Locus 663

Sequence ID	3L_DroMel_CAF1
Location	1,967,303 – 1,967,401
Length	98
Max. P	0.944576

overview

Window 2

Location	1,967,303 – 1,967,401
Length	98
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	91.84
Mean single sequence MFE	-30.14
Consensus MFE	-21.76
Energy contribution	-22.16
Covariance contribution	0.40
Combinations/Pair	1.12
Mean z-score	-3.45
Structure conservation index	0.72
SVM decision value	1.35
SVM RNA-class probability	0.944576
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1967303 98 + 23771897
UGCUGACCAUGCUUAAAUGCGGCUCAUUUAUCAAUAGAGCUGCUUAGCAUGGAAAGGACACAAGGAGAAAGCAUCCUGCAUCCCUUUAAGCACUUUAU
((((..(((((((.....(((((((...........)))))))..)))))))(((((.....((((.......)))).....))))).))))...... ( -34.60)
>DroSec_CAF1 18412 94 + 1
UGCUGACCAUGCUUAAAUGCGGCUCAUUUAUCAAUA--GCUGCUUAGCAUGGAAAGGACACAAGGAGAAAG--UCCUGCAUCCCUUUAAGCUCUUUUU
.(((..(((((((.....((((((.(((....))))--)))))..)))))))(((((.....((((.....--)))).....))))).)))....... ( -29.80)
>DroSim_CAF1 32594 94 + 1
UGCUGACCAUGCUUAAAUGCGGCUCAUUUAUCAAUA--GCUGCUUAGCAUGGAAAGGACACAAGGAGAAAG--UCCUGCAUCCCUUUAAGCACUUUUU
((((..(((((((.....((((((.(((....))))--)))))..)))))))(((((.....((((.....--)))).....))))).))))...... ( -30.70)
>DroEre_CAF1 18421 94 + 1
UGCUGACCAUGCUUAAAUGCGGCUCAUUUAUCAAUA--GCUGCUUAGCAUGGAAAGGACACGAGAAGAAAG--UCCUGCACCGCCUUAAAUACUUUUA
(((...(((((((.....((((((.(((....))))--)))))..)))))))..(((((...........)--))))))).................. ( -26.60)
>DroYak_CAF1 18908 94 + 1
UGCUGACCAUGCUUAAAUGCGGCUCAUUUAUCAAUA--GCUGCUUAGCAUGGAAGGCACACGAGGAGAAAG--UCCUGGACCGCUUUAAAUACUUUUU
((((..(((((((.....((((((.(((....))))--)))))..)))))))..))))..(.((((.....--)))).)................... ( -29.00)
>consensus
UGCUGACCAUGCUUAAAUGCGGCUCAUUUAUCAAUA__GCUGCUUAGCAUGGAAAGGACACAAGGAGAAAG__UCCUGCAUCCCUUUAAGCACUUUUU
.(((..(((((((.....(((((...............)))))..)))))))(((((.....((((.......)))).....))))).)))....... (-21.76 = -22.16 +   0.40)

alignment

secondary structure

dotplot

Window 3

Location	1,967,303 – 1,967,401
Length	98
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	91.84
Mean single sequence MFE	-27.94
Consensus MFE	-21.10
Energy contribution	-20.98
Covariance contribution	-0.12
Combinations/Pair	1.15
Mean z-score	-2.37
Structure conservation index	0.76
SVM decision value	1.05
SVM RNA-class probability	0.906839
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1967303 98 - 23771897
AUAAAGUGCUUAAAGGGAUGCAGGAUGCUUUCUCCUUGUGUCCUUUCCAUGCUAAGCAGCUCUAUUGAUAAAUGAGCCGCAUUUAAGCAUGGUCAGCA
......((((..(((((((((((((.......))).))))))))))(((((((..((.((((.(((....))))))).)).....)))))))..)))) ( -33.30)
>DroSec_CAF1 18412 94 - 1
AAAAAGAGCUUAAAGGGAUGCAGGA--CUUUCUCCUUGUGUCCUUUCCAUGCUAAGCAGC--UAUUGAUAAAUGAGCCGCAUUUAAGCAUGGUCAGCA
.......(((..((((((((((((.--.......))))))))))))(((((((..((.((--((((....))).))).)).....)))))))..))). ( -30.40)
>DroSim_CAF1 32594 94 - 1
AAAAAGUGCUUAAAGGGAUGCAGGA--CUUUCUCCUUGUGUCCUUUCCAUGCUAAGCAGC--UAUUGAUAAAUGAGCCGCAUUUAAGCAUGGUCAGCA
......((((..((((((((((((.--.......))))))))))))(((((((..((.((--((((....))).))).)).....)))))))..)))) ( -30.30)
>DroEre_CAF1 18421 94 - 1
UAAAAGUAUUUAAGGCGGUGCAGGA--CUUUCUUCUCGUGUCCUUUCCAUGCUAAGCAGC--UAUUGAUAAAUGAGCCGCAUUUAAGCAUGGUCAGCA
.............(((.((((((((--(...........)))))...........((.((--((((....))).))).))......)))).))).... ( -22.10)
>DroYak_CAF1 18908 94 - 1
AAAAAGUAUUUAAAGCGGUCCAGGA--CUUUCUCCUCGUGUGCCUUCCAUGCUAAGCAGC--UAUUGAUAAAUGAGCCGCAUUUAAGCAUGGUCAGCA
..............((((..((.((--........)).))..))..(((((((..((.((--((((....))).))).)).....)))))))...)). ( -23.60)
>consensus
AAAAAGUGCUUAAAGGGAUGCAGGA__CUUUCUCCUUGUGUCCUUUCCAUGCUAAGCAGC__UAUUGAUAAAUGAGCCGCAUUUAAGCAUGGUCAGCA
............((((((..(((((.......)))).)..))))))(((((((...(((.....))).((((((.....)))))))))))))...... (-21.10 = -20.98 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:56 2006