Locus 8490

Sequence ID	X_DroMel_CAF1
Location	21,053,264 – 21,053,423
Length	159
Max. P	0.821894

overview

Window 9

Location	21,053,264 – 21,053,384
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	92.78
Mean single sequence MFE	-30.17
Consensus MFE	-26.91
Energy contribution	-26.47
Covariance contribution	-0.44
Combinations/Pair	1.03
Mean z-score	-1.79
Structure conservation index	0.89
SVM decision value	0.16
SVM RNA-class probability	0.611485
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21053264 120 - 22224390
UUAAACGCUUUGAGUAAUCACUCGGUCAAUUUCCAAUCCAUUGGGCUGGCCAAUUAGGCAAAUCAAAUUGACCAAGAGCUCGAAACUCGGACUGCGCCACACAAACACAGAGAAAGGCUA
......(((((((....)).((((((((((((((((....))))....(((.....))).....)))))))))...((..((.....))..))................))).))))).. ( -29.80)
>DroEre_CAF1 24367 120 - 1
UUCAACGCUUUGAGUAAUCACUCGGUCAAUUUCCAAUCCAUUGGUCCGGCCAAUUAGGCAAAUCAAAUUGACCAAGAGCUCGAAACUCGGACUGCGCCGCACAAACACAGAGAACAUCUA
(((...(((((((((....))))(((((((((((((....))))....(((.....))).....))))))))).)))))........(((......)))..........)))........ ( -27.70)
>DroYak_CAF1 26774 120 - 1
UUCGACGCUUUGAGUAAUCACUCGGUCAAUUUCCAAUGCAUUGGGCUGGCCAAUUAGGCAAAUCAAAUUGACCAAGAGCUCGAAACUCGGAAUGCGCCGCACAAACACAUGAAAAAGCUA
(((((.(((((((((....))))(((((((((((((....))))....(((.....))).....))))))))).))))))))))...(((......)))..................... ( -33.00)
>consensus
UUCAACGCUUUGAGUAAUCACUCGGUCAAUUUCCAAUCCAUUGGGCUGGCCAAUUAGGCAAAUCAAAUUGACCAAGAGCUCGAAACUCGGACUGCGCCGCACAAACACAGAGAAAAGCUA
......(((((((((....))))(((((((((((((....))))....(((.....))).....))))))))).)))))(((.....))).(((.(.........).))).......... (-26.91 = -26.47 +  -0.44)

alignment

secondary structure

dotplot

Window 0

Location	21,053,304 – 21,053,423
Length	119
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	94.99
Mean single sequence MFE	-32.37
Consensus MFE	-29.72
Energy contribution	-29.50
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-2.08
Structure conservation index	0.92
SVM decision value	0.68
SVM RNA-class probability	0.821894
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21053304 119 - 22224390
CAAGGA-AGCGACAGAAGUUUCCAUUUAACGGCACUCGGUUUAAACGCUUUGAGUAAUCACUCGGUCAAUUUCCAAUCCAUUGGGCUGGCCAAUUAGGCAAAUCAAAUUGACCAAGAGCU
...(((-(((.......)))))).......................(((((((((....))))(((((((((((((....))))....(((.....))).....))))))))).))))). ( -33.60)
>DroEre_CAF1 24407 119 - 1
CAAGGA-AACGACAGAAGUUUCCAUUUAACAGCACUCGGUUUCAACGCUUUGAGUAAUCACUCGGUCAAUUUCCAAUCCAUUGGUCCGGCCAAUUAGGCAAAUCAAAUUGACCAAGAGCU
...(((-(((.......)))))).......................(((((((((....))))(((((((((((((....))))....(((.....))).....))))))))).))))). ( -32.90)
>DroYak_CAF1 26814 120 - 1
CAGGGAAAACGACAGAAGUUUCCAUUUAACAGCACUCGGUUUCGACGCUUUGAGUAAUCACUCGGUCAAUUUCCAAUGCAUUGGGCUGGCCAAUUAGGCAAAUCAAAUUGACCAAGAGCU
....((((.(((..(..(((.......)))..)..))).))))...(((((((((....))))(((((((((((((....))))....(((.....))).....))))))))).))))). ( -30.60)
>consensus
CAAGGA_AACGACAGAAGUUUCCAUUUAACAGCACUCGGUUUCAACGCUUUGAGUAAUCACUCGGUCAAUUUCCAAUCCAUUGGGCUGGCCAAUUAGGCAAAUCAAAUUGACCAAGAGCU
...(((.(((.......)))))).......................(((((((((....))))(((((((((((((....))))....(((.....))).....))))))))).))))). (-29.72 = -29.50 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:05:37 2006