000 AAATAAAA
1 AAATAAAA
49379008 TAGGGAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
15 10 0.27
16 4 0.11
18 5 0.14
19 5 0.14
20 13 0.35
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.16
Consensus pattern (19 bp):
AAATAAAAATAAAATAAAG
Found at i:49378981 original size:5 final size:5
Alignment explanation
Indices: 49378935--49379009 Score: 59
Period size: 5 Copynumber: 14.8 Consensus size: 5
49378925 TGAAATGAAT
*
49378935 AATAA TAATCAA AATAAA AATAA AGAT-A AA-GA AATAAA AATAA AATAA
1 AATAA -AAT-AA AAT-AA AATAA A-ATAA AATAA AAT-AA AATAA AATAA
*
49378983 GATAA AATAA AAT-A AA-AA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
49379010 GGGAAAAGGG
Statistics
Matches: 58, Mismatches: 4, Indels: 15
0.75 0.05 0.19
Matches are distributed among these distances:
4 10 0.17
5 29 0.50
6 17 0.29
7 2 0.03
ACGTcount: A:0.76, C:0.01, G:0.04, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:49379205 original size:17 final size:17
Alignment explanation
Indices: 49379176--49379208 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
49379166 TGGTGTTGAG
49379176 AGGGAAATGAGAAAAGA
1 AGGGAAATGAGAAAAGA
49379193 AGGGAGAAT-AGAAAAG
1 AGGGA-AATGAGAAAAG
49379209 GAAGAGAGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.58, C:0.00, G:0.36, T:0.06
Consensus pattern (17 bp):
AGGGAAATGAGAAAAGA
Found at i:49381298 original size:6 final size:6
Alignment explanation
Indices: 49381264--49381357 Score: 50
Period size: 6 Copynumber: 15.3 Consensus size: 6
49381254 AAGAAACATT
* * * *
49381264 ATCAGA A-CTAGA ATTAGA ATCAAA ATCAGA ATCAG- GTGACAGA ATCAAA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
49381313 ATCAGA ATCAAA ATCAGT ATCAGGTA AT-AGG ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
49381358 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 16, Indels: 16
0.67 0.17 0.17
Matches are distributed among these distances:
5 4 0.06
6 52 0.81
7 5 0.08
8 3 0.05
ACGTcount: A:0.50, C:0.14, G:0.16, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:49381320 original size:37 final size:37
Alignment explanation
Indices: 49381279--49381357 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
49381269 AACTAGAATT
*
49381279 AGAATCAAAATCAGAATCAGGTGACAGAATCAAAATC
1 AGAATCAAAATCAGAATCAGGTAACAGAATCAAAATC
* * *
49381316 AGAATCAAAATCAGTATCAGGTAATAGGATCAAAATC
1 AGAATCAAAATCAGAATCAGGTAACAGAATCAAAATC
49381353 AGAAT
1 AGAAT
49381358 GTGAATGCAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.51, C:0.14, G:0.16, T:0.19
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGGTAACAGAATCAAAATC
Found at i:49381532 original size:27 final size:26
Alignment explanation
Indices: 49381476--49381594 Score: 148
Period size: 27 Copynumber: 4.5 Consensus size: 26
49381466 AGCATGGCTG
*
49381476 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGACAGAGCCA
* *
49381502 CCAGAATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGACAGAGCCA
49381529 CCAGAACAGATATATGTGACAGAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCA
* * *
49381556 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGACAGAGCCA
*
49381583 CCAGGACAGATA
1 CCAGAACAGATA
49381595 TATATATATG
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
26 14 0.17
27 64 0.80
28 2 0.03
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGACAGAGCCA
Found at i:49381558 original size:54 final size:54
Alignment explanation
Indices: 49381476--49381597 Score: 185
Period size: 54 Copynumber: 2.3 Consensus size: 54
49381466 AGCATGGCTG
*
49381476 CCAGAACAGATA-ATGTGACAGAGTCACCAGAAT-AGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAG-ATCAGATAATCGTGGCAGAGCCA
* *
49381529 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
*
49381583 CCAGGACAGATATAT
1 CCAGAACAGATATAT
49381598 ATATATGTGG
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
53 14 0.22
54 49 0.78
ACGTcount: A:0.39, C:0.21, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:49402511 original size:32 final size:32
Alignment explanation
Indices: 49402473--49402536 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
49402463 AGATCGCATG
49402473 GTTGGGGACAATGCATTGTCCTAAACTATGTT
1 GTTGGGGACAATGCATTGTCCTAAACTATGTT
49402505 GTTGGGGACAATGCATTGTCCTAAACTATGTT
1 GTTGGGGACAATGCATTGTCCTAAACTATGTT
49402537 AAGGATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.34
Consensus pattern (32 bp):
GTTGGGGACAATGCATTGTCCTAAACTATGTT
Found at i:49404583 original size:17 final size:18
Alignment explanation
Indices: 49404548--49404584 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49404538 TTGATATGAT
49404548 ACTAAAATTATTAAAAAA
1 ACTAAAATTATTAAAAAA
49404566 ACTAAAA-TATATAAAAAA
1 ACTAAAATTAT-TAAAAAA
49404584 A
1 A
49404585 TCAGGGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
ACTAAAATTATTAAAAAA
Found at i:49404899 original size:19 final size:19
Alignment explanation
Indices: 49404875--49404911 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49404865 AATCATATCT
*
49404875 TCTAAGATTGCCTATCATA
1 TCTAAGATTGCATATCATA
49404894 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
49404912 TGAAGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:49404919 original size:17 final size:19
Alignment explanation
Indices: 49404878--49404919 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
49404868 CATATCTTCT
* *
49404878 AAGATTGCCTATCATATCT
1 AAGATTGCATATCATATCG
49404897 AAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCG
49404914 AAGATT
1 AAGATT
49404920 ATATTTCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (19 bp):
AAGATTGCATATCATATCG
Found at i:49405596 original size:78 final size:78
Alignment explanation
Indices: 49405385--49405692 Score: 380
Period size: 78 Copynumber: 4.0 Consensus size: 78
49405375 ATGTAAACAC
* * *
49405385 ATGAAGGTCAGATTTGCTATGTCTTCGATGTGCTCCCCGTCTAATA-AAGAGATGCCAAATCATC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAA-AGATGCCAAATCATC
49405449 TTGGATC--CTTCA
65 TTGGATCTGCTTCA
* *
49405461 ATGAAGGTCCA-ATCTGTTATGTCTT-GATCTGC-TCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAAAGATGCCAAATCATC
49405523 TTGGATCTGCTTCA
65 TTGGATCTGCTTCA
* *
49405537 ATGAAGGTCAGATCTGCTGTGTCTTCGATCTGCTTCCCGTCTAATACAAAGATGCCAAATCATCC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAAAGATGCCAAATCATCT
*
49405602 TGGATCTACTTCA
66 TGGATCTGCTTCA
* * * *** *
49405615 ATGAAGGTCAGATATGCTATGTCTTTGATCT-CCTCTCCGT-TGAATATGGATATGCCAAATCAT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTC-CCGTCT-AATACAAAGATGCCAAATCAT
*
49405678 CTTAGATCTGCTTCA
64 CTTGGATCTGCTTCA
49405693 GCGTAAACAT
Statistics
Matches: 202, Mismatches: 21, Indels: 16
0.85 0.09 0.07
Matches are distributed among these distances:
74 33 0.16
75 9 0.04
76 45 0.22
77 13 0.06
78 102 0.50
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATCTGCTTCCCGTCTAATACAAAGATGCCAAATCATCT
TGGATCTGCTTCA
Found at i:49415810 original size:17 final size:18
Alignment explanation
Indices: 49415775--49415811 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
49415765 TTGATATGAT
49415775 ACTAAAATTATTAAAAAA
1 ACTAAAATTATTAAAAAA
49415793 ACTAAAA-TATATAAAAAA
1 ACTAAAATTAT-TAAAAAA
49415811 A
1 A
49415812 TCAGGAAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (18 bp):
ACTAAAATTATTAAAAAA
Found at i:49416126 original size:19 final size:19
Alignment explanation
Indices: 49416102--49416138 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49416092 AATCATATCT
49416102 TCTAAGATTGCCTATCATA
1 TCTAAGATTGCCTATCATA
*
49416121 TCTAAGATTGCTTATCAT
1 TCTAAGATTGCCTATCAT
49416139 TGAAGATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCCTATCATA
Found at i:49416146 original size:17 final size:19
Alignment explanation
Indices: 49416105--49416146 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
49416095 CATATCTTCT
*
49416105 AAGATTGCCTATCATATCT
1 AAGATTGCCTATCATATCG
*
49416124 AAGATTGCTTATCAT-T-G
1 AAGATTGCCTATCATATCG
49416141 AAGATT
1 AAGATT
49416147 ATATTTCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 1 0.05
19 14 0.67
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.38
Consensus pattern (19 bp):
AAGATTGCCTATCATATCG
Found at i:49420384 original size:39 final size:40
Alignment explanation
Indices: 49420148--49420402 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
49420138 TGGATGATAA
* * *
49420148 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
49420188 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
49420228 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
49420268 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
49420308 CCGGGCTAAGTCCCGAAGGCATTGGTGC-AGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
49420347 CCGGGCTATGT-CCGAAGACATTCGAGCGAG-TAGCTATA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
49420385 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49420403 TACTTGGCTT
Statistics
Matches: 199, Mismatches: 12, Indels: 10
0.90 0.05 0.05
Matches are distributed among these distances:
37 5 0.03
38 23 0.12
39 29 0.15
40 142 0.71
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49428365 original size:40 final size:40
Alignment explanation
Indices: 49428310--49428563 Score: 360
Period size: 40 Copynumber: 6.5 Consensus size: 40
49428300 TGGATGATAA
* * *
49428310 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
49428350 CCGGGCTAAGTCCCGAAGGCATTTGTGCGA-TTAC--TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
49428387 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
49428427 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
49428467 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
49428506 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
49428546 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49428564 TACTTGGCTT
Statistics
Matches: 198, Mismatches: 10, Indels: 13
0.90 0.05 0.06
Matches are distributed among these distances:
36 1 0.01
37 31 0.16
38 4 0.02
39 55 0.28
40 107 0.54
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:49428509 original size:79 final size:80
