Locus 2983

Sequence ID	2L_DroMel_CAF1
Location	8,525,852 – 8,525,981
Length	129
Max. P	0.839313

overview

Window 4

Location	8,525,852 – 8,525,950
Length	98
Sequences	6
Columns	115
Reading direction	forward
Mean pairwise identity	77.07
Mean single sequence MFE	-19.90
Consensus MFE	-12.61
Energy contribution	-14.20
Covariance contribution	1.59
Combinations/Pair	1.21
Mean z-score	-1.64
Structure conservation index	0.63
SVM decision value	0.74
SVM RNA-class probability	0.839313
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8525852 98 + 22407834
AUUUUCAUCAAU-----------------GUAACUGUUACUUGGUAAAAAUUGUAUAUGUAUUUAGAAUAUAAAUAUUAUAUGCAAUGCGUUCCACAUUUACAAGGCAGUUAUCC
............-----------------((((((((..((((.((((.((((((((((((((((.....)))))).))))))))))..(.....).)))))))))))))))).. ( -21.10)
>DroPse_CAF1 2574 82 + 1
-----------------------CGCU--UUCCCUUUUAUAUGGUAAAUUUUAUUUAUGUAU-------AUAAUAGUUGUAUACAGUGCGUUUCUCGACUAAAAGGCAGUUAAA-
-----------------------.(((--((.....(((((((((((((...)))))).)))-------))))((((((...((.....))....)))))).))))).......- ( -12.40)
>DroSec_CAF1 35050 106 + 1
GU-UUCAUCAAUU--------UUCGCUUUUUAACUGUUACUUGGUAAAAAUUGUAUAUGUAUUUAGAAUAUAAAUAUUAUAUGCAAUGCGUUCCAGACUUACAAGGCAGUUAACC
..-..........--------........((((((((...((((.....((((((((((((((((.....)))))).)))))))))).....)))).((....)))))))))).. ( -21.90)
>DroSim_CAF1 34345 106 + 1
GU-UUCAUCAAUU--------UUCGCUUUUUAACUGUUACUUGGUAAAAAUUGUAUAUGUAUUUAGAAUAUAAAUAUUAUAUGCAAUGCGUUCCAGACUUACAAGGCAGUUAUCC
..-..........--------.........(((((((...((((.....((((((((((((((((.....)))))).)))))))))).....)))).((....)))))))))... ( -21.10)
>DroEre_CAF1 34936 105 + 1
GUUUUUAUCAAUU--------AUCGCU--UUAACUGUUACUUGGUAAAAAUUGUAUAUGUAUUUAGGAUAUAAAUAUUAUAUGCAAUGCGUUCCAGACUUACAAGACAGUUAUCC
.............--------......--.((((((((...(((.....((((((((((((((((.....)))))).)))))))))).....)))(.....)..))))))))... ( -20.90)
>DroYak_CAF1 35681 113 + 1
GUUUUCAUCAAUUCGCUUUCAAUCGCU--UUAACUGUUACUUGGUAAAAAUUGUAUAUGUAUUUAGGAUAUAAAUAUUAUAUGCAAUGCGUUCCAGAGUUACAAGACAGCUAUCC
(((.((........((........)).--.....(((.((((((.....((((((((((((((((.....)))))).)))))))))).....))).))).))).)).)))..... ( -22.00)
>consensus
GU_UUCAUCAAUU_________UCGCU__UUAACUGUUACUUGGUAAAAAUUGUAUAUGUAUUUAGAAUAUAAAUAUUAUAUGCAAUGCGUUCCAGACUUACAAGGCAGUUAUCC
..............................((((((((..((((.....((((((((((((((((.....)))))).)))))))))).....))))........))))))))... (-12.61 = -14.20 +   1.59)

alignment

secondary structure

dotplot

Window 5

Location	8,525,871 – 8,525,981
Length	110
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	82.05
Mean single sequence MFE	-23.37
Consensus MFE	-15.18
Energy contribution	-16.52
Covariance contribution	1.34
Combinations/Pair	1.17
Mean z-score	-1.98
Structure conservation index	0.65
SVM decision value	0.31
SVM RNA-class probability	0.681354
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8525871 110 + 22407834
UUACUUGGUAAAAAUUGUAUAUGUAUUUAGAAUAUAAAUAUUAUAUGCAAUGCGUUCCACAUUUACAAGGCAGUUAUCCAUGAUUGCGGAGUAAGAU--UUUUGAACAAAUU
((((((((.....((((((((((((((((.....)))))).)))))))))).....))...........(((((((....))))))).))))))...--............. ( -24.60)
>DroSec_CAF1 35077 110 + 1
UUACUUGGUAAAAAUUGUAUAUGUAUUUAGAAUAUAAAUAUUAUAUGCAAUGCGUUCCAGACUUACAAGGCAGUUAACCAUGAUUGCGGAGUAAGAC--UUUUGAACGAAUU
.............((((((((((((((((.....)))))).)))))))))).(((((.((.(((((...(((((((....)))))))...))))).)--)...))))).... ( -27.30)
>DroSim_CAF1 34372 112 + 1
UUACUUGGUAAAAAUUGUAUAUGUAUUUAGAAUAUAAAUAUUAUAUGCAAUGCGUUCCAGACUUACAAGGCAGUUAUCCAUGACUGCGGAGUAAGACAAAUUUGAACAAAUU
....((((.....((((((((((((((((.....)))))).)))))))))).....)))).(((((...(((((((....)))))))...)))))................. ( -28.60)
>DroEre_CAF1 34962 109 + 1
UUACUUGGUAAAAAUUGUAUAUGUAUUUAGGAUAUAAAUAUUAUAUGCAAUGCGUUCCAGACUUACAAGACAGUUAUCC-UAAUUGCGGAGUACAAU--UUUUGAACAAAAU
....(((.((((((((((((.((((.(((((((...........((((...))))....((((........))))))))-))).))))..)))))))--)))))..)))... ( -23.50)
>DroYak_CAF1 35715 110 + 1
UUACUUGGUAAAAAUUGUAUAUGUAUUUAGGAUAUAAAUAUUAUAUGCAAUGCGUUCCAGAGUUACAAGACAGCUAUCCCCAAUUGCGGAGUACGAC--UUUUGAACAAAUU
....((((.....((((((((((((((((.....)))))).)))))))))).....)))).(((.(((((..(...(((.(....).)))...)...--))))))))..... ( -22.10)
>DroAna_CAF1 18649 105 + 1
UUA--UGGUAAAAAUUGUAUACGUAUAUUUAGUAUAUAUAUUUUUAGCAAUGACUUUCAGAACUGUAAAGAUAUUAUUCAAGUUUCCU---CCUGGU--UUUAGAUCCACUU
...--((.((((((((((((((.........))))))).))))))).))....((((((....)).))))..................---..(((.--.......)))... ( -14.10)
>consensus
UUACUUGGUAAAAAUUGUAUAUGUAUUUAGAAUAUAAAUAUUAUAUGCAAUGCGUUCCAGACUUACAAGGCAGUUAUCCAUGAUUGCGGAGUAAGAC__UUUUGAACAAAUU
.(((((((.....((((((((((((((((.....)))))).)))))))))).....))...........((((((......)))))).)))))................... (-15.18 = -16.52 +   1.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:22 2006