Locus 1522

Sequence ID X_DroMel_CAF1
Location 4,437,869 – 4,438,022
Length 153
Max. P 0.996327
window2471 window2472

overview

Window 1

Location 4,437,869 – 4,437,986
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.45
Mean single sequence MFE -24.63
Consensus MFE -24.50
Energy contribution -24.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.47
Structure conservation index 0.99
SVM decision value 1.80
SVM RNA-class probability 0.977626
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4437869 117 + 22224390
GGCAUGUGCAAAAUAUUUCACGGCUUGACACCUUCUUCGGUUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU---AAUAAUCCCCAUCACACAUU
((...(((.((....)).)))(((.....(((......)))(((((((((((......(((....)))......))))))))))).)))))......---.................... ( -24.50)
>DroSec_CAF1 39680 117 + 1
GGCAUGUGCAAAAUAUUUCACGGCUUGACACCUUCUUCGGUUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU---CAUAAUCCCCAUCCCACACU
((...(((.((....)).)))(((.....(((......)))(((((((((((......(((....)))......))))))))))).)))))......---.................... ( -24.50)
>DroSim_CAF1 41112 117 + 1
GGCAUGUGCAAAAUAUUUCACGGCUUGACACCUUAUUCGGUUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU---AAUAAUCCCCAUCCCACACU
((.(((.......((((....(((.....(((......)))(((((((((((......(((....)))......))))))))))).))).....)))---)........))).))..... ( -25.16)
>DroEre_CAF1 41292 117 + 1
GGCAUGUGCAAAAUAUUUCACGGCUUGACACCUUCUUCGGUUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU---AAUAAUCCCCAUCUCAAACU
((...(((.((....)).)))(((.....(((......)))(((((((((((......(((....)))......))))))))))).)))))......---.................... ( -24.50)
>DroYak_CAF1 40302 120 + 1
GGCAUGUGCAAAAUAUUUCACGGCUUGACACCUUCUUCGGUUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAUAAUAAUAAUCCCCAUCCUAUACU
((...(((.((....)).)))(((.....(((......)))(((((((((((......(((....)))......))))))))))).)))))............................. ( -24.50)
>consensus
GGCAUGUGCAAAAUAUUUCACGGCUUGACACCUUCUUCGGUUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU___AAUAAUCCCCAUCCCACACU
((...(((.((....)).)))(((.....(((......)))(((((((((((......(((....)))......))))))))))).)))))............................. (-24.50 = -24.50 +   0.00)

alignment

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secondary structure

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dotplot

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Window 2

Location 4,437,909 – 4,438,022
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.19
Mean single sequence MFE -17.98
Consensus MFE -17.30
Energy contribution -17.30
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.76
Structure conservation index 0.96
SVM decision value 2.68
SVM RNA-class probability 0.996327
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4437909 113 + 22224390
UUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU---AAUAAUCCCCAUCACACAUUCCCAUCCCCUCCACUUCAUUUCUCUG----UCUGGCUUUG
.(((((((((((......(((....)))......))))))))))).(((........---..............................................----...))).... ( -17.42)
>DroSec_CAF1 39720 114 + 1
UUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU---CAUAAUCCCCAUCCCACACUCCCAUCCC---CACUUCAAUUCUCUGUCUGUCUGGCUUUG
.(((((((((((......(((....)))......)))))))))))............---............................---..............(((.....))).... ( -18.40)
>DroSim_CAF1 41152 114 + 1
UUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU---AAUAAUCCCCAUCCCACACUCCCAUCCC---CACUUCAUUUCUCUGUCUGUCUGGCUUUG
.(((((((((((......(((....)))......)))))))))))............---............................---..............(((.....))).... ( -18.40)
>DroEre_CAF1 41332 110 + 1
UUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU---AAUAAUCCCCAUCUCAAACUCCCAUCCC---CACUUCAUUUCUCUG----UCUGGCUUUG
.(((((((((((......(((....)))......)))))))))))............---...........................(---((...((......))----..)))..... ( -17.60)
>DroYak_CAF1 40342 113 + 1
UUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAUAAUAAUAAUCCCCAUCCUAUACUCCCAUCCC---CACUGCUUUUUUCUG----UCUGGCUUUG
.(((((((((((......(((....)))......)))))))))))..........................................(---((..((........)----).)))..... ( -18.10)
>consensus
UUUCUGGUUACGCUCACAGCCUCAUGGCGCCACUCGUAAUUAGAACGCCCCAAUAAU___AAUAAUCCCCAUCCCACACUCCCAUCCC___CACUUCAUUUCUCUG____UCUGGCUUUG
.(((((((((((......(((....)))......))))))))))).(((................................................................))).... (-17.30 = -17.30 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:07 2006