Locus 7618

Sequence ID 2L_DroMel_CAF1
Location 21,127,697 – 21,127,868
Length 171
Max. P 0.634938
window12242 window12243

overview

Window 2

Location 21,127,697 – 21,127,788
Length 91
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 78.83
Mean single sequence MFE -20.58
Consensus MFE -14.34
Energy contribution -14.40
Covariance contribution 0.06
Combinations/Pair 1.27
Mean z-score -1.15
Structure conservation index 0.70
SVM decision value 0.11
SVM RNA-class probability 0.590253
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21127697 91 + 22407834
UUCGGCAAUUCUAGCCUGCUCCCAUUCCUGCUGGCGCUGCUUCUCAAGCUCCCUGAUACAAUAGAAAUUG-------------UAUA--CA--UUG---U-UUUGUCGCUCA
..((((((..(..(((.((..........)).)))(((........)))....(((((((((....))))-------------))).--))--..)---.-.)))))).... ( -20.50)
>DroGri_CAF1 3345 108 + 1
UUCGGCAAUGCGUGCCUGUUCCCAUUCCUGCUGGCGCUGCUUCUCUAGUUCCCUGAG-CGA-AACACAAAAGAUUAAUAUAAA-UGAAACACUUUGUUGUG-UUGUAGGUCG
..((((...(((((((.((..........)).))))).))....(((((((...)))-)..-.....................-...(((((......)))-)).))))))) ( -20.70)
>DroSec_CAF1 2601 91 + 1
UUCGGCAAUUCUAGCCUGCUCCCAUUCCUGCUGGCGCUGCUUUUCCAGCUCCCUGAUGCGAUAGAAAUUU-------------UAUA--AA--UUU---U-UUUGCCGCUUA
..((((((((((((((.((..........)).)))((((......))))............)))))....-------------....--..--...---.-.)))))).... ( -20.46)
>DroSim_CAF1 2599 91 + 1
UUCGGCAAUUCUAGCCUGCUCCCAUUCCUGCUGGCGCUGCUUUUCCAGCUCCCUGAUGCGAUAGAAAUUG-------------UAUA--AA--UUU---U-UUUGCCGCUCA
..((((((.....(((.((..........)).)))((((......))))......(((((((....))))-------------))).--..--...---.-.)))))).... ( -23.30)
>DroEre_CAF1 2569 90 + 1
UUCGGCAAUUCUAGCCUGCUCCCAUUCCUGCUGGCGCUGCUUCUCCAACUCCCUGAUGCGAUAGAAAAUG-------------UAUG--AA--UU----U-AUUGUCGCUCA
...((((......(((.((..........)).)))..)))).............((.(((((((.((((.-------------....--.)--))----)-.))))))))). ( -19.60)
>DroYak_CAF1 2547 90 + 1
UUCAGCAAUUCUAGCCUGCUCCCAUUCCUGCUGGCGCUGCUUCUCCAGCUCCCUGGUGCAAUAGAAAAUU-------------UAUG--AA--UU----U-AUUGUCGCUCA
..(((........(((.((..........)).)))((((......))))...)))((((((((((.....-------------....--..--))----)-)))).)))... ( -18.90)
>consensus
UUCGGCAAUUCUAGCCUGCUCCCAUUCCUGCUGGCGCUGCUUCUCCAGCUCCCUGAUGCGAUAGAAAAUG_____________UAUA__AA__UU____U_UUUGUCGCUCA
..((((((.....(((.((..........)).)))((((......)))).....................................................)))))).... (-14.34 = -14.40 +   0.06)

alignment

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secondary structure

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dotplot

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Window 3

Location 21,127,767 – 21,127,868
Length 101
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 83.06
Mean single sequence MFE -24.33
Consensus MFE -17.11
Energy contribution -18.00
Covariance contribution 0.89
Combinations/Pair 1.24
Mean z-score -1.90
Structure conservation index 0.70
SVM decision value 0.21
SVM RNA-class probability 0.634938
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21127767 101 - 22407834
GAGAUGGAGAAGGAGGAGCAGCGCAAGAGGGAACUGGAGGCUAAGGAGGCGGCCAGAAAGUAAGGACUUUUAUCUUGCUUUGAGCGACAAAACAAUG-UAUA---------
...............(..(((.((((((.....((((..(((.....)))..))))(((((....)))))..)))))).)))..)............-....--------- ( -22.30)
>DroSec_CAF1 2671 101 - 1
GAGAUGGAGAUGGAGGAGCAGCGCAAGCGGGAACUGGAGGCUAAGGAGGCGGCCAGAAAGUGAGGACUUUCAUCUUGCUUUAAGCGGCAAAAAAAUU-UAUA---------
......((((((((((....((....)).....((((..(((.....)))..))))..........))))))))))(((......))).........-....--------- ( -28.60)
>DroSim_CAF1 2669 101 - 1
GAGAUGGAAAUGGAGGAGCAGCGCAAGCGGGAACUGGAGGCUAAGGAGGCGGCCAGAAAGUGAGGAUUUUUAUCUUGCUUUGAGCGGCAAAAAAAUU-UAUA---------
(((((((((((......((.((....)).....((((..(((.....)))..))))...))....)))))))))))(((......))).........-....--------- ( -25.30)
>DroEre_CAF1 2639 100 - 1
GAGAUGGAGAAGGAGGAGCAGCGCAAGCGGGAACUGGAGGCUAAGGAGGCAGCUAGAAAGUGAGGACAUUAAUCUUGCUUUGAGCGACAAUA-AAUU-CAUA---------
...(((((......(..((.((....)).....((((..(((.....)))..))))((((..(((.......)))..))))..))..)....-..))-))).--------- ( -25.00)
>DroYak_CAF1 2617 100 - 1
GAGAUGGAGAAGGAGGAGCAGCGCAAGCGGGAACUGGAGGCUAAGGAGGCGGCCAGAAAGUGAGGACAUUAAUCUUGCUUUGAGCGACAAUA-AAUU-CAUA---------
...(((((......(..((.((....)).....((((..(((.....)))..))))((((..(((.......)))..))))..))..)....-..))-))).--------- ( -26.80)
>DroAna_CAF1 3611 96 - 1
GAAAUGGAGAAGGAGGAGCAGCGCAAGAGGGAAUUGGAAGCCAAGGAGGCGGCCAGAAAGUAGG----UUAAUCUU-----------CAAGACUAUGACAUACUUAUUAUA
(..((((.....(((((.(..(....)..)...((((..(((.....)))..))))........----....))))-----------)....))))..)............ ( -18.00)
>consensus
GAGAUGGAGAAGGAGGAGCAGCGCAAGCGGGAACUGGAGGCUAAGGAGGCGGCCAGAAAGUGAGGACUUUAAUCUUGCUUUGAGCGACAAAA_AAUU_CAUA_________
..............(..((.((....)).....((((..(((.....)))..))))(((((((((.......)))))))))..))..)....................... (-17.11 = -18.00 +   0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:11 2006