Locus 8476

Sequence ID X_DroMel_CAF1
Location 21,041,372 – 21,041,463
Length 91
Max. P 0.884948
window13927 window13928

overview

Window 7

Location 21,041,372 – 21,041,463
Length 91
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.61
Mean single sequence MFE -30.97
Consensus MFE -11.40
Energy contribution -11.80
Covariance contribution 0.40
Combinations/Pair 1.10
Mean z-score -2.29
Structure conservation index 0.37
SVM decision value 0.93
SVM RNA-class probability 0.884948
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21041372 91 + 22224390
AGAGCUA----------------AAGGGGACGG---CGGGCAAAAUGAAAACAUUUACAGGGCAGAGUACCCACUGACCUGUCCC----------CACUCUAUGGUCCAAAGAAAAUAUG
((((...----------------..((((((((---(((...(((((....)))))...(((.......))).))).)).)))))----------).))))................... ( -24.20)
>DroSec_CAF1 11799 90 + 1
AGAGCUA----------------AAGGGGUCGG---CGGGG-AAAUGAAAACAUUUACAGGGCAGAGUACCCACUGACCUGUCCC----------CUCUCUAUGGUCCAAAGAAAAUAUG
.(..(((----------------.(((((....---.((((-(((((....)))))(((((.(((........))).))))))))----------)))))).)))..)............ ( -24.40)
>DroSim_CAF1 12318 90 + 1
AGAGCUA----------------AAGGGGUCGG---CGGGG-AAAUGAAAACAUUUACAGGGCAGAGUACCCACUGACCUGUCCC----------CUCUCUAUGGUCCAAAGAAAAUAUG
.(..(((----------------.(((((....---.((((-(((((....)))))(((((.(((........))).))))))))----------)))))).)))..)............ ( -24.40)
>DroEre_CAF1 12472 119 + 1
AGAGCUGCAGAGCUACAGAGCUAAGGGGGACGGCGGUGGGG-AAAUAAAAACAUUUACAAGGCAGUGUUCCCACUGACCUGUCCCCCCUGCCCCCCUCCUUAUGCUCCAAAGAAAAUAUG
..((((....))))...((((((((((((..(((((.((((-(................((((((((....))))).))).))))).)))))..)))))))).))))............. ( -48.73)
>DroYak_CAF1 13609 99 + 1
AGGGCUGAA-AGGA---------ACGGGGGGGUCGACGGGA-AAAUGAAAACAUUUACAAGGCAGAGUUCCCACUGACCUGUCCC----------CUCUUUAUGGUCCAAAGAAAAUAUG
.((((((.(-((((---------..((((((((((..((((-(..((....(........).))...)))))..))))))..)))----------)))))).))))))............ ( -33.10)
>consensus
AGAGCUA________________AAGGGGACGG___CGGGG_AAAUGAAAACAUUUACAGGGCAGAGUACCCACUGACCUGUCCC__________CUCUCUAUGGUCCAAAGAAAAUAUG
..........................((..((.....(((..(((((....)))))...((((((.((........)))))))).............)))..))..))............ (-11.40 = -11.80 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 21,041,372 – 21,041,463
Length 91
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.61
Mean single sequence MFE -30.36
Consensus MFE -19.00
Energy contribution -18.40
Covariance contribution -0.60
Combinations/Pair 1.17
Mean z-score -1.95
Structure conservation index 0.63
SVM decision value 0.81
SVM RNA-class probability 0.855278
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21041372 91 - 22224390
CAUAUUUUCUUUGGACCAUAGAGUG----------GGGACAGGUCAGUGGGUACUCUGCCCUGUAAAUGUUUUCAUUUUGCCCG---CCGUCCCCUU----------------UAGCUCU
...................((((((----------(((((.(((..((((((.....))))...(((((....))))).))..)---))))))))..----------------..))))) ( -25.90)
>DroSec_CAF1 11799 90 - 1
CAUAUUUUCUUUGGACCAUAGAGAG----------GGGACAGGUCAGUGGGUACUCUGCCCUGUAAAUGUUUUCAUUU-CCCCG---CCGACCCCUU----------------UAGCUCU
.......((((((.....))))))(----------((((((((.(((.(....).))).)))))(((((....)))))-))))(---(..(.....)----------------..))... ( -23.90)
>DroSim_CAF1 12318 90 - 1
CAUAUUUUCUUUGGACCAUAGAGAG----------GGGACAGGUCAGUGGGUACUCUGCCCUGUAAAUGUUUUCAUUU-CCCCG---CCGACCCCUU----------------UAGCUCU
.......((((((.....))))))(----------((((((((.(((.(....).))).)))))(((((....)))))-))))(---(..(.....)----------------..))... ( -23.90)
>DroEre_CAF1 12472 119 - 1
CAUAUUUUCUUUGGAGCAUAAGGAGGGGGGCAGGGGGGACAGGUCAGUGGGAACACUGCCUUGUAAAUGUUUUUAUUU-CCCCACCGCCGUCCCCCUUAGCUCUGUAGCUCUGCAGCUCU
............(((((.(((((.(((((((.(((((((((((.(((((....))))).)))))(((((....)))))-)))).))))).))))))))))))))..((((....)))).. ( -51.90)
>DroYak_CAF1 13609 99 - 1
CAUAUUUUCUUUGGACCAUAAAGAG----------GGGACAGGUCAGUGGGAACUCUGCCUUGUAAAUGUUUUCAUUU-UCCCGUCGACCCCCCCGU---------UCCU-UUCAGCCCU
.......((((((.....))))))(----------(((...((((..(((((((........))(((((....)))))-)))))..)))).))))..---------....-......... ( -26.20)
>consensus
CAUAUUUUCUUUGGACCAUAGAGAG__________GGGACAGGUCAGUGGGUACUCUGCCCUGUAAAUGUUUUCAUUU_CCCCG___CCGACCCCUU________________UAGCUCU
......(((((((.....)))))))..........((((((((.(((.(....).))).)))))(((((....)))))..)))..................................... (-19.00 = -18.40 +  -0.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:59 2006