Locus 5256

Sequence ID	3L_DroMel_CAF1
Location	14,520,874 – 14,520,976
Length	102
Max. P	0.863818

overview

Window 0

Location	14,520,874 – 14,520,976
Length	102
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	77.19
Mean single sequence MFE	-14.04
Consensus MFE	-10.85
Energy contribution	-11.93
Covariance contribution	1.08
Combinations/Pair	1.11
Mean z-score	-1.52
Structure conservation index	0.77
SVM decision value	0.84
SVM RNA-class probability	0.863818
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14520874 102 + 23771897
UAAAGCAUAUAGCUAUUCUAUAAUCUCCCUUCUAAUUGCAAUGAAAUGUUGAUGUUAAGCAAAAGGAACACCUGCCUAAUUUAAUCAACAUUUUUGCAAA-UA
...(((.....))).....................(((((..(((((((((((((((.(((...((....))))).))))...)))))))))))))))).-.. ( -21.10)
>DroSec_CAF1 17317 91 + 1
UAAGGCAUUU-----------CAUUACCUUUCUAAUUGCAAUAAAAUGUUGAUAUUAACCAAAAGGAACACCUGACUAAUUUAAUCAACAUUUUUGCAAA-UA
.((((.....-----------.....)))).....((((((..((((((((((..........(((....)))..........)))))))))))))))).-.. ( -17.95)
>DroSim_CAF1 19577 91 + 1
UAAGACAUUU-----------CAUUACCUUUCUAAUUGCAAUGAAAUGUUGAUAUUAACCAAAAGGAACACCUGCCUAAUUUAAUCAACAUUUUUGCAAA-UA
..........-----------..............(((((..(((((((((((..........(((....)))..........)))))))))))))))).-.. ( -17.65)
>DroEre_CAF1 20566 103 + 1
UGCAGCAUUUAGCCAUUCUAUCAACGCCUUUAUAAUCGCAUUGAAAUCUUGAUAUUAACCAAAACGAACACCUGCAUAAUUUAAUCAGCAUUUUGGCAAAGUA
......((((.((((.....((((.((..........)).))))............................(((............)))...)))).)))). ( -10.00)
>DroYak_CAF1 17777 87 + 1
----------------UUUAUCUAUGUCUUUAUAAUUGCAAUGAAAUCUUGAUAUUAACGAAAACGAACACCUGCCUAAUUUAAUAAACAUUUUUGCAAAGUA
----------------...................(((((..(((((.((..((((((......((......))......)))))))).)))))))))).... (  -3.50)
>consensus
UAAAGCAUUU______U_UAUCAUUACCUUUCUAAUUGCAAUGAAAUGUUGAUAUUAACCAAAAGGAACACCUGCCUAAUUUAAUCAACAUUUUUGCAAA_UA
...................................(((((..(((((((((((..........(((....)))..........)))))))))))))))).... (-10.85 = -11.93 +   1.08)

alignment

secondary structure

dotplot

Window 1

Location	14,520,874 – 14,520,976
Length	102
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	77.19
Mean single sequence MFE	-20.82
Consensus MFE	-11.04
Energy contribution	-13.28
Covariance contribution	2.24
Combinations/Pair	1.04
Mean z-score	-2.03
Structure conservation index	0.53
SVM decision value	0.81
SVM RNA-class probability	0.855771
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14520874 102 - 23771897
UA-UUUGCAAAAAUGUUGAUUAAAUUAGGCAGGUGUUCCUUUUGCUUAACAUCAACAUUUCAUUGCAAUUAGAAGGGAGAUUAUAGAAUAGCUAUAUGCUUUA
((-.((((((((((((((((....(((((((((.......))))))))).))))))))))..)))))).))....((((..(((((.....)))))..)))). ( -26.20)
>DroSec_CAF1 17317 91 - 1
UA-UUUGCAAAAAUGUUGAUUAAAUUAGUCAGGUGUUCCUUUUGGUUAAUAUCAACAUUUUAUUGCAAUUAGAAAGGUAAUG-----------AAAUGCCUUA
((-.((((((((((((((((...((((..((((.......))))..))))))))))))))..)))))).))..((((((...-----------...)))))). ( -24.50)
>DroSim_CAF1 19577 91 - 1
UA-UUUGCAAAAAUGUUGAUUAAAUUAGGCAGGUGUUCCUUUUGGUUAAUAUCAACAUUUCAUUGCAAUUAGAAAGGUAAUG-----------AAAUGUCUUA
((-.((((((((((((((((..(((((((.(((....))))))))))...))))))))))..)))))).))..(((..(...-----------...)..))). ( -21.00)
>DroEre_CAF1 20566 103 - 1
UACUUUGCCAAAAUGCUGAUUAAAUUAUGCAGGUGUUCGUUUUGGUUAAUAUCAAGAUUUCAAUGCGAUUAUAAAGGCGUUGAUAGAAUGGCUAAAUGCUGCA
......(((....(((((((...)))).)))...((((((((((((....)))))))).(((((((..........)))))))..)))))))........... ( -20.30)
>DroYak_CAF1 17777 87 - 1
UACUUUGCAAAAAUGUUUAUUAAAUUAGGCAGGUGUUCGUUUUCGUUAAUAUCAAGAUUUCAUUGCAAUUAUAAAGACAUAGAUAAA----------------
....((((((...((((((......))))))((((((((....))..)))))).........))))))...................---------------- ( -12.10)
>consensus
UA_UUUGCAAAAAUGUUGAUUAAAUUAGGCAGGUGUUCCUUUUGGUUAAUAUCAACAUUUCAUUGCAAUUAGAAAGGCAAUGAUA_A______AAAUGCCUUA
....((((((((((((((((..(((((((.(((....))))))))))...))))))))))..))))))................................... (-11.04 = -13.28 +   2.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:39 2006