Locus 5404

Sequence ID	3L_DroMel_CAF1
Location	14,820,451 – 14,820,559
Length	108
Max. P	0.813222

overview

Window 7

Location	14,820,451 – 14,820,559
Length	108
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.26
Mean single sequence MFE	-30.04
Consensus MFE	-17.64
Energy contribution	-18.53
Covariance contribution	0.89
Combinations/Pair	1.15
Mean z-score	-2.16
Structure conservation index	0.59
SVM decision value	0.08
SVM RNA-class probability	0.575300
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14820451 108 + 23771897
-----------AGAUGUAAAUUAUCGAAUUUCCGCACCGCAAUUAUGUGGUCCAAUAUGAAG-AAAGCCAUUGAGCGGAUGCUCGUUGGCUGAGGAAAUGAGAAACUCAUUCAUUUGGCA
-----------(((((.......((..(((((((.((((((....)))))).).........-..(((((.(((((....))))).)))))..))))))..))........))))).... ( -31.76)
>DroSec_CAF1 55275 108 + 1
-----------AGAUGUAAAUUAUCGAAAUUCCGAACCUCAAUUUUGUGGUCCAAUAAGAAG-AAAGCCAUUGAGCGGAUGCUCGUUGGCUGAGGAAAUGAGAAACUCAUUCAUUUGGCA
-----------.((((.....))))......(((((((((..((((((......))))))..-..(((((.(((((....))))).))))))))).((((((...))))))..))))).. ( -30.60)
>DroSim_CAF1 48451 108 + 1
-----------AGAUGUAAAUUAUCGAAAUUCCGUACCUCAAUUUUGUGGUCCAAUAAGAAG-AAAGCCAUUGAGCGGAUGCUCGUUGGCUGAGGAAAUGAGAAACUCAUUCAUUUGGCA
-----------.((((.....))))......(((..((((..((((((......))))))..-..(((((.(((((....))))).))))))))).((((((...))))))....))).. ( -28.40)
>DroEre_CAF1 55703 108 + 1
-----------AGCUGUAAAUGAUUGAAAUUCCGCAUCACAAUUAUGUGAUCCAAUAAGAAG-AAAGCCACUGAGCGGAUGCUCGUUGGCUGAGGAAAUGAGAAACUCAUUCAUUUGGCA
-----------.(((..((((((......(((((.((((((....)))))).).........-..(((((.(((((....))))).)))))..))))(((((...)))))))))))))). ( -33.10)
>DroYak_CAF1 58517 108 + 1
-----------AGCUGUAAAUUAUGGAAAUUCCGCACCACAAUUAUGUGGUCCAAUAAGAAG-AAAGCCACUGAGCGGAUGCUCGUUGGCUGAGGAAAUGAGAAACUCAUUCAUUUGGCA
-----------.((((......(((((..(((((.((((((....)))))).).........-..(((((.(((((....))))).)))))..)))).((((...))))))))).)))). ( -32.20)
>DroAna_CAF1 52846 113 + 1
AAAUACGAAUGCGAUGUACCCUAUAGAA-------GCCACAAAUGUGGGUCGAAAUAAGGAGCCAAACCGAUGGGCGGAUGCGAACUGGCUGAGGAAAUGAAAAAGUCAUUCAUUUGGUG
.....((((((.((((.(((((.....(-------((((......(((.((........)).)))..(((.....)))........))))).)))...(....).))))))))))))... ( -24.20)
>consensus
___________AGAUGUAAAUUAUCGAAAUUCCGCACCACAAUUAUGUGGUCCAAUAAGAAG_AAAGCCAUUGAGCGGAUGCUCGUUGGCUGAGGAAAUGAGAAACUCAUUCAUUUGGCA
.........................(((.(((((.(((.((....)).))).)............(((((.(((((....))))).)))))..)))).((((...)))))))........ (-17.64 = -18.53 +   0.89)

alignment

secondary structure

dotplot

Window 8

Location	14,820,451 – 14,820,559
Length	108
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.26
Mean single sequence MFE	-27.57
Consensus MFE	-18.00
Energy contribution	-18.53
Covariance contribution	0.53
Combinations/Pair	1.12
Mean z-score	-2.55
Structure conservation index	0.65
SVM decision value	0.66
SVM RNA-class probability	0.813222
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14820451 108 - 23771897
UGCCAAAUGAAUGAGUUUCUCAUUUCCUCAGCCAACGAGCAUCCGCUCAAUGGCUUU-CUUCAUAUUGGACCACAUAAUUGCGGUGCGGAAAUUCGAUAAUUUACAUCU-----------
....((((...(((((((((.........(((((..((((....))))..)))))..-.........(.(((.((....)).))).))))))))))...))))......----------- ( -26.90)
>DroSec_CAF1 55275 108 - 1
UGCCAAAUGAAUGAGUUUCUCAUUUCCUCAGCCAACGAGCAUCCGCUCAAUGGCUUU-CUUCUUAUUGGACCACAAAAUUGAGGUUCGGAAUUUCGAUAAUUUACAUCU-----------
...........((((((((....((((..(((((..((((....))))..)))))..-.........(((((.((....)).)))))))))....)).)))))).....----------- ( -24.80)
>DroSim_CAF1 48451 108 - 1
UGCCAAAUGAAUGAGUUUCUCAUUUCCUCAGCCAACGAGCAUCCGCUCAAUGGCUUU-CUUCUUAUUGGACCACAAAAUUGAGGUACGGAAUUUCGAUAAUUUACAUCU-----------
..((....(((((((...)))))))(((((((((..((((....))))..))))...-.......(((.....)))...)))))...))....................----------- ( -24.50)
>DroEre_CAF1 55703 108 - 1
UGCCAAAUGAAUGAGUUUCUCAUUUCCUCAGCCAACGAGCAUCCGCUCAGUGGCUUU-CUUCUUAUUGGAUCACAUAAUUGUGAUGCGGAAUUUCAAUCAUUUACAGCU-----------
.((.((((((.((((.((((.........(((((..((((....))))..)))))..-.........(.((((((....)))))).))))).)))).))))))...)).----------- ( -32.60)
>DroYak_CAF1 58517 108 - 1
UGCCAAAUGAAUGAGUUUCUCAUUUCCUCAGCCAACGAGCAUCCGCUCAGUGGCUUU-CUUCUUAUUGGACCACAUAAUUGUGGUGCGGAAUUUCCAUAAUUUACAGCU-----------
..((((..(((((((...)))))))....(((((..((((....))))..)))))..-.......))))((((((....))))))((.(((((.....)))))...)).----------- ( -31.90)
>DroAna_CAF1 52846 113 - 1
CACCAAAUGAAUGACUUUUUCAUUUCCUCAGCCAGUUCGCAUCCGCCCAUCGGUUUGGCUCCUUAUUUCGACCCACAUUUGUGGC-------UUCUAUAGGGUACAUCGCAUUCGUAUUU
......(((((((................((((((..((.((......))))..))))))((((((...((.((((....)))).-------))..)))))).......))))))).... ( -24.70)
>consensus
UGCCAAAUGAAUGAGUUUCUCAUUUCCUCAGCCAACGAGCAUCCGCUCAAUGGCUUU_CUUCUUAUUGGACCACAUAAUUGUGGUGCGGAAUUUCGAUAAUUUACAUCU___________
..((((..(((((((...)))))))....(((((..((((....))))..)))))..........))))(((.((....)).)))................................... (-18.00 = -18.53 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:49:28 2006