Alignment explanation
Indices: 49428310--49428563 Score: 360
Period size: 79 Copynumber: 3.2 Consensus size: 80
49428300 TGGATGATAA
* * *
49428310 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATTT
49428374 GTGCGA-TTAC--TAT
65 GTGCGAGTTACTATAT
49428387 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
49428452 TGCGAGTTACTATAT
66 TGCGAGTTACTATAT
* * *
49428467 CCGGGCTAAGT-CCGAAGGCATTGGTGCGAGTTACTATATCCGGGCTATGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
49428531 AGCGAG-TAGCTATAT
66 TGCGAGTTA-CTATAT
* *
49428546 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
49428564 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 9, Indels: 10
0.90 0.05 0.06
Matches are distributed among these distances:
76 1 0.01
77 65 0.40
78 12 0.07
79 70 0.43
80 14 0.09
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTATAT
Found at i:49577580 original size:38 final size:39
Alignment explanation
Indices: 49577456--49577635 Score: 149
Period size: 39 Copynumber: 4.6 Consensus size: 39
49577446 AGCTACTGTT
* *
49577456 CAAATGCCTTCGGACATAGCCCGG-TTATAG-ATACTCGCA
1 CAAATGCCTTCGGGCTTAGCCCGGATT-TAGTAT-CTCGCA
* * *
49577495 CAAATG-CTTTGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAGCCCGGATTTAGTATCTCGCA
*
49577534 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCT-GCA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTATCTCGCA
* * * * *
49577572 CAAATGCCTT-GGATCTTAGTCCGGATATGGTCA-CTTAGCA
1 CAAATGCCTTCGG-GCTTAGCCCGGATTTAGT-ATC-TCGCA
*
49577612 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGA
49577636 CATCATTCAA
Statistics
Matches: 116, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
37 2 0.02
38 32 0.28
39 64 0.55
40 18 0.16
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTATCTCGCA
Found at i:49577596 original size:77 final size:80
Alignment explanation
Indices: 49577456--49577635 Score: 203
Period size: 77 Copynumber: 2.3 Consensus size: 80
49577446 AGCTACTGTT
* * *
49577456 CAAATGCCTTCGGACATAGCCCGG-TTATAGATACTCGCACAAATGCTTTGGGACTTAACCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGAATATAGATACTCGCACAAATGCCTTGGGACTTAACCCGGA
* *
49577520 TTTAGTAAC-TCGCA
66 TATAGTAACTTAGCA
* **
49577534 CAAATGCCTTCGGGCTTAGCCCGGAAT-TAG-TA-TCTGCACAAATGCCTT-GGATCTTAGTCCG
1 CAAATGCCTTCGGACTTAGCCCGGAATATAGATACTC-GCACAAATGCCTTGGGA-CTTAACCCG
* *
49577595 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
49577612 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
49577636 CATCATTCAA
Statistics
Matches: 87, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
76 5 0.06
77 48 0.55
78 33 0.38
79 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGAATATAGATACTCGCACAAATGCCTTGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:49585434 original size:39 final size:40
Alignment explanation
Indices: 49585352--49585535 Score: 207
Period size: 39 Copynumber: 4.7 Consensus size: 40
49585342 GCTACTCGTT
* *
49585352 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATT-TAGTAACTCGCA
49585392 CAAATGCCTTCGGGACTTA-ACCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * *
49585431 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
* * * * *
49585470 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGACCGGATTTAGTAAC-TCGCA
*
49585511 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGACCGGA
49585536 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 6 0.05
39 58 0.46
40 50 0.40
41 11 0.09
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGACCGGATTTAGTAACTCGCA
Found at i:49585535 original size:40 final size:40
Alignment explanation
Indices: 49585333--49585535 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
49585323 CGGAATTTAA
** *
49585333 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49585373 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTA-A
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
49585412 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
49585451 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
49585491 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
49585531 CCGGA
1 CCGGA
49585536 CATCATTCAA
Statistics
Matches: 139, Mismatches: 16, Indels: 16
0.81 0.09 0.09
Matches are distributed among these distances:
38 6 0.04
39 59 0.42
40 62 0.45
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:49589904 original size:43 final size:43
Alignment explanation
Indices: 49589852--49589977 Score: 155
Period size: 43 Copynumber: 3.0 Consensus size: 43
49589842 AGGATTACCC
* * *
49589852 ATATGTGATTACATGTAAGACCATGTCTTGGACATTGGCATCG
1 ATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCATCG
* * *
49589895 TTATATGATTTCATGTAAGACCCTGTCTGGGACAGTGGCATCG
1 ATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCATCG
* * * *
49589938 ATATGTGATAACATGTAAGACCATATCTGGGATA-TGGCAT
1 ATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCAT
49589978 TGTATGAGCT
Statistics
Matches: 70, Mismatches: 13, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
42 6 0.09
43 64 0.91
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.32
Consensus pattern (43 bp):
ATATATGATTACATGTAAGACCATGTCTGGGACAGTGGCATCG
Found at i:49596767 original size:43 final size:43
Alignment explanation
Indices: 49596719--49596865 Score: 172
Period size: 43 Copynumber: 3.4 Consensus size: 43
49596709 GATTACCGAG
* *
49596719 ATGTGATTACATGTAAGACCATGTCTAGGACATTGGCATTGTA
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA
* *
49596762 ATGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA
* * * * *
49596805 ATATGATTTCGTGTAAGATCC-TATCTGGGACAGTGGCATCG-A
1 ATGTGATTACATGTAAGA-CCATGTCTGGGACATTGGCATCGTA
*
49596847 TATGTGATAACATGTAAGA
1 -ATGTGATTACATGTAAGA
49596866 ACATATCCGG
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
43 87 0.98
44 2 0.02
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (43 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATCGTA
Found at i:49602349 original size:34 final size:33
Alignment explanation
Indices: 49602295--49602365 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 33
49602285 GCATTTCTGT
49602295 TACTATTACAATAATAGGCTAAGGCCCACACTGA
1 TACTATTACAATAATAGGCTAAGGCCC-CACTGA
** * * *
49602329 TACTATTACTGTAATGGGCTATGGCCCTACTGA
1 TACTATTACAATAATAGGCTAAGGCCCCACTGA
49602362 TACT
1 TACT
49602366 GGACTATCAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 9 0.28
34 23 0.72
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (33 bp):
TACTATTACAATAATAGGCTAAGGCCCCACTGA
Found at i:49604838 original size:78 final size:78
Alignment explanation
Indices: 49604704--49604859 Score: 276
Period size: 78 Copynumber: 2.0 Consensus size: 78
49604694 TAATTCTATT
*
49604704 CCCAAAATTTATTTTAAGTTATGGAAGCTAATTTTAAAAGTAATTGATTTACGAAAACGTGATGT
1 CCCAAAATTTATTTTAAGTTACGGAAGCTAATTTTAAAAGTAATTGATTTACGAAAACGTGATGT
*
49604769 CAAAAACAACTAA
66 CAAAAAAAACTAA
* *
49604782 CCCAAAATTTCTTTTAAGTTACGGAAGCTAATTTTAAAAGTAATTGATTTATGAAAACGTGATGT
1 CCCAAAATTTATTTTAAGTTACGGAAGCTAATTTTAAAAGTAATTGATTTACGAAAACGTGATGT
49604847 CAAAAAAAACTAA
66 CAAAAAAAACTAA
49604860 GTTAAGAAAC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 74 1.00
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.32
Consensus pattern (78 bp):
CCCAAAATTTATTTTAAGTTACGGAAGCTAATTTTAAAAGTAATTGATTTACGAAAACGTGATGT
CAAAAAAAACTAA
Found at i:49605319 original size:31 final size:33
Alignment explanation
Indices: 49605263--49605327 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 33
49605253 TTTGGGTCAC
* *
49605263 AACCTATAACAGAATCAATTGGGCCT-AGCCCA
1 AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
*
49605295 AACCAATAACAGGA-CAAGTGGGCCTAAGCCCA
1 AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
49605327 A
1 A
49605328 TACAGTGACA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 10 0.34
32 19 0.66
ACGTcount: A:0.40, C:0.28, G:0.18, T:0.14
Consensus pattern (33 bp):
AACCAATAACAGAATCAAGTGGGCCTAAGCCCA
Found at i:49605575 original size:32 final size:32
Alignment explanation
Indices: 49605530--49605612 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
49605520 CTCTAAGTCT
*
49605530 TCAGTAGCGGTATTATAATTGGCACAAAGCCA
1 TCAGTAACGGTATTATAATTGGCACAAAGCCA
* ** *
49605562 TCAGTAACTGTATTATGTTTGGCACATAGCCA
1 TCAGTAACGGTATTATAATTGGCACAAAGCCA
* *
49605594 TCAGCAACGGTAATATAAT
1 TCAGTAACGGTATTATAAT
49605613 CGACACACAG
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (32 bp):
TCAGTAACGGTATTATAATTGGCACAAAGCCA
Found at i:49606143 original size:27 final size:27
Alignment explanation
Indices: 49606111--49606225 Score: 112
Period size: 27 Copynumber: 4.3 Consensus size: 27
49606101 CAAAACAATC
49606111 ATTTTACCTTAC-AGGAGTATTTCGATA
1 ATTTTACCTTACAAGG-GTATTTCGATA
49606138 ATTTTACAC-TACAAGGGTATTTCGGA-A
1 ATTTTAC-CTTACAAGGGTATTTC-GATA
* *
49606165 ATTTTTCATTACAAGGGTATTTCGATA
1 ATTTTACCTTACAAGGGTATTTCGATA
* * * *
49606192 ATTTTACAATT-CAAGGATATTTTGGTA
1 ATTTTAC-CTTACAAGGGTATTTCGATA
49606219 ATTTTAC
1 ATTTTAC
49606226 AAATAGAGGT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
26 2 0.03
27 65 0.86
28 9 0.12
ACGTcount: A:0.31, C:0.12, G:0.15, T:0.42
Consensus pattern (27 bp):
ATTTTACCTTACAAGGGTATTTCGATA
Found at i:49606169 original size:54 final size:54
Alignment explanation
Indices: 49606111--49606226 Score: 153
Period size: 54 Copynumber: 2.1 Consensus size: 54
49606101 CAAAACAATC
* * *
49606111 ATTTTACCTTAC-AGGAGTATTTCGATAATTTTACACTACAAGGGTATTTCGGAA
1 ATTTTACATTACAAGG-GTATTTCGATAATTTTACAATACAAGGATATTTCGGAA
* * * *
49606165 ATTTTTCATTACAAGGGTATTTCGATAATTTTACAATTCAAGGATATTTTGGTA
1 ATTTTACATTACAAGGGTATTTCGATAATTTTACAATACAAGGATATTTCGGAA
49606219 ATTTTACA
1 ATTTTACA
49606227 AATAGAGGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 50 0.94
55 3 0.06
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (54 bp):
ATTTTACATTACAAGGGTATTTCGATAATTTTACAATACAAGGATATTTCGGAA
Found at i:49606226 original size:27 final size:27
Alignment explanation
Indices: 49606127--49606227 Score: 114
Period size: 27 Copynumber: 3.7 Consensus size: 27
49606117 CCTTACAGGA
