Locus 503

Sequence ID 2L_DroMel_CAF1
Location 1,504,409 – 1,504,560
Length 151
Max. P 0.993533
window804 window805

overview

Window 4

Location 1,504,409 – 1,504,520
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 66.73
Mean single sequence MFE -30.35
Consensus MFE -12.14
Energy contribution -12.25
Covariance contribution 0.11
Combinations/Pair 1.41
Mean z-score -2.62
Structure conservation index 0.40
SVM decision value 2.41
SVM RNA-class probability 0.993533
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1504409 111 + 22407834
--AGAGCUGUUAAGAUAAGAUAACAGUGCUUUUG-------CUGAGCUGUUACACAACAGUGGCAGUGCUGCUAAACGCUUGCAGCCUGAAAGUAUGCAGUACUAGAAUGUAAAAAUUCC
--...(((((((........))))))).((..((-------(((.((((((((......))))))))(((((.........)))))...........)))))..)).............. ( -29.40)
>DroPse_CAF1 167842 110 + 1
UGUGAUCUGUUAAU-AGACAGAAUCCUGUUAAUGGAACCUAUCGAUAUGUUA-AUUGCAGU-UCAGUGUUGUCAAACCGCAGCAGAGUUC-AGUAGGC---GCGAAAAUGUAGAAAU---
.(((.(((((((((-((........))))))))))).(((((.((..(((..-...)))..-....((((((......))))))....))-.))))))---))..............--- ( -23.40)
>DroSec_CAF1 122045 110 + 1
--ACUGCUGUUAAG-UAAGAUAACAGUGCUUAUG-------CUAAGCUGUUACAAAACAGUGACAGUGCUGCUAAACGCUUGCAGCUUGAACGUAAGCAGUACUAGAAUGUAAAAUUCCC
--((((((((((..-.....)))))))(((((((-------....((((((((......))))))))(((((.........))))).....))))))))))....((((.....)))).. ( -33.80)
>DroSim_CAF1 124521 110 + 1
--ACAGCUGUUAAG-UAAGAUAACAGUGCUUUUG-------CUAAGCUGUUACAAAACAGUGACAGUGCUGCUAAACGCUUGCAGCUUGAACGUAAGCAGUACUAGAAUGUAAAAAUCCC
--((((((....))-)........((((((((((-------(...((((((((......))))))))(((((.........)))))......))))).))))))....)))......... ( -29.00)
>DroEre_CAF1 128181 99 + 1
-------------A-UAACAUAACAGAGCUGUUG-------CUGAGCUGUAACACAACAGUGACAGUGCUGCAAAACGCUUACAGCCCGAAAGUAUGCAGUACUGUAGUGCACAGUAAGC
-------------.-............(((((.(-------(...(((((......))))).(((((((((((....((.....)).(....)..)))))))))))...))))))).... ( -31.70)
>DroYak_CAF1 125290 99 + 1
-------------G-UAACGUAACAGUGCUGUAG-------CGUAGCUGUAAAUCAACAGUGACAGUGCUGCAAAAUGUUUACAGCCUGAAAGUAUGCAGUACUGUUAUGCAAAAUACCC
-------------.-...((((((((((((((((-------(.(((((((((((...((((......))))......)))))))).)))...)).))))))))))))))).......... ( -34.80)
>consensus
__A_AGCUGUUAAG_UAACAUAACAGUGCUUUUG_______CUGAGCUGUUACACAACAGUGACAGUGCUGCUAAACGCUUGCAGCCUGAAAGUAUGCAGUACUAGAAUGUAAAAAUCCC
..........................(((................(((((......)))))...(((((((((......................))))))))).....)))........ (-12.14 = -12.25 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,504,441 – 1,504,560
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 80.57
Mean single sequence MFE -26.38
Consensus MFE -15.38
Energy contribution -15.50
Covariance contribution 0.12
Combinations/Pair 1.11
Mean z-score -1.93
Structure conservation index 0.58
SVM decision value 0.30
SVM RNA-class probability 0.678386
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1504441 119 + 22407834
CUGAGCUGUUACACAACAGUGGCAGUGCUGCUAAACGCUUGCAGCCUGAAAGUAUGCAGUACUAGAAUGUAAAAAUUCCGCCAAAUUCAAAUACAGCUGAAGCAUAUGCAUUAUCCUUU
.(.((((((..........((((((((((((.....((((.(.....).))))..)))))))).((((......)))).)))).........)))))).).((....)).......... ( -31.31)
>DroSec_CAF1 122076 113 + 1
CUAAGCUGUUACAAAACAGUGACAGUGCUGCUAAACGCUUGCAGCUUGAACGUAAGCAGUACUAGAAUGUAAAAUUCCCGCCAAAUUCAAAUACAG------AAUAAACAUUAUCCUUU
....((((((((......))))))))(((((.........)))))(((((.(((.....)))..((((.....))))........)))))......------................. ( -21.10)
>DroSim_CAF1 124552 113 + 1
CUAAGCUGUUACAAAACAGUGACAGUGCUGCUAAACGCUUGCAGCUUGAACGUAAGCAGUACUAGAAUGUAAAAAUCCCGCCAAAUUCAAAUACAG------CAUAAACAUUAUCCUUU
....((((((((......))))))))((((......((((((.........)))))).......((((................)))).....)))------)................ ( -23.29)
>DroEre_CAF1 128201 119 + 1
CUGAGCUGUAACACAACAGUGACAGUGCUGCAAAACGCUUACAGCCCGAAAGUAUGCAGUACUGUAGUGCACAGUAAGCGCCAAAUUCAAACGUUUUGAAAACAUCAAUAUUAUCCUUU
.((((((((......))))).(((((((((((....((.....)).(....)..))))))))))).((((.......))))....(((((.....)))))....)))............ ( -29.60)
>DroYak_CAF1 125310 119 + 1
CGUAGCUGUAAAUCAACAGUGACAGUGCUGCAAAAUGUUUACAGCCUGAAAGUAUGCAGUACUGUUAUGCAAAAUACCCGCCAAAUUCGAAUGCAGUGAAACCAUCAAUAUUAUCCUUU
....((((((........((((((((((((((.(...((((.....))))..).))))))))))))))((.........))..........))))))...................... ( -26.60)
>consensus
CUAAGCUGUUACACAACAGUGACAGUGCUGCUAAACGCUUGCAGCCUGAAAGUAUGCAGUACUAGAAUGUAAAAUUCCCGCCAAAUUCAAAUACAG___AA_CAUAAACAUUAUCCUUU
....(((((......)))))...(((((((((....((((.(.....).)))).)))))))))........................................................ (-15.38 = -15.50 +   0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:45 2006