Locus 7642

Sequence ID	2L_DroMel_CAF1
Location	21,224,760 – 21,224,853
Length	93
Max. P	0.968155

overview

Window 0

Location	21,224,760 – 21,224,853
Length	93
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.27
Mean single sequence MFE	-31.43
Consensus MFE	-23.53
Energy contribution	-23.26
Covariance contribution	-0.27
Combinations/Pair	1.24
Mean z-score	-2.17
Structure conservation index	0.75
SVM decision value	1.62
SVM RNA-class probability	0.968155
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21224760 93 + 22407834
CGUAAAGUGGCAGUGUGCAGCAACAGCUCGCAGAAAGGUGGCAACGCUCGCUAACAGACCGAGAGCUCCACUAA---------------------------CAAAACAAACAUUUUGCUA
.((((((((....((((.(((....)))))))....(((((....((((.............)))).)))))..---------------------------.........)))))))).. ( -24.82)
>DroSec_CAF1 15380 93 + 1
CGUAAAGUGGCAGUGUCCACCAACAGCUCGCCGAAAGGUGGCAACGCUCGCUAACAGACCGAGAGCGCCACUAA---------------------------CAAAACAAACAUUUUGCUA
.....((((((..............((.((((....))))))...((((.............))))))))))..---------------------------(((((......)))))... ( -28.32)
>DroSim_CAF1 15486 93 + 1
CGUAAAGUGGCAGUGUCCACCAACAGCUCGCCGAAAGGUGGCAACGCUCGCUAACAGACCGAGAGCGCCACUAA---------------------------CAAAACAAACAUUUUGCUA
.....((((((..............((.((((....))))))...((((.............))))))))))..---------------------------(((((......)))))... ( -28.32)
>DroEre_CAF1 16079 120 + 1
CGUAAAGUGGCAGUGUCUGCUAACAGCUCGCCGAAAGGUGGCAACGCUCGUUAACAGACCGAGAGUGCCGCUAACAGACUGCAACUCGGCUGGCUUGUCAACAAAACAAACAUUUUGCUA
.((((((((.(((((((((.((((((((((((....)))))....))).)))).)))))((((..(((.((.....).).))).))))))))..((((.......)))).)))))))).. ( -40.00)
>DroYak_CAF1 15703 120 + 1
CGUAAGGUGGCAGCGACCACUAUCAGUUCGCCGAAAGGUGGCAACGCUCGCUAACAGACCGAGAGCACCGCUAACAGGCUGCAACUCGACUGGUUUGUCAACAAAACAAACAUUUUGCUA
.((((((((((((((...((.....))(((((....)))))...)))).))..((((((((((.(((((.......)).)))..)))....)))))))............)))))))).. ( -35.70)
>consensus
CGUAAAGUGGCAGUGUCCACCAACAGCUCGCCGAAAGGUGGCAACGCUCGCUAACAGACCGAGAGCGCCACUAA___________________________CAAAACAAACAUUUUGCUA
.((((((((..((((..........((.((((....))))))...((((.............))))..))))...............(((......)))...........)))))))).. (-23.53 = -23.26 +  -0.27)

alignment

secondary structure

dotplot

Window 1

Location	21,224,760 – 21,224,853
Length	93
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.27
Mean single sequence MFE	-34.96
Consensus MFE	-21.30
Energy contribution	-22.14
Covariance contribution	0.84
Combinations/Pair	1.20
Mean z-score	-1.67
Structure conservation index	0.61
SVM decision value	-0.00
SVM RNA-class probability	0.532394
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21224760 93 - 22407834
UAGCAAAAUGUUUGUUUUG---------------------------UUAGUGGAGCUCUCGGUCUGUUAGCGAGCGUUGCCACCUUUCUGCGAGCUGUUGCUGCACACUGCCACUUUACG
(((((((((....))))))---------------------------)))((((((....((((.(((.(((((((.((((.........)))))))..))))))).))))...)))))). ( -25.50)
>DroSec_CAF1 15380 93 - 1
UAGCAAAAUGUUUGUUUUG---------------------------UUAGUGGCGCUCUCGGUCUGUUAGCGAGCGUUGCCACCUUUCGGCGAGCUGUUGGUGGACACUGCCACUUUACG
(((((((((....))))))---------------------------)))((((((......(((..(((((.(((.(((((.......)))))))))))))..)))..))))))...... ( -35.30)
>DroSim_CAF1 15486 93 - 1
UAGCAAAAUGUUUGUUUUG---------------------------UUAGUGGCGCUCUCGGUCUGUUAGCGAGCGUUGCCACCUUUCGGCGAGCUGUUGGUGGACACUGCCACUUUACG
(((((((((....))))))---------------------------)))((((((......(((..(((((.(((.(((((.......)))))))))))))..)))..))))))...... ( -35.30)
>DroEre_CAF1 16079 120 - 1
UAGCAAAAUGUUUGUUUUGUUGACAAGCCAGCCGAGUUGCAGUCUGUUAGCGGCACUCUCGGUCUGUUAACGAGCGUUGCCACCUUUCGGCGAGCUGUUAGCAGACACUGCCACUUUACG
(((((((((....)))))))))........(..((((.((((((((((((((((.(.((((.........)))).)(((((.......))))))))))))))))))..))).))))..). ( -42.40)
>DroYak_CAF1 15703 120 - 1
UAGCAAAAUGUUUGUUUUGUUGACAAACCAGUCGAGUUGCAGCCUGUUAGCGGUGCUCUCGGUCUGUUAGCGAGCGUUGCCACCUUUCGGCGAACUGAUAGUGGUCGCUGCCACCUUACG
..((.....(((((((.....)))))))((((((((..(((.((.......))))).))))).)))...)).((((..(((((...((((....))))..)))))))))........... ( -36.30)
>consensus
UAGCAAAAUGUUUGUUUUG___________________________UUAGUGGCGCUCUCGGUCUGUUAGCGAGCGUUGCCACCUUUCGGCGAGCUGUUGGUGGACACUGCCACUUUACG
...((((((....))))))..............................((((((......((((((((((.(((.(((((.......))))))))))))))))))..))))))...... (-21.30 = -22.14 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:41:45 2006