* * *
49606127 GTATTTCGATAATTTTACACTACAAGG
1 GTATTTCGGTAATTTTACAATTCAAGG
* *
49606154 GTATTTCGGAAATTTTTC-ATTACAAGG
1 GTATTTCGGTAATTTTACAATT-CAAGG
*
49606181 GTATTTCGATAATTTTACAATTCAAGG
1 GTATTTCGGTAATTTTACAATTCAAGG
* *
49606208 ATATTTTGGTAATTTTACAA
1 GTATTTCGGTAATTTTACAA
49606228 ATAGAGGTCT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 1 0.02
27 57 0.93
28 3 0.05
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.42
Consensus pattern (27 bp):
GTATTTCGGTAATTTTACAATTCAAGG
Found at i:49625519 original size:10 final size:10
Alignment explanation
Indices: 49625504--49625529 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
49625494 ACTTGTTCTT
49625504 AAAAAAATAA
1 AAAAAAATAA
49625514 AAAAAAATAA
1 AAAAAAATAA
49625524 AAAAAA
1 AAAAAA
49625530 CCCTTACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:49626366 original size:13 final size:13
Alignment explanation
Indices: 49626345--49626377 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
49626335 TGGACTTCCT
49626345 CACACGGGTAAGC
1 CACACGGGTAAGC
*
49626358 CACATGGGTAAGC
1 CACACGGGTAAGC
49626371 CACACGG
1 CACACGG
49626378 CCGTGTCCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.30, T:0.09
Consensus pattern (13 bp):
CACACGGGTAAGC
Found at i:49631394 original size:119 final size:120
Alignment explanation
Indices: 49631212--49631434 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
49631202 TCCTCGTTCA
*
49631212 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
49631277 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
49631332 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
49631394 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
49631435 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:49631434 original size:40 final size:40
Alignment explanation
Indices: 49631210--49631434 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
49631200 GCTCCTCGTT
* *
49631210 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49631250 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49631290 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49631330 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
49631369 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
49631410 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49631435 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:49639579 original size:29 final size:28
Alignment explanation
Indices: 49639544--49639621 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
49639534 TCATGAGATT
49639544 GGCACTAAGTGTGCGGGTTTAAAGTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
49639574 -GCACTAATTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
49639601 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
49639622 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:49639884 original size:173 final size:174
Alignment explanation
Indices: 49639574--49639900 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
49639564 AAAGTGTACA
* * *
49639574 GCACTAATTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
49639639 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
49639704 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
49639748 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
49639813 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
49639877 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
49639901 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 80 0.56
174 63 0.44
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:49646991 original size:29 final size:28
Alignment explanation
Indices: 49646956--49647033 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
49646946 TCATGAGATT
49646956 GGCACTAAGTGTGCGGGTTTAAAGTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
49646986 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
49647013 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
49647034 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:49647308 original size:173 final size:174
Alignment explanation
Indices: 49646986--49647312 Score: 557
Period size: 173 Copynumber: 1.9 Consensus size: 174
49646976 AAAGTGTACA
* *
49646986 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
* * *
49647051 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
*
49647116 TTTTGGACAGCGTAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* * * *
49647160 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGTGGTTGATTACTAAACATTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
49647225 TGTGC-AACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
49647289 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
49647313 ACCTTGAGTT
Statistics
Matches: 143, Mismatches: 10, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
173 79 0.55
174 64 0.45
ACGTcount: A:0.31, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTACTAAACACTATG
TGTGCGAACCCAATATATATTTTATATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:49649214 original size:40 final size:40
Alignment explanation
Indices: 49649170--49649393 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 40
49649160 GCTCCTCATT
* * *
49649170 CAAATGCCCTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
49649210 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
49649250 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
49649289 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
49649328 CAAATGCCTTC-GGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
49649369 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
49649394 CATCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
38 2 0.01
39 69 0.44
40 74 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:49649273 original size:79 final size:79
Alignment explanation
Indices: 49649170--49649393 Score: 274
Period size: 79 Copynumber: 2.8 Consensus size: 79
49649160 GCTCCTCATT
* * * *
49649170 CAAATGCCCTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
* *
49649235 ATTTTGTAACTCGCA
65 AATTAGTAACTCGCA
*
49649250 CAAATGCCTTCGGACTTAACCCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGG
1 CAAATGCCTTCGGACTTAACCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
49649313 AATTAGTATCTCGCA
65 AATTAGTAACTCGCA
* * * * *
49649328 CAAATGCCTTCGGATCTTAATCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGA-CTTAACCCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
49649392 GA
64 GA
49649394 CATCATTCAA
Statistics
Matches: 125, Mismatches: 14, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
78 36 0.29
79 59 0.47
80 30 0.24
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGACTTAACCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
ATTAGTAACTCGCA
Found at i:49649276 original size:39 final size:39
Alignment explanation
Indices: 49649170--49649393 Score: 245
Period size: 39 Copynumber: 5.6 Consensus size: 39
49649160 GCTCCTCATT
* * *
49649170 CAAATGCCCTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATT-TAGTAACTCGCA
*
49649210 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTC-GGACTTAACCCGGATTTAGTAACTCGCA
49649250 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
49649289 CCAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
* * * * *
49649328 CAAATGCCTTCGGATCTTAATCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
49649369 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAACCCGGA
49649394 CATCATTCAA
Statistics
Matches: 158, Mismatches: 22, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
39 73 0.46
40 72 0.46
41 13 0.08
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:49656265 original size:54 final size:54
Alignment explanation
Indices: 49656113--49656269 Score: 163
Period size: 54 Copynumber: 2.9 Consensus size: 54
49656103 GTGTTGGTAG
* * * *
49656113 ACTATCCCACGTTTATTGTCCCAGTGGATTATCCCATGTCTA-CTGTCCTAGCAG
1 ACTAACCCACGTTTATTGTCACAATGGATTATCCCATGTCTATC-GTCCTAGCAA
* ** * * * * * *
49656167 ACTAACCCACGTTTATTTTCATGACGGACTATCCCGTGTTTATCGTCTTGGCAA
1 ACTAACCCACGTTTATTGTCACAATGGATTATCCCATGTCTATCGTCCTAGCAA
* *
49656221 ACTAACCCACATTTATTGTCACAATGGATTATCCCATGCCTATCGTCCT
1 ACTAACCCACGTTTATTGTCACAATGGATTATCCCATGTCTATCGTCCT
49656270 GGTGGACCGT
Statistics
Matches: 79, Mismatches: 23, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
54 78 0.99
55 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.15, T:0.34
Consensus pattern (54 bp):
ACTAACCCACGTTTATTGTCACAATGGATTATCCCATGTCTATCGTCCTAGCAA
Found at i:49662156 original size:20 final size:21
Alignment explanation
Indices: 49662131--49662169 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
49662121 ATCCAAATTA
*
49662131 TCCATCCGCTA-CACACCAGC
1 TCCATCCCCTATCACACCAGC
49662151 TCCATCCCCTATCACACCA
1 TCCATCCCCTATCACACCA
49662170 TGTGGGGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.26, C:0.51, G:0.05, T:0.18
Consensus pattern (21 bp):
TCCATCCCCTATCACACCAGC
Found at i:49662807 original size:57 final size:58
Alignment explanation
Indices: 49662726--49662836 Score: 152
Period size: 58 Copynumber: 1.9 Consensus size: 58
49662716 AAATCCACAT
* *
49662726 ACCTCTATCTGGCCCATTAAGCCC-AATCATACTTATATGGCCTATTAGGCCCAAACC
1 ACCTCTATATGGCCCATTAAGCCCAAATCACACTTATATGGCCTATTAGGCCCAAACC
* * * * *
49662783 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCTTGTTAGGCCCA
1 ACCTCTATATGGCCCATTAAGCCCAAATCACACTTATATGGCCTATTAGGCCCA
49662837 GTCACATCCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (58 bp):
ACCTCTATATGGCCCATTAAGCCCAAATCACACTTATATGGCCTATTAGGCCCAAACC
Found at i:49662831 original size:29 final size:29
Alignment explanation
Indices: 49662758--49662836 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
49662748 CCAATCATAC
*
49662758 TTATATGGCCTATTAGGCCCAAACCACCT
1 TTATATGGCCTATTAGGCCCAAACCACAT
* * *
49662787 GTATATGGCCCATTAGGCCCAAATCACAT
1 TTATATGGCCTATTAGGCCCAAACCACAT
* *
49662816 TTATATGGCTTGTTAGGCCCA
1 TTATATGGCCTATTAGGCCCA
49662837 GTCACATCCA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (29 bp):
TTATATGGCCTATTAGGCCCAAACCACAT
