Locus 6903

Sequence ID	2L_DroMel_CAF1
Location	19,267,245 – 19,267,337
Length	92
Max. P	0.979235

overview

Window 1

Location	19,267,245 – 19,267,337
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	95.87
Mean single sequence MFE	-37.00
Consensus MFE	-35.12
Energy contribution	-34.84
Covariance contribution	-0.28
Combinations/Pair	1.10
Mean z-score	-1.55
Structure conservation index	0.95
SVM decision value	1.83
SVM RNA-class probability	0.979235
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19267245 92 + 22407834
CUCACCUGAGUUGAUGUUUUGGCCAGGCCAAAACGUGGUGCUGGCUGGGUCCUAACCCGGUCGGCCUGGACGGGCUUGUUACUGGUGUCUGU
....((.......((((((((((...))))))))))((.(((((((((((....)))))))))))))))((((((...........)))))) ( -37.70)
>DroSec_CAF1 8749 92 + 1
CUCACCUGAGUUGAUGUUUUGGCCAGGCCAAAACGUGGUGCUGGCUGGGUCCUAACCCGGUCGGCCUGGACGGGCUUGUUACUGGUGUCUGU
....((.......((((((((((...))))))))))((.(((((((((((....)))))))))))))))((((((...........)))))) ( -37.70)
>DroSim_CAF1 15532 92 + 1
CUCACCUGAGUUGAUGUUUUGGCCAGGCCAAAACGUGGUGCUGGCUGGGUCCUAACCCGGUCGGCCUGGACGGGCUUGUUACUGGUGUCUGU
....((.......((((((((((...))))))))))((.(((((((((((....)))))))))))))))((((((...........)))))) ( -37.70)
>DroEre_CAF1 15432 92 + 1
CUCACCUGAGUUGAUGUUUUGGCCAGGCCAGAACGUGGUGCUGGCUGAGUCCUGACCCGGUCCGCCUGGCCGGGCUUGUUACCGGUGUCUGU
((((((.(...(.((((((((((...)))))))))).)..).)).))))....((((((((..((((....)))).....))))).)))... ( -35.10)
>DroYak_CAF1 14467 92 + 1
CUCACCUGAGUUGAUGUUUUGGCCAGGCCAAAACGUGGUGCUGGCUGGGUUAUAACCCGGUCCGCCUGGACGGGCUUGUUGCUGGUGUCUGU
..((((...(((.((((((((((...))))))))))((((..((((((((....))))))))))))..))).(((.....)))))))..... ( -36.80)
>consensus
CUCACCUGAGUUGAUGUUUUGGCCAGGCCAAAACGUGGUGCUGGCUGGGUCCUAACCCGGUCGGCCUGGACGGGCUUGUUACUGGUGUCUGU
..((((.......((((((((((...))))))))))((((..((((((((....)))))))).((((....))))....))))))))..... (-35.12 = -34.84 +  -0.28)

alignment

secondary structure

dotplot

Window 2

Location	19,267,245 – 19,267,337
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	95.87
Mean single sequence MFE	-30.38
Consensus MFE	-25.84
Energy contribution	-25.72
Covariance contribution	-0.12
Combinations/Pair	1.10
Mean z-score	-1.91
Structure conservation index	0.85
SVM decision value	1.51
SVM RNA-class probability	0.960501
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19267245 92 - 22407834
ACAGACACCAGUAACAAGCCCGUCCAGGCCGACCGGGUUAGGACCCAGCCAGCACCACGUUUUGGCCUGGCCAAAACAUCAACUCAGGUGAG
.....((((........((..((((..(((.....)))..))))...)).........((((((((...)))))))).........)))).. ( -28.10)
>DroSec_CAF1 8749 92 - 1
ACAGACACCAGUAACAAGCCCGUCCAGGCCGACCGGGUUAGGACCCAGCCAGCACCACGUUUUGGCCUGGCCAAAACAUCAACUCAGGUGAG
.....((((........((..((((..(((.....)))..))))...)).........((((((((...)))))))).........)))).. ( -28.10)
>DroSim_CAF1 15532 92 - 1
ACAGACACCAGUAACAAGCCCGUCCAGGCCGACCGGGUUAGGACCCAGCCAGCACCACGUUUUGGCCUGGCCAAAACAUCAACUCAGGUGAG
.....((((........((..((((..(((.....)))..))))...)).........((((((((...)))))))).........)))).. ( -28.10)
>DroEre_CAF1 15432 92 - 1
ACAGACACCGGUAACAAGCCCGGCCAGGCGGACCGGGUCAGGACUCAGCCAGCACCACGUUCUGGCCUGGCCAAAACAUCAACUCAGGUGAG
.....(((((((.....))).(((((((((((.((((((.((......)).).))).)).))).))))))))..............)))).. ( -36.30)
>DroYak_CAF1 14467 92 - 1
ACAGACACCAGCAACAAGCCCGUCCAGGCGGACCGGGUUAUAACCCAGCCAGCACCACGUUUUGGCCUGGCCAAAACAUCAACUCAGGUGAG
.....((((.((.....(((......)))((.(.((((....)))).))).)).....((((((((...)))))))).........)))).. ( -31.30)
>consensus
ACAGACACCAGUAACAAGCCCGUCCAGGCCGACCGGGUUAGGACCCAGCCAGCACCACGUUUUGGCCUGGCCAAAACAUCAACUCAGGUGAG
.....((((.((.....(((......))).....((((....)))).....)).....((((((((...)))))))).........)))).. (-25.84 = -25.72 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:29 2006