Locus 1907

Sequence ID	2R_DroMel_CAF1
Location	7,186,380 – 7,186,495
Length	115
Max. P	0.780238

overview

Window 9

Location	7,186,380 – 7,186,495
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	83.16
Mean single sequence MFE	-28.16
Consensus MFE	-16.44
Energy contribution	-16.96
Covariance contribution	0.52
Combinations/Pair	1.23
Mean z-score	-2.34
Structure conservation index	0.58
SVM decision value	0.56
SVM RNA-class probability	0.780238
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7186380 115 + 20766785
AAAGCAGGCAUUAAUCAAAUAUUUCUUAGAACUGAUAAGUUCAGCGAAAAAGGUGUCACUCAAUACCAAGAAAGAUGACAAAAUGCGAUUAGCUCUUUGUU-----GUUUUUCAAUCGAA
............................(((((....)))))..(((....(((((......)))))..((((((..(((((..((.....))..))))).-----.))))))..))).. ( -27.60)
>DroSec_CAF1 19439 114 + 1
AAAGCGGGCAUUAAUCAAAUAUUUCUUGGAACUGAUAAGUUCAGUGAA-AAGGUGUCACUCAAUACCAAGAAAGAUGACAAAAUGCGAUUAGCUCUUUGUU-----GUUUUCCAAUCUAA
.....(((.............((((((((((((....)))))(((((.-......)))))......)))))))((..(((((..((.....))..))))).-----.)).)))....... ( -26.30)
>DroSim_CAF1 18075 114 + 1
AAAGCAGGCAUUAAUCAAAUAUUUCUUGGAACUGAUAAGUUCAGUGGA-AAGGUGUCACUCAAUACCAAGAAAGAUGACAAAAUGCGAUUAGCUCUUUGUU-----GUUUUUCAAUCUAA
.....................(((((..(((((....)))))...)))-))(((((......)))))..((((((..(((((..((.....))..))))).-----.))))))....... ( -29.30)
>DroEre_CAF1 17194 112 + 1
AGGGCUGUCAUUAAUCA--CCUUUCUUGGAACAGAUAAGUUCGGUGAA-GGGGUGUCACUCGAUACCAAGAAAGAUUACAAAAGGCGAUUGGCUUCUUGGU-----GUUUUUCAAAGUAA
.(((.((.(((......--((((((.(.((((......)))).).)))-)))))).)))))(((((((((((.(((..(.....)..)))...))))))))-----)))........... ( -29.70)
>DroYak_CAF1 18393 119 + 1
AAAUUUAUCGUUAAUCAAACAGUUCUUGGAACUGAUAAGUUCAGUGAA-AGGCUGUCACUCAAUACCAAGAAAGAUCACGAAACGCGAUUGGCUUUUUGUUUAUUCGAUUAACAAAAUAG
.........(((((((......(((((((((((....)))))(((((.-......)))))......)))))).((..((((((.((.....)).))))))....)))))))))....... ( -27.90)
>consensus
AAAGCAGGCAUUAAUCAAAUAUUUCUUGGAACUGAUAAGUUCAGUGAA_AAGGUGUCACUCAAUACCAAGAAAGAUGACAAAAUGCGAUUAGCUCUUUGUU_____GUUUUUCAAUCUAA
(((((................((((((((((((....)))))(((((........)))))......)))))))...((((((..((.....))..)))))).....)))))......... (-16.44 = -16.96 +   0.52)

alignment

secondary structure

dotplot

Window 0

Location	7,186,380 – 7,186,495
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	83.16
Mean single sequence MFE	-25.05
Consensus MFE	-15.78
Energy contribution	-16.06
Covariance contribution	0.28
Combinations/Pair	1.16
Mean z-score	-1.93
Structure conservation index	0.63
SVM decision value	0.23
SVM RNA-class probability	0.644827
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7186380 115 - 20766785
UUCGAUUGAAAAAC-----AACAAAGAGCUAAUCGCAUUUUGUCAUCUUUCUUGGUAUUGAGUGACACCUUUUUCGCUGAACUUAUCAGUUCUAAGAAAUAUUUGAUUAAUGCCUGCUUU
..............-----.....(((((.....(((((..((((..((((((((.(((((((((........))))........))))).))))))))....)))).)))))..))))) ( -22.60)
>DroSec_CAF1 19439 114 - 1
UUAGAUUGGAAAAC-----AACAAAGAGCUAAUCGCAUUUUGUCAUCUUUCUUGGUAUUGAGUGACACCUU-UUCACUGAACUUAUCAGUUCCAAGAAAUAUUUGAUUAAUGCCCGCUUU
...((((((.....-----.........))))))(((((..((((..((((((((.(((((((((......-.))))........))))).))))))))....)))).)))))....... ( -25.74)
>DroSim_CAF1 18075 114 - 1
UUAGAUUGAAAAAC-----AACAAAGAGCUAAUCGCAUUUUGUCAUCUUUCUUGGUAUUGAGUGACACCUU-UCCACUGAACUUAUCAGUUCCAAGAAAUAUUUGAUUAAUGCCUGCUUU
..............-----.....(((((.....(((((..((((..((((((((.((((((((.......-..)))........))))).))))))))....)))).)))))..))))) ( -23.40)
>DroEre_CAF1 17194 112 - 1
UUACUUUGAAAAAC-----ACCAAGAAGCCAAUCGCCUUUUGUAAUCUUUCUUGGUAUCGAGUGACACCCC-UUCACCGAACUUAUCUGUUCCAAGAAAGG--UGAUUAAUGACAGCCCU
.............(-----(((((((.((.....)).)))))....(((((((((..(((.((((......-.)))))))((......)).))))))))))--))............... ( -22.30)
>DroYak_CAF1 18393 119 - 1
CUAUUUUGUUAAUCGAAUAAACAAAAAGCCAAUCGCGUUUCGUGAUCUUUCUUGGUAUUGAGUGACAGCCU-UUCACUGAACUUAUCAGUUCCAAGAACUGUUUGAUUAACGAUAAAUUU
.....((((((((((((((............((((((...))))))..(((((((.(((((....(((...-....)))......))))).))))))).))))))))))))))....... ( -31.20)
>consensus
UUAGAUUGAAAAAC_____AACAAAGAGCUAAUCGCAUUUUGUCAUCUUUCUUGGUAUUGAGUGACACCUU_UUCACUGAACUUAUCAGUUCCAAGAAAUAUUUGAUUAAUGCCAGCUUU
....................((((((.((.....)).))))))....((((((((.(((((((((........))))........))))).))))))))..................... (-15.78 = -16.06 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:16:07 2006