Locus 2721

Sequence ID	3L_DroMel_CAF1
Location	7,599,085 – 7,599,177
Length	92
Max. P	0.998473

overview

Window 9

Location	7,599,085 – 7,599,177
Length	92
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	91.37
Mean single sequence MFE	-35.82
Consensus MFE	-29.70
Energy contribution	-32.66
Covariance contribution	2.96
Combinations/Pair	1.04
Mean z-score	-2.67
Structure conservation index	0.83
SVM decision value	2.85
SVM RNA-class probability	0.997363
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7599085 92 + 23771897
-AUUUUUCUCUGUGCUUUUGUCAGGGGGUGAGAUCGAAAGGCCAGGCAACGGGCUAACGCCCCAGCCCGUGCUCUUUUGAGACUCUGAUCCCC
-......................((((((.(((((((((((((.(((...((((....))))..))).).)).)))))))...))).)))))) ( -36.90)
>DroSec_CAF1 41231 92 + 1
-AUUUUUCUCUGUGUUUUUGUCGGGGGCUGAGAUCCAAAGGCCAGGCAACGGGCUAACGCCCCAGCCCGUGCUCUUUUGAGACUCUGAUCCCC
-.....................((((((.(((.((((((((...((((.((((((........)))))))))))))))).))))).).))))) ( -32.90)
>DroSim_CAF1 46540 92 + 1
-AUUUUUCUCUGUGCUUUUGUCGAGGGGUGAGAUCGAAAGGCCAGGCAACGGGCUAACGCCCCAGCCCGUGCUCUUUUGAGACUCUGAUCCCC
-.......................(((((.(((((((((((((.(((...((((....))))..))).).)).)))))))...))).))))). ( -34.40)
>DroEre_CAF1 44592 93 + 1
AUUUUUUCUCUGCACUUUUGUCAGGGCGUGAGGCCGAAAGGCCAGGCAACGGGCUAACGCCCCAGCCUGUGCUCUUUUGCUACUCUGAUCCCC
.......(((((.((....)))))))...(((..(((((((((((((...((((....))))..))))).)).))))))...)))........ ( -35.40)
>DroYak_CAF1 47457 93 + 1
AUUUUUUCUGUGCACUUUUGUCAGGGGGUGAGGCCGAAAGGCCAGGCAACGGGCUAACGCCCCAGCCUGUGCUCUUUUGAGACUCUGAUCCCC
.......(((.(((....))))))((((.(((.((((((((((((((...((((....))))..))))).)).)))))).).)))....)))) ( -39.50)
>consensus
_AUUUUUCUCUGUGCUUUUGUCAGGGGGUGAGAUCGAAAGGCCAGGCAACGGGCUAACGCCCCAGCCCGUGCUCUUUUGAGACUCUGAUCCCC
.......................((((((.(((((((((((((.(((...((((....))))..))).).)).)))))))...))).)))))) (-29.70 = -32.66 +   2.96)

alignment

secondary structure

dotplot

Window 0

Location	7,599,085 – 7,599,177
Length	92
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	91.37
Mean single sequence MFE	-32.90
Consensus MFE	-31.24
Energy contribution	-30.68
Covariance contribution	-0.56
Combinations/Pair	1.17
Mean z-score	-1.97
Structure conservation index	0.95
SVM decision value	3.11
SVM RNA-class probability	0.998473
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7599085 92 - 23771897
GGGGAUCAGAGUCUCAAAAGAGCACGGGCUGGGGCGUUAGCCCGUUGCCUGGCCUUUCGAUCUCACCCCCUGACAAAAGCACAGAGAAAAAU-
((((....(((..((.((((.((.(((((..((((....))))...))))))))))).)).)))..))))......................- ( -32.90)
>DroSec_CAF1 41231 92 - 1
GGGGAUCAGAGUCUCAAAAGAGCACGGGCUGGGGCGUUAGCCCGUUGCCUGGCCUUUGGAUCUCAGCCCCCGACAAAAACACAGAGAAAAAU-
((((....((((((..((((.((.(((((..((((....))))...)))))))))))))).)))...)))).....................- ( -34.00)
>DroSim_CAF1 46540 92 - 1
GGGGAUCAGAGUCUCAAAAGAGCACGGGCUGGGGCGUUAGCCCGUUGCCUGGCCUUUCGAUCUCACCCCUCGACAAAAGCACAGAGAAAAAU-
((((....(((..((.((((.((.(((((..((((....))))...))))))))))).)).))).)))).......................- ( -32.60)
>DroEre_CAF1 44592 93 - 1
GGGGAUCAGAGUAGCAAAAGAGCACAGGCUGGGGCGUUAGCCCGUUGCCUGGCCUUUCGGCCUCACGCCCUGACAAAAGUGCAGAGAAAAAAU
((((....(((..((.((((.((.(((((..((((....))))...)))))))))))..)))))...))))...................... ( -32.20)
>DroYak_CAF1 47457 93 - 1
GGGGAUCAGAGUCUCAAAAGAGCACAGGCUGGGGCGUUAGCCCGUUGCCUGGCCUUUCGGCCUCACCCCCUGACAAAAGUGCACAGAAAAAAU
((((...((.(((...((((.((.(((((..((((....))))...))))))))))).)))))...))))....................... ( -32.80)
>consensus
GGGGAUCAGAGUCUCAAAAGAGCACGGGCUGGGGCGUUAGCCCGUUGCCUGGCCUUUCGAUCUCACCCCCUGACAAAAGCACAGAGAAAAAU_
((((....(((..((.((((.((.(((((..((((....))))...))))))))))).)).)))...))))...................... (-31.24 = -30.68 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:11 2006