Locus 5305

Sequence ID 2R_DroMel_CAF1
Location 17,222,284 – 17,222,374
Length 90
Max. P 0.996446
window8476 window8477

overview

Window 6

Location 17,222,284 – 17,222,374
Length 90
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 94.33
Mean single sequence MFE -30.18
Consensus MFE -27.58
Energy contribution -27.18
Covariance contribution -0.40
Combinations/Pair 1.09
Mean z-score -1.92
Structure conservation index 0.91
SVM decision value 2.70
SVM RNA-class probability 0.996446
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17222284 90 + 20766785
GAGGAAGCAAGAAGCGGGAGAGAGCAAGCGCGCGCGCGCGCAUU-UUCAGUUUCUUUU-U----UGUAUUUUCUUGCUCAAGAGUGC-UGAGCGAUA
(((((.((((((((.(..(..(((...(((((....)))))...-)))..)..)))))-)----))).)))))(((((((.......-))))))).. ( -29.90)
>DroSec_CAF1 22214 90 + 1
GAGGAAGCAAGAAGCGGGAGAGAGCAAGCGCGCGCGCGCGCAUU-UUCAGUUUCUUUU-U----UGUAUUUUCUUGCUCAAGAGUGC-UGAGCAAUA
(((((.((((((((.(..(..(((...(((((....)))))...-)))..)..)))))-)----))).)))))(((((((.......-))))))).. ( -30.20)
>DroSim_CAF1 24635 90 + 1
GAGGAAGCAAGAAGCGGGAGAGAGCAAGCGCGCGCGCGCGCAUU-UUCAGUUUCUUUU-U----UGUAUUUUCUUGCUCAAGAGUGC-UGAGCGAUA
(((((.((((((((.(..(..(((...(((((....)))))...-)))..)..)))))-)----))).)))))(((((((.......-))))))).. ( -29.90)
>DroEre_CAF1 22556 92 + 1
GAAGAAGCAAGAAGCGGGAGAGAGCAAGCGCGCGCGCGCGCAUUUUUCAGUUUCUUUUAU----UUUAUUUUCUUGCUCAAGAGUGC-UGAGCGAUA
..((((..(((((((..((((((....(((((....))))).)))))).)))))))...)----)))......(((((((.......-))))))).. ( -28.90)
>DroYak_CAF1 22500 97 + 1
GAAGAAGCAAGAAGCGGGAGAGAGCAAGCGCGCGCGCGCGCAUUUUUCAGUUUCUUUUUUUUUUUUUAGUUUCUUGCUCAAGAGUGCCUGAGCGAUA
(((((((.(((((((..((((((....(((((....))))).)))))).))))))).))))))).........(((((((........))))))).. ( -32.00)
>consensus
GAGGAAGCAAGAAGCGGGAGAGAGCAAGCGCGCGCGCGCGCAUU_UUCAGUUUCUUUU_U____UGUAUUUUCUUGCUCAAGAGUGC_UGAGCGAUA
((((((((.....((........))..(((((....)))))........))))))))................(((((((.(....).))))))).. (-27.58 = -27.18 +  -0.40)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 7

Location 17,222,284 – 17,222,374
Length 90
Sequences 5
Columns 97
Reading direction reverse
Mean pairwise identity 94.33
Mean single sequence MFE -21.28
Consensus MFE -21.62
Energy contribution -21.62
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 1.02
SVM decision value 1.71
SVM RNA-class probability 0.973399
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 17222284 90 - 20766785
UAUCGCUCA-GCACUCUUGAGCAAGAAAAUACA----A-AAAAGAAACUGAA-AAUGCGCGCGCGCGCGCUUGCUCUCUCCCGCUUCUUGCUUCCUC
.........-........(((((((((......----.-.............-...(((((....)))))..((........))))))))))).... ( -20.80)
>DroSec_CAF1 22214 90 - 1
UAUUGCUCA-GCACUCUUGAGCAAGAAAAUACA----A-AAAAGAAACUGAA-AAUGCGCGCGCGCGCGCUUGCUCUCUCCCGCUUCUUGCUUCCUC
..(((((((-(.....)))))))).........----.-..(((((......-...(((((....)))))..((........)))))))........ ( -21.40)
>DroSim_CAF1 24635 90 - 1
UAUCGCUCA-GCACUCUUGAGCAAGAAAAUACA----A-AAAAGAAACUGAA-AAUGCGCGCGCGCGCGCUUGCUCUCUCCCGCUUCUUGCUUCCUC
.........-........(((((((((......----.-.............-...(((((....)))))..((........))))))))))).... ( -20.80)
>DroEre_CAF1 22556 92 - 1
UAUCGCUCA-GCACUCUUGAGCAAGAAAAUAAA----AUAAAAGAAACUGAAAAAUGCGCGCGCGCGCGCUUGCUCUCUCCCGCUUCUUGCUUCUUC
.........-........(((((((((......----...................(((((....)))))..((........))))))))))).... ( -20.80)
>DroYak_CAF1 22500 97 - 1
UAUCGCUCAGGCACUCUUGAGCAAGAAACUAAAAAAAAAAAAAGAAACUGAAAAAUGCGCGCGCGCGCGCUUGCUCUCUCCCGCUUCUUGCUUCUUC
....(((((((....)))))))...................(((((.(.(((....(((((....)))))..((........)))))..).))))). ( -22.60)
>consensus
UAUCGCUCA_GCACUCUUGAGCAAGAAAAUACA____A_AAAAGAAACUGAA_AAUGCGCGCGCGCGCGCUUGCUCUCUCCCGCUUCUUGCUUCCUC
....((....))......(((((((((.............................(((((....)))))..((........))))))))))).... (-21.62 = -21.62 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:40 2006