Locus 6537

Sequence ID	2L_DroMel_CAF1
Location	18,414,069 – 18,414,238
Length	169
Max. P	0.976880

overview

Window 4

Location	18,414,069 – 18,414,163
Length	94
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	90.07
Mean single sequence MFE	-31.21
Consensus MFE	-20.38
Energy contribution	-21.54
Covariance contribution	1.16
Combinations/Pair	1.19
Mean z-score	-3.30
Structure conservation index	0.65
SVM decision value	0.37
SVM RNA-class probability	0.709510
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18414069 94 + 22407834
GUCAAGAUAUUUCUUAAAGCUUUUUCCUCUUGUCG-GUUGUUUUCCCCAUUAGAGCAGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAU
(.(((((....................))))).)(-((((((((.......)))))))))(((((((((((((....)))))))))).))).... ( -30.95)
>DroSec_CAF1 254673 94 + 1
CUCAAGAUACUUCUUAAAGCUUUUUCCUCUUCUCG-GGUGUUUUGCCCAUUAGAGCGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAU
...((((....))))..((((.....((((....(-(((.....))))...)))).))))(((((((((((((....)))))))))).))).... ( -34.00)
>DroSim_CAF1 266329 94 + 1
CUCAAGAAAUUUCUUAAAGCUUUUUCCUCUUCUCG-GGUGUUUUGCCCAUUAGAGCGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAU
...((((....))))..((((.....((((....(-(((.....))))...)))).))))(((((((((((((....)))))))))).))).... ( -33.20)
>DroEre_CAF1 253283 93 + 1
CUGAAGAUAUUUCUUAAAGCUUU-UCCUC-UGUCGGCGUGCUUUCCCCAUUAGCGCAACUGCUGAGUCACCAGACAACUGGUGGCUAUGUCCCAU
.....(((((.............-.....-..((((((((((.........)))))....)))))((((((((....)))))))).))))).... ( -24.80)
>DroYak_CAF1 266746 95 + 1
CUGAAAAUAUUUCUUAAAGCUUUUUCCUCUUGUCGGGGUGUUUUCCCCAUUAGCGCGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCCCAU
..((((((((..(...(((.........)))...)..)))))))).........(.((((...((((((((((....)))))))))).))))).. ( -33.10)
>consensus
CUCAAGAUAUUUCUUAAAGCUUUUUCCUCUUGUCG_GGUGUUUUCCCCAUUAGAGCGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAU
..(((((((((.....(((.........))).....)))))))))...........((((...((((((((((....)))))))))).))))... (-20.38 = -21.54 +   1.16)

alignment

secondary structure

dotplot

Window 5

Location	18,414,105 – 18,414,199
Length	94
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	86.65
Mean single sequence MFE	-33.18
Consensus MFE	-26.90
Energy contribution	-28.10
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-2.34
Structure conservation index	0.81
SVM decision value	1.78
SVM RNA-class probability	0.976880
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18414105 94 + 22407834
UUGUUUUCCCCAUUAGAGCAGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAUUUGUCCGGCAGAGUUCUACUUUCC-CCCCUUAGGGCU
.............((((((..(((((((((((((((....)))))))))).(((......))).))))).))))))......-(((....))).. ( -34.70)
>DroSec_CAF1 254709 95 + 1
GUGUUUUGCCCAUUAGAGCGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAUUUGUCCGGCAGAGUUCCACUUGCCACCCCCCAACGCU
(((((..((((......).))).(((((((((((((....)))))))))).)))..........(((((........))))).......))))). ( -34.00)
>DroSim_CAF1 266365 95 + 1
GUGUUUUGCCCAUUAGAGCGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAUUUGUCCGGCAGAGUUCCACUUGCCACCCCCCAUGGCU
((((((((((...((((..((((...((((((((((....)))))))))).))))..))))...)))))))...)))..((((.......)))). ( -37.40)
>DroEre_CAF1 253318 90 + 1
GUGCUUUCCCCAUUAGCGCAACUGCUGAGUCACCAGACAACUGGUGGCUAUGUCCCAUUUGUCCGGCAGAGUUCUAUUU-UU---UCUCAGGGC-
(((((.........)))))..(((((((((((((((....)))))))))(((...))).....)))))).(((((....-..---....)))))- ( -26.90)
>DroYak_CAF1 266783 91 + 1
GUGUUUUCCCCAUUAGCGCGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCCCAUUUGUCCGGCAGAGUUCUACUUCCC---UCCCAGGGC-
(((((.........)))))((((...((((((((((....)))))))))).)))).....((((((.((.(........).)---).)).))))- ( -32.90)
>consensus
GUGUUUUCCCCAUUAGAGCGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAUUUGUCCGGCAGAGUUCUACUUGCC_CCCCCCAGGGCU
.............((((((..(((((((((((((((....)))))))))).(((......))).))))).))))))................... (-26.90 = -28.10 +   1.20)