Found at i:49663064 original size:8 final size:8
Alignment explanation
Indices: 49663051--49663096 Score: 56
Period size: 8 Copynumber: 5.8 Consensus size: 8
49663041 GTAGCTAAAC
*
49663051 TTTCGACT
1 TTTCGACA
49663059 TTTCGACA
1 TTTCGACA
*
49663067 TTTAGACA
1 TTTCGACA
*
49663075 TTTCGGCA
1 TTTCGACA
*
49663083 TTTCGGCA
1 TTTCGACA
49663091 TTTCGA
1 TTTCGA
49663097 GTTTTACCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 33 1.00
ACGTcount: A:0.20, C:0.22, G:0.17, T:0.41
Consensus pattern (8 bp):
TTTCGACA
Found at i:49667347 original size:29 final size:29
Alignment explanation
Indices: 49667281--49667388 Score: 103
Period size: 29 Copynumber: 3.8 Consensus size: 29
49667271 TCCAAATACC
* * * *
49667281 TGTATCTGGCCCATTAAGCCC-AATCATAA
1 TGTATATGGCCCATTAGGCCCAAACCA-CA
* * *
49667310 T-TATATGGCCTATTGGGCCCAAACCACC
1 TGTATATGGCCCATTAGGCCCAAACCACA
*
49667338 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAACCACA
* *
49667367 TTTATATGGCCCGTTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
49667389 GTCACATTCA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
28 16 0.25
29 48 0.75
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.27
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAACCACA
Found at i:49672705 original size:42 final size:42
Alignment explanation
Indices: 49672646--49672812 Score: 210
Period size: 42 Copynumber: 4.0 Consensus size: 42
49672636 GGAAATATTT
*
49672646 GAGATAGCTTCAGCTATGCATTAGCACTTAGTGTGCGAGATC
1 GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGATC
* *
49672688 GAGATAGCTTCGGCTATGCATTGGCACTTAGTGTTCGAGATC
1 GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGATC
* * * *
49672730 AAGATAGCTTC-GACTATGCATTGGCACTTAGTGTGTGTGATT
1 GAGATAGCTTCAG-CTATGCATTGGCACTTAGTGTGCGAGATC
* * * * *
49672772 GAGTTAGCTTCAGCTACGTATTGGCACTTAGTTTACGAGAT
1 GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGAT
49672813 TCCCAAGTAA
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.98
43 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.26, T:0.32
Consensus pattern (42 bp):
GAGATAGCTTCAGCTATGCATTGGCACTTAGTGTGCGAGATC
Found at i:49672924 original size:32 final size:32
Alignment explanation
Indices: 49672883--49672946 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
49672873 ATGAGATTGG
* *
49672883 TACGAGATGGTACAGGTATGTACGGAAATTCA
1 TACGAGATGGTACAAGTATGTACGAAAATTCA
49672915 TACGAGATGGTACAAGTATGTACGAAAATTCA
1 TACGAGATGGTACAAGTATGTACGAAAATTCA
49672947 ATTGAGTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (32 bp):
TACGAGATGGTACAAGTATGTACGAAAATTCA
Found at i:49674519 original size:24 final size:24
Alignment explanation
Indices: 49674491--49674588 Score: 115
Period size: 24 Copynumber: 4.0 Consensus size: 24
49674481 AAGGCTGACA
*
49674491 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGAAGCTGATAAG
* *
49674515 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGAAGCTGATAAG
* * * * *
49674539 GGAGAGGTTTTAGAATCTAATAAA
1 GGAGAAGATTTAGAAGCTGATAAG
49674563 GGAGAAGATTTAGAAGCTGATCAAG
1 GGAGAAGATTTAGAAGCTGAT-AAG
49674588 G
1 G
49674589 AGCAGGAGTT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
24 59 0.95
25 3 0.05
ACGTcount: A:0.38, C:0.05, G:0.35, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGAAGCTGATAAG
Found at i:49682430 original size:12 final size:12
Alignment explanation
Indices: 49682413--49682499 Score: 52
Period size: 12 Copynumber: 7.2 Consensus size: 12
49682403 TGAAAGGCTA
*
49682413 TTAGGAGAAGAT
1 TTAGGAGATGAT
*
49682425 TTAGGAGCTGA-
1 TTAGGAGATGAT
* *
49682436 TAAGGGAGAGGAT
1 TTA-GGAGATGAT
*
49682449 TTAGGAGCTGA-
1 TTAGGAGATGAT
* *
49682460 TAAGGGAGAGGAT
1 TTA-GGAGATGAT
49682473 TTAGGAGATGAT
1 TTAGGAGATGAT
** *
49682485 AAAGGAGAAGAT
1 TTAGGAGATGAT
49682497 TTA
1 TTA
49682500 AAAGCTGATC
Statistics
Matches: 53, Mismatches: 18, Indels: 8
0.67 0.23 0.10
Matches are distributed among these distances:
11 4 0.08
12 45 0.85
13 4 0.08
ACGTcount: A:0.38, C:0.02, G:0.37, T:0.23
Consensus pattern (12 bp):
TTAGGAGATGAT
Found at i:49682449 original size:24 final size:24
Alignment explanation
Indices: 49682416--49682513 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
49682406 AAGGCTATTA
49682416 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
49682440 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * *
49682464 GGAGAGGATTTAGGAGATGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
**
49682488 GGAGAAGATTTAAAAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
49682513 G
1 G
49682514 AGCAGGAGTT
Statistics
Matches: 65, Mismatches: 8, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
24 62 0.95
25 3 0.05
ACGTcount: A:0.39, C:0.04, G:0.37, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:49688523 original size:47 final size:47
Alignment explanation
Indices: 49688458--49688578 Score: 233
Period size: 47 Copynumber: 2.6 Consensus size: 47
49688448 TGCGAATGTA
49688458 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
*
49688505 CGAACTCGTTGAGTTGAGTCCAAGTTCGTGAAATGTAACTAGGCATC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
49688552 CGAACTCGTTGAGTTGAGTCCGAGTTC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC
49688579 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (47 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATC
Found at i:49690796 original size:46 final size:46
Alignment explanation
Indices: 49690724--49690944 Score: 304
Period size: 46 Copynumber: 4.8 Consensus size: 46
49690714 TGTAACCCGC
* * *
49690724 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* * *
49690770 CCATGAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
* *
49690816 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG--G-C-ATTTGCAT
*
49690866 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
49690909 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
49690945 ATGCCCAAAT
Statistics
Matches: 153, Mismatches: 15, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
43 6 0.04
44 2 0.01
45 3 0.02
46 103 0.67
47 29 0.19
48 2 0.01
49 2 0.01
50 6 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTTGCAT
Found at i:49690904 original size:93 final size:95
Alignment explanation
Indices: 49690724--49690949 Score: 340
Period size: 93 Copynumber: 2.4 Consensus size: 95
49690714 TGTAACCCGC
* * *
49690724 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATGAGTGAACTCAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGTTCACATCCATCAGTGAACTCAG
49690786 ACTCAACTCAACGAGTTCGGACATTTGCAT
66 ACTCAACTCAACGAGTTCGGACATTTGCAT
49690816 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-TCA-TGAACTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC--GTTCACATCCATCAGTGAACTC
* *
49690877 GGACTCAACTCAACGAGTTCGGGCATTTGCAT
64 AGACTCAACTCAACGAGTTCGGACATTTGCAT
49690909 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC
49690950 CAAATATCCC
Statistics
Matches: 124, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
92 35 0.28
93 78 0.63
94 3 0.02
95 2 0.02
96 3 0.02
97 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (95 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCGTTCACATCCATCAGTGAACTCAG
ACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:49690964 original size:46 final size:46
Alignment explanation
Indices: 49690775--49690964 Score: 146
Period size: 46 Copynumber: 4.1 Consensus size: 46
49690765 CGCATCCATG
* * *
49690775 AGTGAACTCAGACTCAACTCAACGAGTTCGGA----CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
* * *
49690821 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TATATCCC
* *
49690869 A-TGAACTCGGACTCAACTCAACGAGTTCGG--G--CATTTGCATCCATA
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATAT--ATCC--C
*
49690914 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCC
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
49690960 AGTGA
1 AGTGA
49690965 CATGTCACTC
Statistics
Matches: 115, Mismatches: 14, Indels: 30
0.72 0.09 0.19
Matches are distributed among these distances:
41 1 0.01
43 4 0.03
45 2 0.02
46 65 0.57
47 29 0.25
48 6 0.05
50 7 0.06
52 1 0.01
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATATATCCC
Found at i:49691465 original size:12 final size:12
Alignment explanation
Indices: 49691448--49691472 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49691438 AACTTCAGCC
49691448 TATTTTAATTCA
1 TATTTTAATTCA
49691460 TATTTTAATTCA
1 TATTTTAATTCA
49691472 T
1 T
49691473 TTTACCCCTA
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:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (12 bp):
TATTTTAATTCA
Found at i:49692959 original size:30 final size:30
Alignment explanation
Indices: 49692915--49692983 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
49692905 CAAAGATAAC
*
49692915 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
* * *
49692944 GAGAAACCCAGAATAAAGAGATCCAGGATA
1 AAGAAACCCAGAATAAAGAAATCCAAGATA
49692974 AAGAAACCCA
1 AAGAAACCCA
49692984 AGATACGATA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 7 0.21
30 27 0.79
ACGTcount: A:0.57, C:0.17, G:0.17, T:0.09
Consensus pattern (30 bp):
AAGAAACCCAGAATAAAGAAATCCAAGATA
Found at i:49692988 original size:15 final size:15
Alignment explanation
Indices: 49692926--49692988 Score: 65
Period size: 15 Copynumber: 4.2 Consensus size: 15
49692916 AGAAAACCGA
*
49692926 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
49692941 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* * *
49692955 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
49692971 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
49692986 ATA
1 ATA
49692989 CGATACTATG
Statistics
Matches: 37, Mismatches: 9, Indels: 4
0.74 0.18 0.08
Matches are distributed among these distances:
14 2 0.05
15 34 0.92
16 1 0.03
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.11
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:49696103 original size:45 final size:44
Alignment explanation
Indices: 49695969--49696103 Score: 104
Period size: 45 Copynumber: 3.0 Consensus size: 44
