Locus 6794

Sequence ID 3L_DroMel_CAF1
Location 18,252,641 – 18,252,758
Length 117
Max. P 0.987309
window11037 window11038

overview

Window 7

Location 18,252,641 – 18,252,743
Length 102
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 75.12
Mean single sequence MFE -25.86
Consensus MFE -19.81
Energy contribution -19.12
Covariance contribution -0.69
Combinations/Pair 1.17
Mean z-score -2.21
Structure conservation index 0.77
SVM decision value 2.07
SVM RNA-class probability 0.987309
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18252641 102 - 23771897
CGCAUAAUGGCAU--GCAU-GAAUCAUUAAUAAAAAUCAUAAUAAAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAGCC--ACGA---GGAGAAACCAA-AGGAUUGU-------
.((((......))--))..-.((((.........((((((((...((((((((((.....))))))))))))))))))....--....---((.....))..-..))))..------- ( -24.60)
>DroPse_CAF1 47192 99 - 1
------UUGGUAU--GCAUAGGAUCAUUAAUAAAAAUCAUAAUGGAGGCGUGGCGAAUGACGUCACGUUUCUGUGAUUAGCA--GAGAC--CGAGAAGUCAAAAGGAUUGU-------
------(((((.(--((.(((.....))).....((((((...((((((((((((.....)))))))))))))))))).)))--...))--)))..((((.....))))..------- ( -28.80)
>DroGri_CAF1 79777 99 - 1
----CAAUAGUGG--CCAG-GCAUCAUUAAUAAAAAUCAUAAUAAAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAGCA--CAGAC----AGGAA-GAA-AGGAUUGCUUA----
----....((..(--((..-.(.((.........((((((((...((((((((((.....))))))))))))))))))....--.....----..)).-)..-.)).)..))..---- ( -22.15)
>DroMoj_CAF1 71350 110 - 1
----UAAUAGCAA--UGCG-GCAUCAUUAAUAAAAAUCAUAAUAAAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAGCACGGAGACGGAGAGUAUGGAA-AGGAUUGCCCAAGAC
----.........--((.(-(((((.........((((((((...((((((((((.....))))))))))))))))))....((....))............-..)).)))))).... ( -30.10)
>DroAna_CAF1 38602 97 - 1
ACCAUAAUGCCCUACACAU-GAAUCAUUAAUAAAAAUCAUAAUAGAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAGCU--UCCC---AA-------AA-AGGAUUGU-------
.((.(((((..(.......-)...))))).....(((((((...(((((((((((.....))))))))))))))))))....--....---..-------..-.)).....------- ( -20.70)
>DroPer_CAF1 48106 99 - 1
------UUGGUAU--GCAUAGGAUCAUUAAUAAAAAUCAUAAUGGAGGCGUGGCGAAUGACGUCACGUUUCUGUGAUUAGCA--GAGAC--CGAGAAGUCAAAAGGAUUGU-------
------(((((.(--((.(((.....))).....((((((...((((((((((((.....)))))))))))))))))).)))--...))--)))..((((.....))))..------- ( -28.80)
>consensus
____UAAUGGCAU__GCAU_GAAUCAUUAAUAAAAAUCAUAAUAAAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAGCA__GAGAC__AGAGAAA_CAA_AGGAUUGU_______
..................................((((((...((((((((((((.....))))))))))))))))))........................................ (-19.81 = -19.12 +  -0.69)

alignment

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secondary structure

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dotplot

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Window 8

Location 18,252,666 – 18,252,758
Length 92
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 77.90
Mean single sequence MFE -23.68
Consensus MFE -19.81
Energy contribution -19.12
Covariance contribution -0.69
Combinations/Pair 1.17
Mean z-score -3.18
Structure conservation index 0.84
SVM decision value 1.75
SVM RNA-class probability 0.975625
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18252666 92 - 23771897
-A-----UAUAUGUAUAUACUCGCAUAAUGGCAU--GCAU-GAAUCAUUAAUAAAAAUCAUAAUAAAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAG
-.-----..(((((((......((......))))--))))-).............((((((((...((((((((((.....)))))))))))))))))).. ( -22.20)
>DroPse_CAF1 47219 83 - 1
-A-----UAUG----UAUGGU------UUGGUAU--GCAUAGGAUCAUUAAUAAAAAUCAUAAUGGAGGCGUGGCGAAUGACGUCACGUUUCUGUGAUUAG
-.-----((((----((((..------....)))--)))))..............((((((...((((((((((((.....)))))))))))))))))).. ( -26.50)
>DroEre_CAF1 35007 90 - 1
--------AUGUAUAUAUAGUCACAUAAUGGCAU--GCAU-GAAUCAUUAAUAAAAAUCAUAAUAAAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAG
--------.........(((((((.(((((.((.--...)-)...)))))..............((((((((((((.....))))))))))))))))))). ( -23.30)
>DroMoj_CAF1 71387 91 - 1
U-CACGCUUUAUGCAUAUG------UAAUAGCAA--UGCG-GCAUCAUUAAUAAAAAUCAUAAUAAAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAG
(-((((((....((((.((------(....))))--))))-)).....................((((((((((((.....)))))))))))))))).... ( -24.90)
>DroAna_CAF1 38620 87 - 1
-------------AAUAUAUUACCAUAAUGCCCUACACAU-GAAUCAUUAAUAAAAAUCAUAAUAGAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAG
-------------...........................-..............(((((((...(((((((((((.....)))))))))))))))))).. ( -18.70)
>DroPer_CAF1 48133 83 - 1
-A-----UAUG----UAUGGU------UUGGUAU--GCAUAGGAUCAUUAAUAAAAAUCAUAAUGGAGGCGUGGCGAAUGACGUCACGUUUCUGUGAUUAG
-.-----((((----((((..------....)))--)))))..............((((((...((((((((((((.....)))))))))))))))))).. ( -26.50)
>consensus
_______UAUG___AUAUAGU____UAAUGGCAU__GCAU_GAAUCAUUAAUAAAAAUCAUAAUAAAGGCGUGGCGAAUGACGUCACGUUUUUGUGAUUAG
.......................................................((((((...((((((((((((.....)))))))))))))))))).. (-19.81 = -19.12 +  -0.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:08 2006