Locus 1541

Sequence ID 3L_DroMel_CAF1
Location 4,459,947 – 4,460,100
Length 153
Max. P 0.715532
window2396 window2397

overview

Window 6

Location 4,459,947 – 4,460,066
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 91.47
Mean single sequence MFE -24.22
Consensus MFE -19.26
Energy contribution -19.26
Covariance contribution -0.00
Combinations/Pair 1.17
Mean z-score -1.58
Structure conservation index 0.80
SVM decision value 0.39
SVM RNA-class probability 0.715532
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4459947 119 - 23771897
UAUCAUCCAGAUGUGACAUUUAAUCUGCAAGUGAUUUUUUGUGUCACUUCUGGUUAAAAACCUCUCACCAAUUGUUUCCAAAAUUAAACAUGGACAUGCAAGGGAUGUCCGAAUAAAUC
......(((((.(((((((..((((.......))))....))))))).)))))...................(((((........)))))(((((((.(...).)))))))........ ( -28.60)
>DroSec_CAF1 37179 118 - 1
UAUCAUCCAGAUGUGACAUUUGAUCUGCAAGUGACU-UUUGUGUCACUUCUGUUAAAAAACCUCUCACCAAUUGUUUCCAAAAUUAAACAUGGUCAUUAAAGCGAUGUCCGAAUAAAUC
...((((((((.(((((((..((((.......)).)-)..))))))).))))..............((((..(((((........))))))))).........))))............ ( -21.80)
>DroSim_CAF1 37168 118 - 1
UAUCAUCCAGAUGUGACAUUUGAUCUGCAAGUGACU-UUUGUGUCACUUCUGUUAAAAAACCUCUCACCAAUUGUUUCCAAAAUUAAACAUGGACAUUCAAGCGAUGUCCGAAUAAAUC
.......((((.(((((((..((((.......)).)-)..))))))).))))....................(((((........)))))((((((((.....))))))))........ ( -24.50)
>DroEre_CAF1 40084 117 - 1
UAUCAUUCAGAUGUGAUAUUUGAUCUGCAACUGAUU-UUUGUGUCACUUCUGUU-AAAAAGCUCUCAUCAAUUGCUUCGAAAAUUAAACAUGGACAUGCAUGGGAUGUUUGAAUAAAUC
.......((((.(((((((..((((.......))))-...))))))).))))..-....(((...........)))(((((.(((...((((......)))).))).)))))....... ( -23.40)
>DroYak_CAF1 39041 118 - 1
UAUCAUCCAGAUGUGUCAUUUGAUCUGCAACUGAUU-UUUGUGUCACUUCUGUUCAAAAACCUCUCACCAAUUGUUUCGAAAAUUAAACAUGGACAUGCAUGGGAUGUUUGAAUAAAUC
.......((((.(((.(((..((((.......))))-...))).))).))))((((((....((((((((..(((((........)))))))).......)))))..))))))...... ( -22.81)
>consensus
UAUCAUCCAGAUGUGACAUUUGAUCUGCAAGUGAUU_UUUGUGUCACUUCUGUUAAAAAACCUCUCACCAAUUGUUUCCAAAAUUAAACAUGGACAUGCAAGGGAUGUCCGAAUAAAUC
..((...((((.(((((((..((((.......))))....))))))).)))).......................................((((((.......))))))))....... (-19.26 = -19.26 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 4,459,987 – 4,460,100
Length 113
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 81.35
Mean single sequence MFE -17.78
Consensus MFE -14.18
Energy contribution -14.46
Covariance contribution 0.28
Combinations/Pair 1.13
Mean z-score -1.52
Structure conservation index 0.80
SVM decision value 0.20
SVM RNA-class probability 0.628665
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4459987 113 - 23771897
-----CAGCACACUUAAUCCCAGCUUAAGCAUUUUUCAAUAUCAUCCAGAUGUGACAUUUAAUCUGCAAGUGAUUUUUUGUGUCACUUCUGGUUAAAAACCUCUCACCAAUUGUUUCC
-----.((((............((....))...............(((((.(((((((..((((.......))))....))))))).)))))...................))))... ( -21.50)
>DroSec_CAF1 37219 117 - 1
UCCCACAGCACACUUAAUCACAGCUUAAGCAUUUUUCAAUAUCAUCCAGAUGUGACAUUUGAUCUGCAAGUGACU-UUUGUGUCACUUCUGUUAAAAAACCUCUCACCAAUUGUUUCC
...................((((.....(((....((((..((((......))))...))))..)))(((((((.-.....))))))))))).......................... ( -17.20)
>DroSim_CAF1 37208 86 - 1
-------------------------------UUUUUCAAUAUCAUCCAGAUGUGACAUUUGAUCUGCAAGUGACU-UUUGUGUCACUUCUGUUAAAAAACCUCUCACCAAUUGUUUCC
-------------------------------...............((((.(((((((..((((.......)).)-)..))))))).))))........................... ( -14.80)
>DroEre_CAF1 40124 116 - 1
GCCCACAGCAGACUUAAUCCCAACUUAAGCAUUUUUCUAUAUCAUUCAGAUGUGAUAUUUGAUCUGCAACUGAUU-UUUGUGUCACUUCUGUU-AAAAAGCUCUCAUCAAUUGCUUCG
......(((((.(((((.......))))).................((((.(((((((..((((.......))))-...))))))).))))..-................)))))... ( -19.90)
>DroYak_CAF1 39081 117 - 1
GCCCACAGCACACUUAAUCCCAAUUUAAGCAUUUUUCUAUAUCAUCCAGAUGUGUCAUUUGAUCUGCAACUGAUU-UUUGUGUCACUUCUGUUCAAAAACCUCUCACCAAUUGUUUCG
......((((..(((((.......))))).................((((.(((.(((..((((.......))))-...))).))).))))....................))))... ( -15.50)
>consensus
_CCCACAGCACACUUAAUCCCAACUUAAGCAUUUUUCAAUAUCAUCCAGAUGUGACAUUUGAUCUGCAAGUGAUU_UUUGUGUCACUUCUGUUAAAAAACCUCUCACCAAUUGUUUCC
..............................................((((.(((((((..((((.......))))....))))))).))))........................... (-14.18 = -14.46 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:14 2006