49695959 CAAAGTCGAC
* * *
49695969 ACTC-GACTCAACTCAACGAGTT-GGATGCCTAGTTACATCTCA-CGA
1 ACTCGGACTCAACTCAACGAGTTCGGATGCCCA---ATATC-CAGTGA
49696014 ACTCGGACTCAACTCAACGAGTTCGGACATTGCATCC-ATA---AGTGA
1 ACTCGGACTCAACTCAACGAGTTCGG--A-TGC--CCAATATCCAGTGA
49696059 ACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCAGTGA
1 ACTCGGACTCAACTCAACGAGTTCGGATGCCC-AATATCCAGTGA
49696104 CATGTCACTT
Statistics
Matches: 74, Mismatches: 3, Indels: 26
0.72 0.03 0.25
Matches are distributed among these distances:
40 2 0.03
42 6 0.08
43 1 0.01
44 1 0.01
45 37 0.50
46 18 0.24
47 2 0.03
48 2 0.03
49 1 0.01
50 3 0.04
52 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (44 bp):
ACTCGGACTCAACTCAACGAGTTCGGATGCCCAATATCCAGTGA
Found at i:49700431 original size:40 final size:40
Alignment explanation
Indices: 49700376--49700636 Score: 366
Period size: 40 Copynumber: 6.6 Consensus size: 40
49700366 TATTCGAATG
* *
49700376 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
49700416 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
49700456 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
49700496 ATATCC-GGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * * * *
49700535 ATATCTGGGCTAAGTCCTGAAGGCTTTTGTTCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * *
49700575 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGT-TTCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGAT-T
*
49700615 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
49700637 TACTTGGGTT
Statistics
Matches: 196, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
39 51 0.26
40 145 0.74
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:49700545 original size:79 final size:80
Alignment explanation
Indices: 49700376--49700636 Score: 366
Period size: 79 Copynumber: 3.3 Consensus size: 80
49700366 TATTCGAATG
* * *
49700376 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
*
49700441 TTTGTGCTATTGATT
66 TTTGTGCTAGTGATT
49700456 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGATTATATCC-GGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
49700520 TTTGTGCTAGTGATT
66 TTTGTGCTAGTGATT
* * * * * * *
49700535 ATATCTGGGCTAAGTCCTGAAGGCTTTTGTTCTATTGACTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
* *
49700600 TTTGTGCGAGT-TTCT
66 TTTGTGCTAGTGAT-T
*
49700615 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
49700637 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 16, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
79 87 0.53
80 76 0.47
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGATT
Found at i:49700597 original size:119 final size:119
Alignment explanation
Indices: 49700376--49700636 Score: 389
Period size: 119 Copynumber: 2.2 Consensus size: 119
49700366 TATTCGAATG
*
49700376 ATATCCGGGTTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCC-GGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCA
* * *
49700441 TTTGTGCTATTGATTATATCCGGGCTAAGTCCCGAAGGCATTTGTACTAGTGAT-T
65 TTTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGT-ATCT
* * * *
49700496 ATATCCGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATTATATCTGGGCTAAGTCCTGAAGGCTT
1 ATATCCGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
* * *
49700561 TTGTTCTATTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTTCT
66 TTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTATCT
*
49700615 ATATCCGGCTAAATCCCGAAGG
1 ATATCCGGCTAAGTCCCGAAGG
49700637 TACTTGGGTT
Statistics
Matches: 128, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 1 0.01
119 121 0.95
120 6 0.05
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (119 bp):
ATATCCGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGTCCCGAAGGCAT
TTGTGCTATTGACTATATCCGGGCTAAGACCCGAAGGCATTTGTACGAGTATCT
Found at i:49702362 original size:31 final size:31
Alignment explanation
Indices: 49702322--49702387 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
49702312 TGGAAGTGTG
*
49702322 TGAG-AATGATTATTGATTAGAGTTTAACCT
1 TGAGTAATGATTACTGATTAGAGTTTAACCT
49702352 TGAGTAATGATTACTGATTAGAGTTTAACCT
1 TGAGTAATGATTACTGATTAGAGTTTAACCT
49702383 TGAGT
1 TGAGT
49702388 GGCATTTGGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 4 0.12
31 30 0.88
ACGTcount: A:0.32, C:0.08, G:0.21, T:0.39
Consensus pattern (31 bp):
TGAGTAATGATTACTGATTAGAGTTTAACCT
Found at i:49707793 original size:16 final size:16
Alignment explanation
Indices: 49707753--49707794 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
49707743 ATCGGCAAAA
**
49707753 GCCGAAAAATCGAAAT
1 GCCGAAAAGCCGAAAT
49707769 GCCGAAAAGCCGAAAT
1 GCCGAAAAGCCGAAAT
49707785 GCCGAAAAGC
1 GCCGAAAAGC
49707795 TGGCATTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.45, C:0.24, G:0.24, T:0.07
Consensus pattern (16 bp):
GCCGAAAAGCCGAAAT
Found at i:49708226 original size:28 final size:26
Alignment explanation
Indices: 49708179--49708239 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 26
49708169 TGGAGGAAGC
* *
49708179 GTTCTGGTGGCACTGCCACAAATATTT
1 GTTCTGGTGACACTGCCAC-AATATCT
* *
49708206 GTATCTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGACACTGCCACAATATCT
49708233 GTTCTGG
1 GTTCTGG
49708240 CAGCCATGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
26 5 0.17
27 10 0.34
28 14 0.48
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (26 bp):
GTTCTGGTGACACTGCCACAATATCT
Found at i:49709462 original size:62 final size:62
Alignment explanation
Indices: 49709365--49709486 Score: 235
Period size: 62 Copynumber: 2.0 Consensus size: 62
49709355 TTAATAGAGA
*
49709365 GTCACTTAGGTGGCTACTGTGGAGTTCCATAGCTCGAGCTCAGCAACCAGATCAGGAATGGC
1 GTCACTTAGGTGGCTACTGTGGAATTCCATAGCTCGAGCTCAGCAACCAGATCAGGAATGGC
49709427 GTCACTTAGGTGGCTACTGTGGAATTCCATAGCTCGAGCTCAGCAACCAGATCAGGAATG
1 GTCACTTAGGTGGCTACTGTGGAATTCCATAGCTCGAGCTCAGCAACCAGATCAGGAATG
49709487 TCGTGTTACA
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (62 bp):
GTCACTTAGGTGGCTACTGTGGAATTCCATAGCTCGAGCTCAGCAACCAGATCAGGAATGGC
Found at i:49718165 original size:20 final size:21
Alignment explanation
Indices: 49718092--49718165 Score: 59
Period size: 20 Copynumber: 3.7 Consensus size: 21
49718082 TGCCTCTGTT
*
49718092 TGCACATTCAGTGTCCC-TAT-
1 TGCACATTCGGTG-CCCTTATC
* *
49718112 T-CACATTACGGTGCCCTTTTT
1 TGCACATT-CGGTGCCCTTATC
*
49718133 TGCACATT-TGTGCCCTTATC
1 TGCACATTCGGTGCCCTTATC
49718153 TGCAC-TTCGGTGC
1 TGCACATTCGGTGC
49718166 TCTTGTTATG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
19 11 0.26
20 25 0.58
21 1 0.02
22 6 0.14
ACGTcount: A:0.15, C:0.30, G:0.18, T:0.38
Consensus pattern (21 bp):
TGCACATTCGGTGCCCTTATC
Found at i:49721407 original size:47 final size:47
Alignment explanation
Indices: 49721351--49721622 Score: 202
Period size: 46 Copynumber: 5.8 Consensus size: 47
49721341 AGGGTATGAT
* *
49721351 GCCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCATGTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCTCAA
* * * * * * *
49721398 GTCGATGCCATGTCCTAGACACGGTCTTACACTGACT-ATTGTTATCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-T-CTCTC-AA
** * * *
49721447 GCCGACACCATGTCCAAGACATGGTCTTACACTGACACA--TCTCATA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCTCA-A
* * * * *
49721493 GCCGATG-CATGTCCCTGACAT-GTCTTATACTGGCTTAACT-TACGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCT-C-AA
* * *
49721539 GCCAATG-CATGTCCCAGACAT-GTCTTACACTAGATC-TCCTCTCAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCAT-CTCTCAA
*
49721584 TGCCGATGCCATGTCCTAGACATGGTCTTACACTGGCTC
1 -GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
49721623 TCATAATGTG
Statistics
Matches: 174, Mismatches: 37, Indels: 27
0.73 0.16 0.11
Matches are distributed among these distances:
44 12 0.07
45 15 0.09
46 50 0.29
47 48 0.28
48 16 0.09
49 32 0.18
50 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (47 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCTCTCAA
Found at i:49727277 original size:79 final size:81
Alignment explanation
Indices: 49727175--49727359 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 81
49727165 GCTCCTCGTT
* *
49727175 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
49727238 GGAT-TTAGTAAC-TCGCA
64 GGATATT-GTAACTTAGCA
* **
49727255 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
*
49727319 ATATTGTCACTTAGCA
66 ATATTGTAACTTAGCA
49727335 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49727360 CATCATTCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
78 3 0.03
79 54 0.58
80 36 0.39
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATTGTAACTTAGCA
Found at i:49727359 original size:40 final size:41
Alignment explanation
Indices: 49727175--49727359 Score: 240
Period size: 40 Copynumber: 4.6 Consensus size: 41
49727165 GCTCCTCGTT
* *
49727175 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
49727215 CAAATGCCTTCGGGACTTAACCCGGAT-TTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
*
49727255 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
* * *
49727294 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAAC-TCGCA
49727335 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49727360 CATCATTCAA
Statistics
Matches: 128, Mismatches: 10, Indels: 14
0.84 0.07 0.09
Matches are distributed among these distances:
38 2 0.02
39 33 0.26
40 79 0.62
41 14 0.11
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTCGCA
Found at i:49735293 original size:79 final size:81
Alignment explanation
Indices: 49735193--49735377 Score: 231
Period size: 79 Copynumber: 2.3 Consensus size: 81
49735183 GCTCCTCGTT
* *
49735193 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-ACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGACC
49735255 TGGAT-TTAGTAACTCA-CA
64 -GGATATT-GTAACTCAGCA
* *
49735273 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
* *
49735337 ATATTGTCACTTAGCA
66 ATATTGTAACTCAGCA
49735353 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49735378 CATCATTCAA
Statistics
Matches: 93, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
78 3 0.03
