Locus 506

Sequence ID	2L_DroMel_CAF1
Location	1,516,861 – 1,517,021
Length	160
Max. P	0.937079

overview

Window 8

Location	1,516,861 – 1,516,981
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.00
Mean single sequence MFE	-33.85
Consensus MFE	-27.26
Energy contribution	-27.06
Covariance contribution	-0.20
Combinations/Pair	1.17
Mean z-score	-2.04
Structure conservation index	0.81
SVM decision value	1.26
SVM RNA-class probability	0.937079
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1516861 120 - 22407834
AAAUGAUUAGGCGGAAUGAAACCAACAAAUCCGCCGCCAAAAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUCUUUGGAUGGUUCCUCUAUGCUGGGGAUGUGAUUUCGUAUUUUGCAU
..((((...((((((..............))))))(((....))).......(((((........(((((((.....)))))))(((((......))))))))))..))))......... ( -31.84)
>DroSec_CAF1 134386 120 - 1
AAAUGAUUAAGCGGAAUAACACCAACAAAUCCGCUGCCGAGAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUCUUUGGAUGGUUCCUCUUUGCUGGGGAUGUGAUUUCGUAUUUUGCAU
..((((...((((((..............))))))(((....)))((((((..((((..(((..((((((((.....))))))))...))))).))..))))))...))))......... ( -32.24)
>DroSim_CAF1 137000 120 - 1
AAAUGAUUAAGCGGAAUGAAACCAACAAAUCCGCUGCCGAGAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUCUUCGGAUGGUUCCUCUUUGCUGGGGAUGUGAUUUCGUAUUUUGCAU
..........(((((((((((.((....((((.(.((.((((((....................((((((((.....)))))))))))))).)).).)))).)).))))))..))))).. ( -32.05)
>DroEre_CAF1 140331 120 - 1
AAAUGAUUAGGCUGAAUGAAACCAGAAAAUCCGCUGCCGAAAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUUUUGGGUUGGUUCCUCCUUGCCGGGGGUGUGACUUCGUAUCUUAAAU
......(((((....(((((...............(((....))).......(((((((((.((((........)))).))))).(((((.....))))).)))).)))))..))))).. ( -32.70)
>DroYak_CAF1 137774 120 - 1
AAAUGAUUAAGCUGAAUGAAACCAACAGAUCCGCGGCCGAAAGGCCACAUUUUUACACCGAGCCAAUUAUCCUUUUUGGAUGGCUCCUCUUAGUCGGGGGUGUAACUUCGUGUUUCAAAU
................(((((((.........(.((((....)))).)....(((((((((((((....(((.....)))))))))(((......))))))))))....).))))))... ( -40.40)
>consensus
AAAUGAUUAAGCGGAAUGAAACCAACAAAUCCGCUGCCGAAAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUCUUUGGAUGGUUCCUCUUUGCUGGGGAUGUGAUUUCGUAUUUUGCAU
..((((...((((((..............))))))(((....))).......(((((....((((....(((.....)))))))(((((......))))))))))..))))......... (-27.26 = -27.06 +  -0.20)

alignment

secondary structure

dotplot

Window 9

Location	1,516,901 – 1,517,021
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.58
Mean single sequence MFE	-30.65
Consensus MFE	-23.30
Energy contribution	-24.18
Covariance contribution	0.88
Combinations/Pair	1.11
Mean z-score	-1.59
Structure conservation index	0.76
SVM decision value	0.14
SVM RNA-class probability	0.603932
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1516901 120 - 22407834
GGGGACUUGACUUCCCCUGGCAUUAAAAUAUUCGUUUGGGAAAUGAUUAGGCGGAAUGAAACCAACAAAUCCGCCGCCAAAAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUCUUUGGA
(((((.......)))))((((....((((....)))).(((((((....((((((..............))))))(((....)))..))))))).......))))....(((.....))) ( -32.84)
>DroSec_CAF1 134426 120 - 1
GGGGACUUGACUUCCCCUGCCAUUAAAAUAUUCGUUAGGGAAAUGAUUAAGCGGAAUAACACCAACAAAUCCGCUGCCGAGAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUCUUUGGA
..((.((((..(((((..((.............))..)))))(((....((((((..............))))))(((....))))))..........)))))).....(((.....))) ( -28.36)
>DroSim_CAF1 137040 120 - 1
GGGGACUUGACUUCCCCUGGCAUUAAAAUAUUCGUUAGGGAAAUGAUUAAGCGGAAUGAAACCAACAAAUCCGCUGCCGAGAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUCUUCGGA
(((((.......)))))((((.((((........))))(((((((....((((((..............))))))(((....)))..))))))).......))))....(((.....))) ( -31.74)
>DroEre_CAF1 140371 120 - 1
GGGGACUUGACUUCCCCAGGCAUUAAAAUAUUCAUUUGGGAAAUGAUUAGGCUGAAUGAAACCAGAAAAUCCGCUGCCGAAAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUUUUGGGU
(((((.......))))).(((.........((((((..(............)..))))))....((((((.....(((....)))...)))))).......)))....((((....)))) ( -33.10)
>DroYak_CAF1 137814 120 - 1
GGAGACCUUACUUCCGCGGGCAUUAAAAUAUUCAUUAACGAAAUGAUUAAGCUGAAUGAAACCAACAGAUCCGCGGCCGAAAGGCCACAUUUUUACACCGAGCCAAUUAUCCUUUUUGGA
((((.......))))(((((........((.(((((.....))))).))..(((..((....)).))).)))))((((....))))................((((.........)))). ( -27.20)
>consensus
GGGGACUUGACUUCCCCUGGCAUUAAAAUAUUCGUUAGGGAAAUGAUUAAGCGGAAUGAAACCAACAAAUCCGCUGCCGAAAGGCCAUAUUUUCACACCAAGCCAAUUAUCCUCUUUGGA
(((((.......))))).(((.......((.(((((.....))))).))((((((..............))))))(((....)))................))).....(((.....))) (-23.30 = -24.18 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:49 2006