Locus 6609

Sequence ID 2R_DroMel_CAF1
Location 20,701,978 – 20,702,127
Length 149
Max. P 0.963814
window10516 window10517

overview

Window 6

Location 20,701,978 – 20,702,097
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 90.15
Mean single sequence MFE -30.92
Consensus MFE -24.70
Energy contribution -25.58
Covariance contribution 0.88
Combinations/Pair 1.14
Mean z-score -2.19
Structure conservation index 0.80
SVM decision value 1.56
SVM RNA-class probability 0.963814
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20701978 119 - 20766785
UCGCCGGCAGAUGUAGAGCAUUUAAGUACAGAAAGUACGCAGAUAUGCAUAAUCCUUAUACACACGUUUUACUUAGACAAUGGUAAGAUUUGAUUAGGGAUGCCGGGUGUUGAAAACAC-
...((((((((((.....)))))..((((.....))))(((....)))...(((((((....((.((((((((........)))))))).))..))))))))))))((((.....))))- ( -33.80)
>DroSec_CAF1 135506 118 - 1
U--CCGGCAGAUGUACAGCAUGCAAGUACAGAAAGUACACCGAUAUGCAUAAUCCUUAUACACGCAUUUUACUUAGACAAUGGUAAGAUUUGAUUAAGGAUGCCGGGUGUUGAAAAUAUA
(--(((((.........((((((..((((.....))))...).)))))...(((((((....((.((((((((........)))))))).))..)))))))))))))............. ( -31.60)
>DroSim_CAF1 139177 116 - 1
U--CCGGCAGAUGUACAGCAUGCAAGUACAGAAAGUACGCCGAUAUGCAUAAUCCUUA--CACACAUUUUACUUAGACAAUGGUAAGAUUUGAUUAAGGAUGCCGGGUGUUGAAAAUAUA
(--(((((.........((((((..((((.....))))...).)))))...(((((((--..((.((((((((........)))))))).))..)))))))))))))............. ( -34.00)
>DroEre_CAF1 176186 120 - 1
GCCACGGCAGAUGUACAACAGUUAAGUACAGAAAGUACGCCGAUAUGCAUAAUCCUUAUGCACACAUUUUACUUAGACAAUAGUAAGAUUUGAUUAAGGAUGACGGGUGUUGAAAAAAUA
(((.((((...((.....)).....((((.....)))))))).........(((((((....((.((((((((........)))))))).))..)))))))....)))............ ( -27.40)
>DroYak_CAF1 140302 120 - 1
GCGCAGGCAGAUGUACAGCAGCUAGGUACAGAAAGUACGCCGAUAUGCAUAAUCCUUAUGCACACAUUUUACUUAGACAAUGGUAAGAUUUGAUUAAGGAUGACGGGUGUUGAAAAAAUA
(((...((...(((((.........)))))....)).)))((((((.(...(((((((....((.((((((((........)))))))).))..)))))))...).))))))........ ( -27.80)
>consensus
UC_CCGGCAGAUGUACAGCAUGUAAGUACAGAAAGUACGCCGAUAUGCAUAAUCCUUAUACACACAUUUUACUUAGACAAUGGUAAGAUUUGAUUAAGGAUGCCGGGUGUUGAAAAAAUA
.....((((((((.....)))))..((((.....)))))))(((((.(...(((((((....((.((((((((........)))))))).))..)))))))...).)))))......... (-24.70 = -25.58 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 20,702,017 – 20,702,127
Length 110
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 76.00
Mean single sequence MFE -21.02
Consensus MFE -11.64
Energy contribution -13.96
Covariance contribution 2.32
Combinations/Pair 1.05
Mean z-score -1.71
Structure conservation index 0.55
SVM decision value 0.11
SVM RNA-class probability 0.590360
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20702017 110 - 20766785
AACAACGUAGAAAUACAA----------UUAUGGUGUAUAUCGCCGGCAGAUGUAGAGCAUUUAAGUACAGAAAGUACGCAGAUAUGCAUAAUCCUUAUACACACGUUUUACUUAGACAA
......(((....)))..----------.....(((((((((....(((((((.....)))))..((((.....)))))).)))))))))...............((((.....)))).. ( -23.20)
>DroSec_CAF1 135546 95 - 1
AACAAC----------AA-------------CUGUGUAUAU--CCGGCAGAUGUACAGCAUGCAAGUACAGAAAGUACACCGAUAUGCAUAAUCCUUAUACACGCAUUUUACUUAGACAA
......----------..-------------.(((((((((--(.((....((((.....)))).((((.....)))).))))))))))))............................. ( -16.70)
>DroSim_CAF1 139217 93 - 1
AACAAC----------AA-------------CUGUGUAUAU--CCGGCAGAUGUACAGCAUGCAAGUACAGAAAGUACGCCGAUAUGCAUAAUCCUUA--CACACAUUUUACUUAGACAA
......----------..-------------.(((((((((--(.(((...((((.....)))).((((.....))))))))))))))))).......--.................... ( -21.20)
>DroEre_CAF1 176226 99 - 1
---------------------AAUUAUCUUACUGUGUAUUGCCACGGCAGAUGUACAACAGUUAAGUACAGAAAGUACGCCGAUAUGCAUAAUCCUUAUGCACACAUUUUACUUAGACAA
---------------------...((((..((((((((((((....)))...)))).)))))...((((.....))))...))))((((((.....)))))).................. ( -20.70)
>DroYak_CAF1 140342 119 - 1
-ACAACGUAUAAAGACAAAUAAAUUAUCUUACGGUGUAUAGCGCAGGCAGAUGUACAGCAGCUAGGUACAGAAAGUACGCCGAUAUGCAUAAUCCUUAUGCACACAUUUUACUUAGACAA
-.....((...(((.................((((((((.((....))...(((((.........)))))....))))))))...((((((.....)))))).........)))..)).. ( -23.30)
>consensus
AACAAC__________AA__________UUACUGUGUAUAUC_CCGGCAGAUGUACAGCAUGUAAGUACAGAAAGUACGCCGAUAUGCAUAAUCCUUAUACACACAUUUUACUUAGACAA
.................................((((((((...(((((((((.....)))))..((((.....)))))))))))))))).............................. (-11.64 = -13.96 +   2.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:14:59 2006