79 54 0.58
80 36 0.39
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAGACCGG
ATATTGTAACTCAGCA
Found at i:49735377 original size:40 final size:42
Alignment explanation
Indices: 49735193--49735377 Score: 201
Period size: 40 Copynumber: 4.6 Consensus size: 42
49735183 GCTCCTCGTT
* * *
49735193 CAAATGCCTTCGGGACATAGCCCGGTTA-TAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTTAGCA
* * *
49735233 CAAATGCCTTCGGGACTTAACCTGGAT-TTAGTAACTCA-CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTTAGCA
* *
49735273 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTTAGCA
* *
49735312 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATTAGTAACTTAGCA
49735353 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
49735378 CATCATTCAA
Statistics
Matches: 120, Mismatches: 16, Indels: 18
0.78 0.10 0.12
Matches are distributed among these distances:
38 2 0.02
39 29 0.24
40 75 0.62
41 14 0.12
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (42 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATTAGTAACTTAGCA
Found at i:49741858 original size:44 final size:43
Alignment explanation
Indices: 49741779--49741864 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
49741769 AACATTGACA
** * *
49741779 TCGATTGGAGATATCGTGTAAGACTGTGTCTGGGACATAGGCC
1 TCGATTGGAGATATCGTGTAAGACCATGTCAGGGACAAAGGCC
* *
49741822 TCGATTTGAGATTTACGTGTAAGACCATGTCAGGGACAAAGGC
1 TCGATTGGAGATAT-CGTGTAAGACCATGTCAGGGACAAAGGC
49741865 ATTGATACTG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 12 0.33
44 24 0.67
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (43 bp):
TCGATTGGAGATATCGTGTAAGACCATGTCAGGGACAAAGGCC
Found at i:49743646 original size:24 final size:23
Alignment explanation
Indices: 49743618--49743731 Score: 133
Period size: 24 Copynumber: 4.9 Consensus size: 23
49743608 AAGCTTTTCA
49743618 TGAGCTGATAATAGTAAGCTCTAT
1 TGAGCTGA-AATAGTAAGCTCTAT
*
49743642 TGAGCTGAAAATGGTAAGCTCTAT
1 TGAGCTG-AAATAGTAAGCTCTAT
* *
49743666 TGAGCTG-AACAGTAAGCTCTTT
1 TGAGCTGAAATAGTAAGCTCTAT
* * *
49743688 TGAACT-AAATCAGCAAGCTCCAT
1 TGAGCTGAAAT-AGTAAGCTCTAT
49743711 TGAGCTGAAATAGTAAGCTCT
1 TGAGCTGAAATAGTAAGCTCT
49743732 TACGAGCTAT
Statistics
Matches: 74, Mismatches: 12, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
22 19 0.26
23 22 0.30
24 32 0.43
25 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (23 bp):
TGAGCTGAAATAGTAAGCTCTAT
Found at i:49743685 original size:46 final size:46
Alignment explanation
Indices: 49743618--49743731 Score: 124
Period size: 46 Copynumber: 2.5 Consensus size: 46
49743608 AAGCTTTTCA
* * * * *
49743618 TGAGCTGATAATAGTAAGCTCTATTGAGCTGAAAAT-GGTAAGCTCTAT
1 TGAGCTGA-AACAGTAAGCTCTATTGAACT--AAATCAGCAAGCTCCAT
*
49743666 TGAGCTG-AACAGTAAGCTCTTTTGAACTAAATCAGCAAGCTCCAT
1 TGAGCTGAAACAGTAAGCTCTATTGAACTAAATCAGCAAGCTCCAT
*
49743711 TGAGCTGAAATAGTAAGCTCT
1 TGAGCTGAAACAGTAAGCTCT
49743732 TACGAGCTAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
44 4 0.07
45 16 0.28
46 30 0.53
48 7 0.12
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (46 bp):
TGAGCTGAAACAGTAAGCTCTATTGAACTAAATCAGCAAGCTCCAT
Found at i:49743707 original size:23 final size:22
Alignment explanation
Indices: 49743657--49743731 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 22
49743647 TGAAAATGGT
* * *
49743657 AAGCTCTATTGAGCTGAACAGT
1 AAGCTCTATTGAACTAAACAGC
*
49743679 AAGCTCTTTTGAACTAAATCAGC
1 AAGCTCTATTGAACTAAA-CAGC
* * * *
49743702 AAGCTCCATTGAGCTGAAATAGT
1 AAGCTCTATTGAACT-AAACAGC
49743725 AAGCTCT
1 AAGCTCT
49743732 TACGAGCTAT
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
22 15 0.37
23 23 0.56
24 3 0.07
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (22 bp):
AAGCTCTATTGAACTAAACAGC
Found at i:49743738 original size:23 final size:23
Alignment explanation
Indices: 49743608--49743739 Score: 94
Period size: 24 Copynumber: 5.7 Consensus size: 23
49743598 CATGGTCGAC
*
49743608 AAGCTTTTCATGAGCTGATAATAGT
1 AAGCTCTT-ATGAGCTGA-AATAGT
*
49743633 AAGCTC-TATTGAGCTGAAAATGGT
1 AAGCTCTTA-TGAGCTG-AAATAGT
*
49743657 AAGCTC-TATTGAGCTG-AACAGT
1 AAGCTCTTA-TGAGCTGAAATAGT
* * *
49743679 AAGCTCTTTTGAACT-AAATCAGC
1 AAGCTCTTATGAGCTGAAAT-AGT
*
49743702 AAGCTC-CATTGAGCTGAAATAGT
1 AAGCTCTTA-TGAGCTGAAATAGT
*
49743725 AAGCTCTTACGAGCT
1 AAGCTCTTATGAGCT
49743740 ATGGTGAGTC
Statistics
Matches: 85, Mismatches: 14, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
22 17 0.20
23 28 0.33
24 34 0.40
25 6 0.07
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (23 bp):
AAGCTCTTATGAGCTGAAATAGT
Found at i:49747524 original size:40 final size:41
Alignment explanation
Indices: 49747469--49747660 Score: 257
Period size: 40 Copynumber: 4.8 Consensus size: 41
49747459 ATTTGAATGA
* *
49747469 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* *
49747509 GATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATTT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
*
49747549 GATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* * *
49747590 -ATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGCTAT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
* * *
49747630 G-CCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 GATCCGGGCTAAGACCCGAAGGCATTTGTGCT
49747661 TGTGGTAATA
Statistics
Matches: 140, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
40 135 0.96
41 5 0.04
ACGTcount: A:0.22, C:0.22, G:0.31, T:0.26
Consensus pattern (41 bp):
GATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTTGATAT
Found at i:49750619 original size:46 final size:46
Alignment explanation
Indices: 49750518--49750605 Score: 131
Period size: 46 Copynumber: 1.9 Consensus size: 46
49750508 TGTAACCCGC
* * *
49750518 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
49750564 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
49750606 AACCATCCTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.23, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:49755353 original size:50 final size:50
Alignment explanation
Indices: 49755233--49755666 Score: 293
Period size: 50 Copynumber: 8.6 Consensus size: 50
49755223 ATTTGGTATG
* * **
49755233 CATAGTAGCCTACACTTAGTACTACACATGCGACC-AAAAAT-TCGGTACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACTATCT-GGTACA
* * *
49755282 CGTAGTAGCC-AGCACTTAGTACTACACACGTGACCTAACTATCTGATACG
1 CATAGTAGCCTA-CACTTAGTACTACACACGTGACCTAACTATCTGGTACA
* * * * * *
49755332 CATAGTAGTCTACACTTAGTACTGCACACGTGA-TTGAAGT-TGTCGAGTACG
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCT-AACTATCT-G-GTACA
* * *
49755383 CATAGACGTAGCTTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACA
1 CAT--A-GTAGCCTACACTTAGTACTACACACGTGACCTAACTATCTGGTACA
* * * *
49755436 CGTAGTAGCCTACACTTAGTACTACACACGTGATCTAACCATCTGATACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACTATCTGGTACA
* * * * * ** ** * * **
49755486 CGTAATAGCCTGCACTTAGTACTACATACATGATCGGAGTTGTCGGGTATG
1 CATAGTAGCCTACACTTAGTACTACACACGTGA-CCTAACTATCTGGTACA
* * * * *
49755537 CAGAGTAACCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACTATCTGGTACA
** * * * ***
49755587 TGTAGTAGCCTGCACTTAGTACTACACATGTGACCTAAAACCATCTTAAACA
1 CATAGTAGCCTACACTTAGTACTACACACGTGACCT--AACTATCTGGTACA
* * *
49755639 CATAGCAGCCTGCACATAGTACTACACA
1 CATAGTAGCCTACACTTAGTACTACACA
49755667 TGTGTTCTGA
Statistics
Matches: 296, Mismatches: 74, Indels: 27
0.75 0.19 0.07
Matches are distributed among these distances:
48 1 0.00
49 33 0.11
50 149 0.50
51 41 0.14
52 34 0.11
53 7 0.02
54 28 0.09
55 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (50 bp):
CATAGTAGCCTACACTTAGTACTACACACGTGACCTAACTATCTGGTACA
Found at i:49755603 original size:151 final size:151
Alignment explanation
Indices: 49755227--49755666 Score: 551
Period size: 154 Copynumber: 2.9 Consensus size: 151
49755217 AAAGCTATTT
* * **
49755227 GGTATGCATAGTAGCCTACACTTAGTACTACACATGCGACC-AAAAAT-TCGGTACACGTAGTAG
1 GGTATGCAGAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCT-GGTACACGTAGTAG
* * * * *
49755290 CCAGCACTTAGTACTACACACGTGACCTAACTATCTGATACGCATAGTAGTCTACACTTAGTACT
65 CCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACT
* * *
49755355 GCACACGTGATTGAAGTTGTCG
130 ACACACATGATCGAAGTTGTCG
* * * *
49755377 AGTACGCATAGACGTAGCTTGCACTTAGTACTACACATGTGACCTAACTATCTGGTACACGTAGT
1 GGTATGC--AGA-GTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGT
* * * *
49755442 AGCCTACACTTAGTACTACACACGTGATCTAACCATCTGATACACGTAATAGCCTGCACTTAGTA
63 AGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTA
* *
49755507 CTACATACATGATCGGAGTTGTCG
128 CTACACACATGATCGAAGTTGTCG
* *
49755531 GGTATGCAGAGTAACCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACATGTAGTAGC
1 GGTATGCAGAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
* * * * *
49755596 CTGCACTTAGTACTACACATGTGACCTAAAACCATCTTAAACACATAGCAGCCTGCACATAGTAC
66 CTGCACTTAGTACTACACACGTGACCT--AACCATCTGATACACATAGTAGCCTGCACTTAGTAC
49755661 TACACA
129 TACACA
49755667 TGTGTTCTGA
Statistics
Matches: 245, Mismatches: 38, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
150 5 0.02
151 75 0.31
152 5 0.02
153 63 0.26
154 96 0.39
155 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (151 bp):
GGTATGCAGAGTAGCCTGCACTTAGTACTACACATGCGACCTAACTATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACATAGTAGCCTGCACTTAGTACTA
CACACATGATCGAAGTTGTCG
Found at i:49756907 original size:22 final size:22
Alignment explanation
Indices: 49756882--49756948 Score: 125
Period size: 22 Copynumber: 3.0 Consensus size: 22
49756872 TCCATTTTTG
49756882 TCCACCAACTTAACCAATGGTA
1 TCCACCAACTTAACCAATGGTA
49756904 TCCACCAACTTAACCAATGGTA
1 TCCACCAACTTAACCAATGGTA
*
49756926 TCCACCAGCTTAACCAATGGTA
1 TCCACCAACTTAACCAATGGTA
49756948 T
1 T
49756949 AATTACCATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
22 44 1.00
ACGTcount: A:0.34, C:0.31, G:0.10, T:0.24
Consensus pattern (22 bp):
TCCACCAACTTAACCAATGGTA
Found at i:49760091 original size:6 final size:6
Alignment explanation
Indices: 49760055--49760090 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
49760045 AACGCTGAAT
*