alignment

secondary structure

dotplot

Window 6

Location	18,414,123 – 18,414,238
Length	115
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	80.15
Mean single sequence MFE	-36.16
Consensus MFE	-20.20
Energy contribution	-21.03
Covariance contribution	0.83
Combinations/Pair	1.15
Mean z-score	-2.79
Structure conservation index	0.56
SVM decision value	1.21
SVM RNA-class probability	0.931672
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18414123 115 + 22407834
CAGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAUUUGUCCGG---CAGAGUUCUACUUUCC-CCCCUUAGGGCUCCACUGACUAUUUUUAUCACUAAUAGACGCCACUUUGUU
.((((...((((((((((....)))))))))).)))).........((---(.((((((((......-.....))))))))......(((((.........)))))..)))........ ( -36.10)
>DroSec_CAF1 254727 116 + 1
CGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAUUUGUCCGG---CAGAGUUCCACUUGCCACCCCCCAACGCUCCACCGACUAUUUUUAUCACUAAUAGACGCCACUUUGUU
.(((.(((((((((((((....)))))))))).)))......(((.((---(((........))))).........((......))...................))))))........ ( -35.00)
>DroSim_CAF1 266383 116 + 1
CGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAUUUGUCCGG---CAGAGUUCCACUUGCCACCCCCCAUGGCUCCACCGACUAUUUUUAUCACUAAUAGACGCCACUUUGUU
.(((.(((((((((((((....)))))))))).)))......(((.((---(((........)))))........(((.....)))...................))))))........ ( -36.50)
>DroEre_CAF1 253336 110 + 1
CAACUGCUGAGUCACCAGACAACUGGUGGCUAUGUCCCAUUUGUCCGG---CAGAGUUCUAUUU-UU---UCUCAGGGC--GGGCGACUAUUUUCAUCAGUAAUAGCUGCCACUUUGUG
...(((((((((((((((....)))))))))(((...))).....)))---)))..........-..---...(((((.--.((((.(((((.........))))).)))).))))).. ( -32.00)
>DroYak_CAF1 266801 111 + 1
CGGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCCCAUUUGUCCGG---CAGAGUUCUACUUCCC---UCCCAGGGC--GGGCGACUACUUUUAUCACUAAUAGAUGCCACUUUGUU
.((((...((((((((((....)))))))))).)))).........((---((((((.......(((---.....))).--.((((.(((.((........))))).)))))))))))) ( -39.10)
>DroAna_CAF1 233178 95 + 1
CAGCUGCUGAGUCAUCGGACAUCUGCUGGCU-UGGCUCAUUUGUCCGAGCCCAGAGU-----------------------CUGGUGACUAUUUUUAUCGCUAAUAGAGGCCACUUUGUU
.(((.....(((((((((((.((((..((((-((((......).)))))))))))))-----------------------))))))))).........)))(((((((....))))))) ( -38.24)
>consensus
CAGCUGCUGAGUCACCAGACAUCUGGUGGCUCUGGCUCAUUUGUCCGG___CAGAGUUCUACUU_CC___CCCCAGGGC_CCACCGACUAUUUUUAUCACUAAUAGACGCCACUUUGUU
.((((...((((((((((....)))))))))).))))..............((((((.............((....)).........(((((.........))))).....)))))).. (-20.20 = -21.03 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:42 2006