Locus 4421

Sequence ID 2R_DroMel_CAF1
Location 14,527,430 – 14,527,571
Length 141
Max. P 0.535910
window7069 window7070

overview

Window 9

Location 14,527,430 – 14,527,540
Length 110
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 76.64
Mean single sequence MFE -28.94
Consensus MFE -13.52
Energy contribution -12.86
Covariance contribution -0.66
Combinations/Pair 1.17
Mean z-score -1.89
Structure conservation index 0.47
SVM decision value 0.00
SVM RNA-class probability 0.535910
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14527430 110 - 20766785
ACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCGGCAUCGGGAAAUGGGAAAUGGCAAGUGGCAAA--GGAAACUGGA----AGGAGAGCGGAAACGAAUG-CUGGAAGGCGGC
.((((..((((((.....))))))((..((((.....))))..))...)))).....((....((((.(--(....))...----.......((....))..))-)).....))... ( -28.10)
>DroPse_CAF1 156669 111 - 1
ACUCAAGUGGUAUUAAAUGUACCACCAAGUGUAGUCAGCAUCGGGAAGUGGCAAGUGCCAGUUGAAGAGGGGGAUACCCGAGAACAGGAGACGGGCAAUGGACUACGGGCA------
.(((..(((((((.....))))))).....((((((.((.(((..((.((((....)))).)).....(((.....)))............)))))....)))))))))..------ ( -35.30)
>DroSim_CAF1 160830 107 - 1
ACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCGACAUCGGGAAAUGGGAAAUGGCAAGUGGCAAA--GGAAACUGGA----AGGAGAGCGGAAACGGAUG-CUGGAAGG---U
.(((..(((((((.....)))))))((..(((..((..(((......))).))....)))..))....(--(....))...----..)))..((....))....-........---. ( -24.60)
>DroYak_CAF1 163820 107 - 1
ACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCGGCAUCGGGAAAUGGGAAAUGGCAAGUGGCAAA--GGAAACUGGA----AGGAGAGCGGAAACGGAUG-CUGGAAGU---C
(((...(((((((.....)))))))..)))((..((((((((.............((.(....).)).(--(....))...----.......((....))))))-))))..))---. ( -28.50)
>DroAna_CAF1 177690 87 - 1
ACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCAGCAUCGGGAA-------AUGGCAAGUGGCAAC--UGAAACUGGA----AA-----CGGAAA-----A-CUGGGA------
.((((((((((((.....))))).(((..(((..((........)).-------...)))..)))..))--)....(((..----..-----)))...-----.-.)))).------ ( -22.00)
>DroPer_CAF1 158860 111 - 1
ACUCAAGUGGUAUUAAAUGUACCACCAAGUGUAGUCAGCAUCGGGAAGUGGCAAGUGCCAGUUGAAGAGGGGGAUACCCGAGAACAGGAGACAGGCAAUGGACUACGGGCA------
.(((..(((((((.....))))))).....((((((.((.(((((((.((((....)))).)).............))))).....(....)..))....)))))))))..------ ( -35.11)
>consensus
ACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCAGCAUCGGGAAAUGGGAAAUGGCAAGUGGCAAA__GGAAACUGGA____AGGAGAGCGGAAACGGAUG_CUGGAA______
.(((..(((((((.....)))))))...((((.....)))).)))...............................((((.........................))))........ (-13.52 = -12.86 +  -0.66)

alignment

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secondary structure

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dotplot

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Window 0

Location 14,527,465 – 14,527,571
Length 106
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 82.00
Mean single sequence MFE -32.55
Consensus MFE -18.84
Energy contribution -18.87
Covariance contribution 0.03
Combinations/Pair 1.09
Mean z-score -2.01
Structure conservation index 0.58
SVM decision value -0.03
SVM RNA-class probability 0.519631
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14527465 106 - 20766785
CACAUGACUACGUUGCUGG---------CCAUAAAAAGUCACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCGGCAUCGGGAAAUGGGAAAUGGCAAGUGGCAAA--GGAAAC
...........((..((.(---------((((.....((..(((..(((((((.....)))))))...((((.....)))).)))..)).....))))).))..))...--...... ( -28.50)
>DroPse_CAF1 156703 117 - 1
UGUAUGACUGCCUUGCUGGCCACGGUGGCCAUAAAAAGUCACUCAAGUGGUAUUAAAUGUACCACCAAGUGUAGUCAGCAUCGGGAAGUGGCAAGUGCCAGUUGAAGAGGGGGAUAC
.......((.(((((((((((((((((((........))))))...(((((((.....)))))))...)))..))))))......((.((((....)))).))...)))).)).... ( -40.70)
>DroSec_CAF1 159751 106 - 1
CACAUGACUACGUUGCUGG---------CCAUAAAAAGUCACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCGGCAGCGGGAAAUGGGAAAUGGCAAGUGGCAAA--GGAAAC
..(((..((.(((((((((---------(..........((((...(((((((.....)))))))..))))..))))))))))))..))).....((.(....).))..--...... ( -28.60)
>DroSim_CAF1 160862 106 - 1
CACAUGACUACGUUGCUGG---------CCAUAAAAAGUCACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCGACAUCGGGAAAUGGGAAAUGGCAAGUGGCAAA--GGAAAC
...........((..((.(---------((((.....(.((((...(((((((.....)))))))..)))))..(((....)))..........))))).))..))...--...... ( -28.70)
>DroAna_CAF1 177709 99 - 1
CACAUGAGUGCCCGCCUGG---------CCAUAAAAAGUCACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCAGCAUCGGGAA-------AUGGCAAGUGGCAAC--UGAAAC
....(.(((..((((...(---------((((...............((((((.....))))))((..((((.....))))..))..-------)))))..))))..))--).)... ( -28.10)
>DroPer_CAF1 158894 117 - 1
UGUAUGACUGCCUUGCUGGCCACGGUGGCCAUAAAAAGUCACUCAAGUGGUAUUAAAUGUACCACCAAGUGUAGUCAGCAUCGGGAAGUGGCAAGUGCCAGUUGAAGAGGGGGAUAC
.......((.(((((((((((((((((((........))))))...(((((((.....)))))))...)))..))))))......((.((((....)))).))...)))).)).... ( -40.70)
>consensus
CACAUGACUACCUUGCUGG_________CCAUAAAAAGUCACUCAAGUGGUAUUAAAUGUACCACCAAGUGCAGUCAGCAUCGGGAAAUGGGAAAUGGCAAGUGGCAAA__GGAAAC
....(((((.......(((((.....)))))......(.((((...(((((((.....)))))))..))))))))))........................................ (-18.84 = -18.87 +   0.03)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:15 2006