49760055 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC TTGAGC
1 CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC CTGAGC
49760091 TAAGCAAACT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.31, G:0.33, T:0.19
Consensus pattern (6 bp):
CTGAGC
Found at i:49760377 original size:18 final size:17
Alignment explanation
Indices: 49760324--49760375 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 17
49760314 TCAGTTTAAC
49760324 TTTTTAGTTTTTAATTTCT
1 TTTTTAG-TTTT-ATTTCT
* **
49760343 TTTTTACTTAGGATTTCT
1 TTTTTAGTT-TTATTTCT
49760361 TTTTTAGTTTTATTT
1 TTTTTAGTTTTATTT
49760376 TCATTCGTGT
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
17 4 0.15
18 16 0.62
19 6 0.23
ACGTcount: A:0.15, C:0.06, G:0.08, T:0.71
Consensus pattern (17 bp):
TTTTTAGTTTTATTTCT
Found at i:49767729 original size:47 final size:47
Alignment explanation
Indices: 49767612--49767849 Score: 370
Period size: 47 Copynumber: 5.1 Consensus size: 47
49767602 CCCTTCGGGA
* * * * * * *
49767612 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
**
49767659 C-CGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49767705 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49767752 CTTATTACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49767799 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49767846 CTTA
1 CTTA
49767850 CTATCATTTC
Statistics
Matches: 176, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 37 0.21
47 139 0.79
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49768129 original size:46 final size:47
Alignment explanation
Indices: 49767964--49768430 Score: 768
Period size: 46 Copynumber: 10.1 Consensus size: 47
49767954 CCCTTCGGGA
* * * * * * *
49767964 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49768011 C--GTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49768056 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49768103 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49768149 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49768195 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49768242 CTTAT-ACATATATACACTTTCACATTCATCACATCGG-CATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49768287 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49768334 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
49768380 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49768427 CTTA
1 CTTA
49768431 CTATCATTTC
Statistics
Matches: 398, Mismatches: 16, Indels: 12
0.93 0.04 0.03
Matches are distributed among these distances:
45 50 0.13
46 198 0.50
47 150 0.38
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49768139 original size:93 final size:93
Alignment explanation
Indices: 49767964--49768430 Score: 771
Period size: 93 Copynumber: 5.0 Consensus size: 93
49767954 CCCTTCGGGA
* * * * * * * *
49767964 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCC--GTCACATATATACAC
1 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
49768027 TTTCACATTCATCACATCGGCCATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
49768056 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATACAC
1 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
49768120 TTTCACATTCATCACATCGGCTATTAGGC
65 TTTCACATTCATCACATCGGCCATTAGGC
*
49768149 CTTATACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACT
1 CTTATACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
49768214 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
*
49768242 CTTATACATATATACACTTTCACATTCATCACATCGG-CATTAGGCCTTATCACACATATACACT
1 CTTATACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
49768306 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
* *
49768334 CTTATACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACT
1 CTTATACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
49768399 TTCACATTCATCACATCGGCCATTAGGC
66 TTCACATTCATCACATCGGCCATTAGGC
49768427 CTTA
1 CTTA
49768431 CTATCATTTC
Statistics
Matches: 357, Mismatches: 14, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
92 176 0.49
93 180 0.50
94 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (93 bp):
CTTATACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGC
Found at i:49768168 original size:139 final size:139
Alignment explanation
Indices: 49768013--49768430 Score: 759
Period size: 139 Copynumber: 3.0 Consensus size: 139
49768003 CACTCGGCCG
49768013 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
49768078 ACATTCATCACATCGGCCATTAGGCCTTATACATATATACACTTTCACATTCATCACATCGGCTA
66 ACATTCATCACATCGGCCATTAGGCCTTATACATATATACACTTTCACATTCATCACATCGGC-A
49768143 TTAGGCCTTA
130 TTAGGCCTTA
*
49768153 T-ACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
49768217 ACATTCATCACATCGGCCATTAGGCCTTATACATATATACACTTTCACATTCATCACATCGGCAT
66 ACATTCATCACATCGGCCATTAGGCCTTATACATATATACACTTTCACATTCATCACATCGGCAT
49768282 TAGGCCTTA
131 TAGGCCTTA
*
49768291 TCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATACACTTTC
1 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
* *
49768355 ACATTCATCACATCGGCTATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCC
66 ACATTCATCACATCGGCCATTAGGCCTTAT-ACATATATACACTTTCACATTCATCACATCGG-C
49768420 ATTAGGCCTTA
129 ATTAGGCCTTA
49768431 CTATCATTTC
Statistics
Matches: 270, Mismatches: 5, Indels: 6
0.96 0.02 0.02
Matches are distributed among these distances:
138 57 0.21
139 200 0.74
140 13 0.05
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.33
Consensus pattern (139 bp):
TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTC
ACATTCATCACATCGGCCATTAGGCCTTATACATATATACACTTTCACATTCATCACATCGGCAT
TAGGCCTTA
Found at i:49771184 original size:16 final size:18
Alignment explanation
Indices: 49771163--49771199 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
49771153 CTCATTCATA
49771163 CATTTAG-GTA-AAATTG
1 CATTTAGAGTAGAAATTG
*
49771179 CATTTAGATTAGAAATTG
1 CATTTAGAGTAGAAATTG
49771197 CAT
1 CAT
49771200 AGGGATCACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 2 0.11
18 9 0.50
ACGTcount: A:0.38, C:0.08, G:0.16, T:0.38
Consensus pattern (18 bp):
CATTTAGAGTAGAAATTG
Found at i:49777168 original size:47 final size:47
Alignment explanation
Indices: 49777117--49777550 Score: 738
Period size: 47 Copynumber: 9.3 Consensus size: 47
49777107 ATGTGATGTA
49777117 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49777164 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49777211 TATATAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49777259 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49777306 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49777353 TATATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49777401 TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49777447 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * *
49777494 TATATATGTGA-CA-GCCGAGTGGCC-A-ATGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49777537 TATAAAT-TGATAAG
1 TATATATGTGATAAG
49777551 TCCCGAAGGG
Statistics
Matches: 374, Mismatches: 7, Indels: 15
0.94 0.02 0.04
Matches are distributed among these distances:
42 3 0.01
43 23 0.06
44 1 0.00
45 9 0.02
46 69 0.18
47 176 0.47
48 71 0.19
49 22 0.06
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:49777233 original size:95 final size:94
Alignment explanation
Indices: 49777117--49777550 Score: 738
Period size: 95 Copynumber: 4.7 Consensus size: 94
49777107 ATGTGATGTA
49777117 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
49777182 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
49777211 TATATAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
1 TATAT-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGC
49777276 CTAATGGCCGATGTGATGAATGTGAAAGTG
65 CTAATGGCCGATGTGATGAATGTGAAAGTG
49777306 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGG
49777371 CCTAAT-GCCGATGTGATGAATGTGAAAGTG
64 CCTAATGGCCGATGTGATGAATGTGAAAGTG
49777401 TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
49777465 TAATGGCCGATGTGATGAATGTGAAAGTG
66 TAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
49777494 TATATATGTGA-CA-GCCGAGTGGCC-A-ATGATGGATGTGAAAGTGTATAAAT-TGATAAG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
49777551 TCCCGAAGGG
Statistics
Matches: 329, Mismatches: 6, Indels: 15
0.94 0.02 0.04
Matches are distributed among these distances:
89 7 0.02
90 22 0.07
91 6 0.02
92 26 0.08
93 35 0.11
94 71 0.22
95 140 0.43
96 22 0.07
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (94 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:49777264 original size:142 final size:142
Alignment explanation
Indices: 49777117--49777550 Score: 749
Period size: 142 Copynumber: 3.1 Consensus size: 142
49777107 ATGTGATGTA
49777117 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
49777182 TAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATG
49777247 AATGTGAAAGTG
131 AATGTGAAAGTG
49777259 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
49777324 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAT-GCCGATGTGAT
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATA-ATGTGATAAGGCCTAATGGCCGATGTGAT
49777388 GAATGTGAAAGTG
130 GAATGTGAAAGTG
49777401 TATATATGTGATAAGGCCTAAT-GCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * *
49777465 TAATGGCCGATGTGATGAATGTGAAAGTGTATAT-ATGTGA-CA-GCCGAGTGGCC-A-ATGATG
66 TAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATG
*
49777525 GATGTGAAAGTG
131 AATGTGAAAGTG
*
49777537 TATAAAT-TGATAAG
1 TATATATGTGATAAG
49777551 TCCCGAAGGG
Statistics
Matches: 284, Mismatches: 6, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
135 7 0.02
136 22 0.08
137 6 0.02
138 4 0.01
139 6 0.02
141 76 0.27
142 146 0.51
143 17 0.06
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.30
Consensus pattern (142 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATGGCCGATGTGATGAATGTGAAAGTGTATATAATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTG
Found at i:49779846 original size:40 final size:40
Alignment explanation
Indices: 49779786--49779927 Score: 241
