Locus 4191

Sequence ID 3R_DroMel_CAF1
Location 11,344,845 – 11,344,956
Length 111
Max. P 0.935421
window6750 window6751

overview

Window 0

Location 11,344,845 – 11,344,956
Length 111
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 90.05
Mean single sequence MFE -37.12
Consensus MFE -28.22
Energy contribution -28.58
Covariance contribution 0.36
Combinations/Pair 1.10
Mean z-score -1.69
Structure conservation index 0.76
SVM decision value 0.28
SVM RNA-class probability 0.664994
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11344845 111 + 27905053
GGCC-----GCCCGACUUUCACCUCAGACAGCGAAACGCUUUUGUCACAACAUUCUA-UGU--UCGGAAAGAAAGAGGCUUUAAAGUGUUAUAUGCCGCAUGAUUGAUGCGGUCGGGCU-
....-----((((((((((..((((.(((((((...)))...))))......((((.-...--..)))).....))))....))))).......(((((((.....)))))))))))).- ( -34.20)
>DroSec_CAF1 83714 110 + 1
GGCC-----GCCCGACUUUCACCUCAGACAGCGAAACGCUUUUGUCACAACACUCUC-UGU--UUGGG-AGAAAGAGGCUUUAAAGUGUUAUAUGCCGCAUGAUUGAUGCGGUCGGGCU-
....-----((((((((((..((((.(((((((...)))...))))......(((((-...--..)))-))...))))....))))).......(((((((.....)))))))))))).- ( -39.40)
>DroSim_CAF1 82261 110 + 1
GGCC-----GCCCGACUUUCACCUCAGACAGCGAAACGCUUUUGUCACAACACUCUC-UGU--UUGGG-AGAAAGAGGCUUUAAAGUGUUAUAUGCCGCAUGAUUGAUGCGGUCGGGCU-
....-----((((((((((..((((.(((((((...)))...))))......(((((-...--..)))-))...))))....))))).......(((((((.....)))))))))))).- ( -39.40)
>DroEre_CAF1 79985 116 + 1
GGCCGACUCGCCCGACUUUCACCUCAGACAGCGAUACGCUUUUGUCACAACACUCUC-UGC--UCGGG-AGAAAGAGGCUUUAAAGUGUUAUAUGCCGCAUGAUUGAUGCGGCCGGGGUU
..........(((((((((..((((.(((((((...)))...))))......(((((-...--..)))-))...))))....))))).......(((((((.....)))))))))))... ( -37.50)
>DroYak_CAF1 82091 112 + 1
GCCCGA------CGACUUUCACCUCAGACAGCGAAACGCUUUUGUCACAACACUCUCCUUCUCACAAG-AGAAAGAGGCUUUAAAGUGUUAUAUGCCGCAUGAUUGAUGCGGUCGGGGU-
.(((((------(.(((((..((((.(((((((...)))...))))............(((((....)-)))).))))....))))).........(((((.....)))))))))))..- ( -35.10)
>consensus
GGCC_____GCCCGACUUUCACCUCAGACAGCGAAACGCUUUUGUCACAACACUCUC_UGU__UCGGG_AGAAAGAGGCUUUAAAGUGUUAUAUGCCGCAUGAUUGAUGCGGUCGGGCU_
.........((((((((((..((((.(((((((...)))...))))......(((..........)))......))))....))))).......(((((((.....)))))))))))).. (-28.22 = -28.58 +   0.36)

alignment

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secondary structure

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dotplot

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Window 1

Location 11,344,845 – 11,344,956
Length 111
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.05
Mean single sequence MFE -38.54
Consensus MFE -29.39
Energy contribution -30.23
Covariance contribution 0.84
Combinations/Pair 1.03
Mean z-score -2.32
Structure conservation index 0.76
SVM decision value 1.24
SVM RNA-class probability 0.935421
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11344845 111 - 27905053
-AGCCCGACCGCAUCAAUCAUGCGGCAUAUAACACUUUAAAGCCUCUUUCUUUCCGA--ACA-UAGAAUGUUGUGACAAAAGCGUUUCGCUGUCUGAGGUGAAAGUCGGGC-----GGCC
-.((((((((((((.....)))))).........((((...(((((..........(--(((-(...)))))..((((...(((...))))))).))))).))))))))))-----.... ( -35.00)
>DroSec_CAF1 83714 110 - 1
-AGCCCGACCGCAUCAAUCAUGCGGCAUAUAACACUUUAAAGCCUCUUUCU-CCCAA--ACA-GAGAGUGUUGUGACAAAAGCGUUUCGCUGUCUGAGGUGAAAGUCGGGC-----GGCC
-.((((((((((((.....))))))....................(((((.-((...--.((-((.((((....(((......))).)))).)))).)).)))))))))))-----.... ( -37.30)
>DroSim_CAF1 82261 110 - 1
-AGCCCGACCGCAUCAAUCAUGCGGCAUAUAACACUUUAAAGCCUCUUUCU-CCCAA--ACA-GAGAGUGUUGUGACAAAAGCGUUUCGCUGUCUGAGGUGAAAGUCGGGC-----GGCC
-.((((((((((((.....))))))....................(((((.-((...--.((-((.((((....(((......))).)))).)))).)).)))))))))))-----.... ( -37.30)
>DroEre_CAF1 79985 116 - 1
AACCCCGGCCGCAUCAAUCAUGCGGCAUAUAACACUUUAAAGCCUCUUUCU-CCCGA--GCA-GAGAGUGUUGUGACAAAAGCGUAUCGCUGUCUGAGGUGAAAGUCGGGCGAGUCGGCC
....((((((((((.....)))))))...............(((((((((.-((...--.((-((.((((.(((.......)))...)))).)))).)).)))))..))))....))).. ( -40.00)
>DroYak_CAF1 82091 112 - 1
-ACCCCGACCGCAUCAAUCAUGCGGCAUAUAACACUUUAAAGCCUCUUUCU-CUUGUGAGAAGGAGAGUGUUGUGACAAAAGCGUUUCGCUGUCUGAGGUGAAAGUCG------UCGGGC
-..((((((.((((.....))))(((.(((((((((.......((((((((-(....)))))))))))))))))).........(((((((......)))))))))))------))))). ( -43.11)
>consensus
_AGCCCGACCGCAUCAAUCAUGCGGCAUAUAACACUUUAAAGCCUCUUUCU_CCCGA__ACA_GAGAGUGUUGUGACAAAAGCGUUUCGCUGUCUGAGGUGAAAGUCGGGC_____GGCC
..(((((((..((((..(((.(((((.(((((((((((..........................)))))))))))((......))...))))).)))))))...)))))))......... (-29.39 = -30.23 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:06 2006