Locus 2956

Sequence ID 2L_DroMel_CAF1
Location 8,494,459 – 8,494,671
Length 212
Max. P 0.898193
window4690 window4691

overview

Window 0

Location 8,494,459 – 8,494,575
Length 116
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.01
Mean single sequence MFE -33.00
Consensus MFE -25.75
Energy contribution -26.03
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -1.92
Structure conservation index 0.78
SVM decision value 0.81
SVM RNA-class probability 0.856649
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8494459 116 + 22407834
----CGGAUGCCCCUGCAUCCUUCGGCCGCUACUCCUAAAUGGGUGUUGUCACUGUUGUGUUUGCAGUUGCAAAACUAUAGACCCGCACAAUUCUCUGACAUCACUGGCUAUCCUUUGAC
----.((((((....))))))...((((......((.....))(((.(((((..(((((((((((....))))............)))))))....))))).))).)))).......... ( -33.80)
>DroSec_CAF1 3639 114 + 1
----CGGAUGCCGC-GCGUCCUUCGGCCGCUACUCCUAAAUG-GUGUUGUCACUGUUGUGUUUGCAGUUGCAAAACUAUAGUCCCGCACAAUUCUCUGACAUCACUGGCUAUCCUUUGGC
----.(((((((((-(.(((....))))))...........(-(((.(((((..(((((((((((....)))).((....))...)))))))....))))).))))))).))))...... ( -35.20)
>DroSim_CAF1 3653 114 + 1
----CGGAUGCCGC-GCGUCCUUCAGCCGCUACUCCUAAAUG-GUGUUGUCACUGUUGUGUUUGCAGUUGCAAAACUAUAGACCCGCACAAUUCUCUGACAUCACUGGCUAUCCUUUGAC
----.(((((((((-(.((......)))))...........(-(((.(((((..(((((((((((....))))............)))))))....))))).))))))).))))...... ( -33.10)
>DroEre_CAF1 3260 118 + 1
CCAUCGGAUGCCCC-UCGUCCUUCUGCCGCUGCUCCCAAAUG-GUGUUGUCACUGUUGUGUUUGCUGUCGCAAAACUAUAGUCCCGCACAAUUCUCUGACAUCAGUGGCUAUCCUUUGAC
.....(((((....-.)))))....(((((((...((....)-)...(((((..(((((((..(((((.(.....).)))))...)))))))....))))).)))))))........... ( -31.50)
>DroYak_CAF1 3651 114 + 1
----CGGAUGCCCC-UCGUCCUUCUGCCGCUACUCCCAAAUG-GUGUUGUCACUAUUGUGUUUGCUGUGGCAAAACUAUAGUCCCGCACAAUUCCCUGACAUCACUGGCUAUCCUUUGAC
----.(((((((..-..((......))..............(-(((.(((((..(((((((..(((((((.....)))))))...)))))))....))))).))))))).))))...... ( -31.40)
>consensus
____CGGAUGCCCC_GCGUCCUUCGGCCGCUACUCCUAAAUG_GUGUUGUCACUGUUGUGUUUGCAGUUGCAAAACUAUAGUCCCGCACAAUUCUCUGACAUCACUGGCUAUCCUUUGAC
.....((((((....))))))....((((..............(((.(((((..(((((((((((....))))............)))))))....))))).)))))))........... (-25.75 = -26.03 +   0.28)

alignment

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secondary structure

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dotplot

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Window 1

Location 8,494,575 – 8,494,671
Length 96
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 72.75
Mean single sequence MFE -39.66
Consensus MFE -25.73
Energy contribution -26.13
Covariance contribution 0.40
Combinations/Pair 1.23
Mean z-score -1.65
Structure conservation index 0.65
SVM decision value 1.00
SVM RNA-class probability 0.898193
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8494575 96 - 22407834
GCCUGUUGGCCGGGCAAUGAUGUGUGUCACCGGGUGUCAAGUGGG------------------------GACUCUGGUAGCCCGGGGGAAUGCCACAGAUGUCAGGUAUACUGCCGGGGU
(((((.....)))))...(((....)))((((((.(((.......------------------------)))))))))..(((((.((.(((((((....))..))))).)).))))).. ( -36.10)
>DroSec_CAF1 3753 83 - 1
GCCCGUUGCCCGGGCAAUGAUGUGUGUCACCGGGUGUCAAGAGGG------------------------GACUUUGCUAGCCCGGGGGAAUGCCACAAAUGUCAGG-------------U
(((((.....)))))..((((((.(((..((((((....((((..------------------------..))))....))))))((.....))))).))))))..-------------. ( -34.70)
>DroSim_CAF1 3767 83 - 1
GCCUGUUGCCCGGGCAAUGAUGUGUGUCACCGGGUGUCAAGAGGG------------------------GACUUUGCUAGCCCGGGGGAAUGCCACAGAUGUCAGG-------------U
(((((((((....)))))(((((.(((..((((((....((((..------------------------..))))....))))))((.....))))).))))))))-------------) ( -35.10)
>DroEre_CAF1 3378 114 - 1
GCCUGUUGCCCGGGCAAUGAAGUGUGUCACCGGGUGUCAGGAGUGUCAGUAGUGUCAGGAGGC------GACUGUGGAACCUCGGGGGAAUGCCACAGAUGUCGGGGAUAGUGCUGGGGU
.((((.((((((((((........)))..))))))).))))..(.((((((.((((....(((------(.((((((..((....)).....)))))).))))...)))).)))))).). ( -46.90)
>DroYak_CAF1 3765 114 - 1
GCCUGUUGCCCGGGCAAUGAAGUGUGUCACCGAGUGUCAGGAGGGA------ACCCUGGAGGCUCUGAGAACUCGGAGACCUCGGGGGAAUGCCACAGAUGUCAGGGAUAGUGGCGGGGU
.(((((..(...((((........)))).((..(..((.(...((.------.((((.((((((((((....)))))).)))).))))....)).).))..)..))....)..))))).. ( -45.50)
>consensus
GCCUGUUGCCCGGGCAAUGAUGUGUGUCACCGGGUGUCAAGAGGG________________________GACUCUGCUAGCCCGGGGGAAUGCCACAGAUGUCAGG_AUA_UG__GGGGU
(((((.....)))))..((((((.(((..((((((....((((............................))))....))))))((.....))))).))))))................ (-25.73 = -26.13 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:28 2006