Locus 4838

Sequence ID	2L_DroMel_CAF1
Location	13,761,410 – 13,761,502
Length	92
Max. P	0.855985

overview

Window 7

Location	13,761,410 – 13,761,502
Length	92
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	81.28
Mean single sequence MFE	-27.46
Consensus MFE	-14.14
Energy contribution	-15.86
Covariance contribution	1.72
Combinations/Pair	1.09
Mean z-score	-2.42
Structure conservation index	0.51
SVM decision value	0.81
SVM RNA-class probability	0.855985
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13761410 92 + 22407834
CAUUUC-----ACCAUCAGAUCAAAGUCCCUGGCCAAACUGAGGCCACAUCCUGCCAAAAGGGGACUUUGAUCUAGGCUAAAUCGCCACAAUCCGCU
......-----......((((((((((((((((((.......)))))....((......))))))))))))))).(((......))).......... ( -34.40)
>DroSec_CAF1 25004 97 + 1
CAUUUGGGUGAACUUUCAGAUCAAAGCCCCUCGCCGAACUGAGGCCACAUCCUGCCAAAAGCGGACUUUGAUCUAGGCUAAAUCGCCACAAUCCGCU
.....((((........(((((((((..(((((......))))).......((((.....)))).))))))))).(((......)))...))))... ( -27.60)
>DroSim_CAF1 28060 97 + 1
CAUUUGGGUGAACUUUCAGAUCAAAGCCCCUGUCCGAACUGAGGCCACAUCCUGCCAAAAGCGGACUUUGAUCUAGGCUAAAUCGCCACAAUCCGCU
.....((((........((((((((......(((((......(((........))).....))))))))))))).(((......)))...))))... ( -26.10)
>DroEre_CAF1 26730 96 + 1
AAUUCGGGUC-ACCAUCAGAUCAAAGUCCAAUGGCUAACUGCGGCCACAUGCGUCCAAAAAGGGACUUUGAUCUAGGCUAAAUCGCCGCAAUCUGCU
.....((...-.))...((((((((((((..(((((......)))))..((....)).....)))))))))))).(((......)))((.....)). ( -31.20)
>DroYak_CAF1 28122 89 + 1
A-UUUGGGUC-ACCAUGAGAUGAAAGCCCAAAGCCGAACUGCGGCC------GUCCAAAAGCGCACUUUGAGCUAAGCUAAAUCGCCACAAUCCGCU
.-(((((((.-..(((...)))...)))))))((((.....)))).------.......((((.....((.((...........)))).....)))) ( -18.00)
>consensus
CAUUUGGGUC_ACCAUCAGAUCAAAGCCCCUGGCCGAACUGAGGCCACAUCCUGCCAAAAGCGGACUUUGAUCUAGGCUAAAUCGCCACAAUCCGCU
....(((((........(((((((((.((.....(.....).(((........)))......)).))))))))).(((......)))...))))).. (-14.14 = -15.86 +   1.72)

alignment

secondary structure

dotplot

Window 8

Location	13,761,410 – 13,761,502
Length	92
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	81.28
Mean single sequence MFE	-32.82
Consensus MFE	-19.98
Energy contribution	-20.74
Covariance contribution	0.76
Combinations/Pair	1.14
Mean z-score	-1.98
Structure conservation index	0.61
SVM decision value	0.43
SVM RNA-class probability	0.734260
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13761410 92 - 22407834
AGCGGAUUGUGGCGAUUUAGCCUAGAUCAAAGUCCCCUUUUGGCAGGAUGUGGCCUCAGUUUGGCCAGGGACUUUGAUCUGAUGGU-----GAAAUG
.....((..((((......)))(((((((((((((((((.....)))...(((((.......))))))))))))))))))))..))-----...... ( -35.50)
>DroSec_CAF1 25004 97 - 1
AGCGGAUUGUGGCGAUUUAGCCUAGAUCAAAGUCCGCUUUUGGCAGGAUGUGGCCUCAGUUCGGCGAGGGGCUUUGAUCUGAAAGUUCACCCAAAUG
...(((((..(((......)))(((((((((((((((.....))........(((.......)))...)))))))))))))..)))))......... ( -32.70)
>DroSim_CAF1 28060 97 - 1
AGCGGAUUGUGGCGAUUUAGCCUAGAUCAAAGUCCGCUUUUGGCAGGAUGUGGCCUCAGUUCGGACAGGGGCUUUGAUCUGAAAGUUCACCCAAAUG
...(((((..(((......)))(((((((((((((.(((((((((((......)))..).))))).)))))))))))))))..)))))......... ( -30.20)
>DroEre_CAF1 26730 96 - 1
AGCAGAUUGCGGCGAUUUAGCCUAGAUCAAAGUCCCUUUUUGGACGCAUGUGGCCGCAGUUAGCCAUUGGACUUUGAUCUGAUGGU-GACCCGAAUU
....(((((((((((((((...))))))...((((......)))).......))))))))).(((((..((......))..)))))-.......... ( -33.30)
>DroYak_CAF1 28122 89 - 1
AGCGGAUUGUGGCGAUUUAGCUUAGCUCAAAGUGCGCUUUUGGAC------GGCCGCAGUUCGGCUUUGGGCUUUCAUCUCAUGGU-GACCCAAA-U
..(((((((((((..(((((...(((.(.....).))).))))).------.)))))))))))..((((((...(((((....)))-))))))))-. ( -32.40)
>consensus
AGCGGAUUGUGGCGAUUUAGCCUAGAUCAAAGUCCGCUUUUGGCAGGAUGUGGCCUCAGUUCGGCCAGGGGCUUUGAUCUGAUGGU_CACCCAAAUG
..........(((......)))(((((((((((((......(((........)))((.....))....)))))))))))))................ (-19.98 = -20.74 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:28:53 2006