Locus 2675

Sequence ID	2R_DroMel_CAF1
Location	9,441,642 – 9,441,762
Length	120
Max. P	0.991601

overview

Window 9

Location	9,441,642 – 9,441,762
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	84.17
Mean single sequence MFE	-30.10
Consensus MFE	-22.39
Energy contribution	-25.75
Covariance contribution	3.36
Combinations/Pair	1.10
Mean z-score	-2.98
Structure conservation index	0.74
SVM decision value	2.28
SVM RNA-class probability	0.991601
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9441642 120 + 20766785
UGCGAGUGAAUAAACGCACAUACUCCGUUCACUAACGUGUUCAUUUCUUCAGUUAUUCACUCGCUGGUCGUUAGAAGUUCAUUUCGAUCAAACUGAUCAAAUGAUCAUUGUUCGAAAAGG
.((((((((((((.............(..(((....)))..)..........)))))))))))).................((((((.(((..(((((....)))))))).))))))... ( -32.50)
>DroSec_CAF1 28893 119 + 1
UGCGAGUGAAUAAACUCACAUACUCGGUUCACUAACGUGUUCAUUUUUUCAGUUAUUCACUCGCUGGUCAUUAGAAGUUCAUUUCGAUCAAUCUGAUCAAAUGAUCAUGGUUCGAAA-UU
.((((((((((((.((..........(..(((....)))..)........))))))))))))))((((((((.((((....))))((((.....)))).))))))))..........-.. ( -33.97)
>DroSim_CAF1 37133 119 + 1
UGCAAGUGAAUAAACUCACAUACUCGAUUCACUAACGUGUUCAUUUUUUCAGUUAUUCACUCGCUGGUCAUUAGAAGUUCAUUUCGAUCAAUCUGAUCAAAUGAUCAUGGUUCGAAA-UU
.((.(((((((((.((.........((..(((....))).))........))))))))))).))((((((((.((((....))))((((.....)))).))))))))..........-.. ( -27.43)
>DroEre_CAF1 28973 106 + 1
UGUGAGUGAA----GUUCACUACUCGGUUCACUAACGUGUUCAUUUCUUCAUUUAUUUACUCGCUGGUCAUAAGAAGUUAAUUUCGAUC---------AAAUGAUCUUGAUUCGAAA-UU
.(((((((((----............(..(((....)))..).............)))))))))...............((((((((((---------((......)))).))))))-)) ( -23.61)
>DroYak_CAF1 29001 119 + 1
UGUGAGUGAAUAAACUCAGCUACAGAGUUCACUAACGUGUUCAUUUCUUUAGUUAUUUACUCGCUGGUCAUUAGAAGUUCAAUUCGAUCAAAUUGAUCAAAUGAUCAUGAUUCUUAA-UG
.(((((((((((......((((.((((..(((....))).....)))).)))))))))))))))((((((((.(((......)))((((.....)))).))))))))..........-.. ( -33.00)
>consensus
UGCGAGUGAAUAAACUCACAUACUCGGUUCACUAACGUGUUCAUUUCUUCAGUUAUUCACUCGCUGGUCAUUAGAAGUUCAUUUCGAUCAAACUGAUCAAAUGAUCAUGGUUCGAAA_UU
.((((((((((((................(((....))).............)))))))))))).(((((((.((((....))))((((.....)))).))))))).............. (-22.39 = -25.75 +   3.36)

alignment

secondary structure

dotplot

Window 0

Location	9,441,642 – 9,441,762
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	84.17
Mean single sequence MFE	-27.71
Consensus MFE	-16.05
Energy contribution	-18.29
Covariance contribution	2.24
Combinations/Pair	1.04
Mean z-score	-2.24
Structure conservation index	0.58
SVM decision value	0.18
SVM RNA-class probability	0.620616
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9441642 120 - 20766785
CCUUUUCGAACAAUGAUCAUUUGAUCAGUUUGAUCGAAAUGAACUUCUAACGACCAGCGAGUGAAUAACUGAAGAAAUGAACACGUUAGUGAACGGAGUAUGUGCGUUUAUUCACUCGCA
...((((((.((((((((....)))))..))).))))))......((....))...((((((((((((.((.....(((....((((....))))...)))...)).)))))))))))). ( -34.40)
>DroSec_CAF1 28893 119 - 1
AA-UUUCGAACCAUGAUCAUUUGAUCAGAUUGAUCGAAAUGAACUUCUAAUGACCAGCGAGUGAAUAACUGAAAAAAUGAACACGUUAGUGAACCGAGUAUGUGAGUUUAUUCACUCGCA
.(-((((((.(..(((((....)))))....).)))))))................((((((((((((((.(.........(((....)))...........).)).)))))))))))). ( -32.15)
>DroSim_CAF1 37133 119 - 1
AA-UUUCGAACCAUGAUCAUUUGAUCAGAUUGAUCGAAAUGAACUUCUAAUGACCAGCGAGUGAAUAACUGAAAAAAUGAACACGUUAGUGAAUCGAGUAUGUGAGUUUAUUCACUUGCA
.(-((((((.(..(((((....)))))....).)))))))................((((((((((((((.(.....(((.(((....)))..)))......).)).)))))))))))). ( -31.10)
>DroEre_CAF1 28973 106 - 1
AA-UUUCGAAUCAAGAUCAUUU---------GAUCGAAAUUAACUUCUUAUGACCAGCGAGUAAAUAAAUGAAGAAAUGAACACGUUAGUGAACCGAGUAGUGAAC----UUCACUCACA
((-((((((.(((((....)))---------))))))))))..((((((((.............))))..)))).......(((....)))....((((((....)----)..))))... ( -17.62)
>DroYak_CAF1 29001 119 - 1
CA-UUAAGAAUCAUGAUCAUUUGAUCAAUUUGAUCGAAUUGAACUUCUAAUGACCAGCGAGUAAAUAACUAAAGAAAUGAACACGUUAGUGAACUCUGUAGCUGAGUUUAUUCACUCACA
((-(((.((((((.....((((((((.....)))))))))))..))))))))....(.((((.((((..............(((....)))(((((.......))))))))).)))).). ( -23.30)
>consensus
AA_UUUCGAACCAUGAUCAUUUGAUCAGAUUGAUCGAAAUGAACUUCUAAUGACCAGCGAGUGAAUAACUGAAGAAAUGAACACGUUAGUGAACCGAGUAUGUGAGUUUAUUCACUCGCA
................((((((((((.....))))))).)))..............((((((((((((.............(((....)))................)))))))))))). (-16.05 = -18.29 +   2.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:01 2006