Period size: 40 Copynumber: 3.6 Consensus size: 40
49779776 AGGTAACGAC
*
49779786 GATG-ATCCGGGCTAATTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
49779825 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
49779865 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* *
49779905 GATGTATCCGGACTAAGTTCCGA
1 GATGTATCCGGGCTAAGTCCCGA
49779928 CCGGACTAAG
Statistics
Matches: 98, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 4 0.04
40 94 0.96
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:49779933 original size:16 final size:16
Alignment explanation
Indices: 49779912--49779943 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
49779902 AGTGATGTAT
49779912 CCGGACTAAGTTCCGA
1 CCGGACTAAGTTCCGA
49779928 CCGGACTAAGTTCCGA
1 CCGGACTAAGTTCCGA
49779944 AGAGCATTCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.31, G:0.25, T:0.19
Consensus pattern (16 bp):
CCGGACTAAGTTCCGA
Found at i:49780001 original size:96 final size:96
Alignment explanation
Indices: 49779832--49780019 Score: 322
Period size: 96 Copynumber: 2.0 Consensus size: 96
49779822 AGTGATGTAT
* * *
49779832 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
49779897 ATGCTAGTGATGTATCCGGACTAAGTTCCGA
66 ATGCTAGTGATGTATCCGGACTAAGTTCCGA
*
49779928 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
* *
49779993 GTGCTAGTGTTGTATCCGGACTAAGTT
66 ATGCTAGTGATGTATCCGGACTAAGTT
49780020 TCGAAGAGCA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (96 bp):
CCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
ATGCTAGTGATGTATCCGGACTAAGTTCCGA
Found at i:49780049 original size:136 final size:136
Alignment explanation
Indices: 49779804--49780063 Score: 432
Period size: 136 Copynumber: 1.9 Consensus size: 136
49779794 GGGCTAATTC
* *
49779804 CCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATG
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
* *
49779869 TATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCG-GACTAAGTTCCGACCGGA
66 TATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGTG-CTAAGTTCCGACCGGA
49779933 CTAAGTT
130 CTAAGTT
*
49779940 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGTTG
1 CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
** *
49780005 TATCCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAGTTCCGA
66 TATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGTGCTAAGTTCCGA
49780064 AGAGCATTCG
Statistics
Matches: 115, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
136 114 0.99
137 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.27
Consensus pattern (136 bp):
CCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGATG
TATCCGGACTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGTGCTAAGTTCCGACCGGAC
TAAGTT
Found at i:49780064 original size:80 final size:80
Alignment explanation
Indices: 49779928--49780109 Score: 283
Period size: 80 Copynumber: 2.3 Consensus size: 80
49779918 TAAGTTCCGA
49779928 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
49779993 GTGCTAGTGTTGTAT
66 GTGCTAGTGTTATAT
* * * *
49780008 CCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATATATCCGTGCTAAGTTCCGAAGAGCATTC
1 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
*
49780073 GTGCTGGTGTTATAT
66 GTGCTAGTGTTATAT
* * *
49780088 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGACTAAGTTCCGAAGAGCA
49780110 ATCATGCTGG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 92 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAATCCCGAAGAGCATTC
GTGCTAGTGTTATAT
Found at i:49780121 original size:40 final size:40
Alignment explanation
Indices: 49779928--49780109 Score: 247
Period size: 40 Copynumber: 4.5 Consensus size: 40
49779918 TAAGTTCCGA
* *
49779928 CCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * *
49779968 CCGGGCTAAATCCCGAAGAGCATTCGTGCTAGTGTTGTAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* **
49780008 CCGGACTAAGTTTCGAAGAGCATTCGTGCTAGTGATATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
* * * *
49780048 CCGTGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTATAT
1 CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
*
49780088 CCGGGCTAGGTCCCGAAGAGCA
1 CCGGGCTAAGTCCCGAAGAGCA
49780110 ATCATGCTGG
Statistics
Matches: 123, Mismatches: 19, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 123 1.00
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATAT
Found at i:49783825 original size:96 final size:95
Alignment explanation
Indices: 49783763--49784209 Score: 641
Period size: 96 Copynumber: 4.7 Consensus size: 95
49783753 TGATGTGATT
*
49783763 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTG-TATATATGTGATAA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
* *
49783827 GGCCGAATGGCCAATGTGACGAATGTGAAA
66 GGCCTAATGGCCAATGTGATGAATGTGAAA
*
49783857 GTGTATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 --GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGA
*
49783922 TAAGGCCTAATGGCCGATGTGATGAATGTGAAA
63 TAAGGCCTAATGGCCAATGTGATGAATGTGAAA
*
49783955 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATA
* *
49784020 AGGCCTAATGGCCGATGTGATGAATATGAAA
65 AGGCCTAATGGCCAATGTGATGAATGTGAAA
* * *
49784051 GTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGA-ATATATGTGATGA
1 GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
*
49784115 GGCCTAATGGCCGATGTGATGAATGTGAAA
66 GGCCTAATGGCCAATGTGATGAATGTGAAA
* * * * * * * *
49784145 GTGTATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTG-TATAAATGTGATA
1 GTATATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATA
49784208 AG
65 AG
49784210 TCCCGAAGGG
Statistics
Matches: 327, Mismatches: 20, Indels: 10
0.92 0.06 0.03
Matches are distributed among these distances:
93 2 0.01
94 93 0.28
95 1 0.00
96 190 0.58
98 41 0.13
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (95 bp):
GTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAA
GGCCTAATGGCCAATGTGATGAATGTGAAA
Found at i:49783827 original size:47 final size:47
Alignment explanation
Indices: 49783766--49784209 Score: 683
Period size: 47 Copynumber: 9.3 Consensus size: 47
49783756 TGTGATTGTA
*
49783766 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
49783813 TATATATGTGATAAGGCCGAATGGCCAATGTGACGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49783860 TATATACATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATAT--ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49783909 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
49783958 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49784005 TATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATATGAAAGTG
1 --TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49784054 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* *
49784101 AATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * * * *
49784148 TATATATGTGA-CAGAGCCGAGTGGCCAACGTGATGGATGTGAAAGTG
1 TATATATGTGATAAG-GCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
49784195 TATAAATGTGATAAG
1 TATATATGTGATAAG
49784210 TCCCGAAGGG
Statistics
Matches: 367, Mismatches: 22, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
46 2 0.01
47 231 0.63
48 2 0.01
49 127 0.35
51 5 0.01
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:49792242 original size:6 final size:6
Alignment explanation
Indices: 49792190--49792232 Score: 59
Period size: 6 Copynumber: 7.0 Consensus size: 6
49792180 GGAAAAGATA
* *
49792190 AAAAAT AAAAAT AAAAAT AAAACT AAAAAT AGAAAT AGAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT
49792233 TTAAAATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 28 0.88
7 4 0.12
ACGTcount: A:0.77, C:0.02, G:0.05, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:49792271 original size:23 final size:23
Alignment explanation
Indices: 49792241--49792293 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
49792231 ATTTAAAATT
49792241 AATTAGAAATTTTCTTATAAAAA
1 AATTAGAAATTTTCTTATAAAAA
49792264 AATTAGAAATTTTCTTATAAAAA
1 AATTAGAAATTTTCTTATAAAAA
49792287 AATTAGA
1 AATTAGA
49792294 TTAAACTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.38
Consensus pattern (23 bp):
AATTAGAAATTTTCTTATAAAAA
Found at i:49797086 original size:42 final size:42
Alignment explanation
Indices: 49797036--49797190 Score: 204
Period size: 42 Copynumber: 3.7 Consensus size: 42
49797026 TTGAGATAAT
* * *
49797036 GTGTAAGACCATATTTGGGATATGGAATCAATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
*
49797078 GTGTAAGACCATATATGGGATATGGCATCGATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
* * * *
49797120 GTGTAAGACCATAGCTGGGCTATTTGCATCGATACGAGA-TTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGACTT-C
*
49797163 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
49797191 TGGTACGATA
Statistics
Matches: 99, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
42 65 0.66
43 34 0.34
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGACTTC
Found at i:49800371 original size:23 final size:22
Alignment explanation
Indices: 49800341--49800397 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 22
49800331 GAGCTGATGG
49800341 ATAGTAAGCTCT-ATTGAGCTGAA
1 ATAGTAAGCTCTGA-TGAGCT-AA
49800364 ATAGTAAGCTCTGATGAGCTAA
1 ATAGTAAGCTCTGATGAGCTAA
49800386 ATCAGTAAGCTC
1 AT-AGTAAGCTC
49800398 ATACGAGTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
22 4 0.12
23 27 0.84
24 1 0.03
ACGTcount: A:0.35, C:0.16, G:0.21, T:0.28
Consensus pattern (22 bp):
ATAGTAAGCTCTGATGAGCTAA
Found at i:49800420 original size:24 final size:26
Alignment explanation
Indices: 49800386--49800457 Score: 94
Period size: 24 Copynumber: 2.8 Consensus size: 26
49800376 GATGAGCTAA
49800386 ATCAGTAAGCTCATACGAGTTGAGA-
1 ATCAGTAAGCTCATACGAGTTGAGAT
* * *
49800411 A-CAGTAAGCTCTTACGAGATGATAT
1 ATCAGTAAGCTCATACGAGTTGAGAT
*
49800436 ATCGGTAAGCTCATACGAGTTG
1 ATCAGTAAGCTCATACGAGTTG
49800458 TGGTGAGTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
24 20 0.51
25 2 0.05
26 17 0.44
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (26 bp):
ATCAGTAAGCTCATACGAGTTGAGAT
Done.