Locus 5259

Sequence ID	X_DroMel_CAF1
Location	13,740,822 – 13,740,925
Length	103
Max. P	0.975492

overview

Window 8

Location	13,740,822 – 13,740,925
Length	103
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	96.50
Mean single sequence MFE	-26.02
Consensus MFE	-22.34
Energy contribution	-22.62
Covariance contribution	0.28
Combinations/Pair	1.08
Mean z-score	-1.62
Structure conservation index	0.86
SVM decision value	0.83
SVM RNA-class probability	0.860868
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13740822 103 + 22224390
CUUGGCAAGUUCAAAGUGGCAAACGCUUUUGGCCAGCUGCUCUCUGCAGCUCCCACUUUAAAUGCUGACCCACGCCCACUACCCAAAAUGAAAAUGCGAAAAA
.((.(((..((((((((((.....((.....)).((((((.....)))))).)))))))....((........))..............)))..))).))... ( -24.90)
>DroSec_CAF1 51827 103 + 1
CUUGGCAGGUUCAAAGUGGCAAACGCUUUUGGCCAGCUGCUCUCUGCAGCUCCCACUUUAAAAGCUGACCCACGCCCACUCCCCAAAAUGAAAAUGGGAAAAA
...(((.(((..((((((.....))))))..)))((((((.....))))))......................))).....((((.........))))..... ( -29.60)
>DroSim_CAF1 57652 103 + 1
CUUGGCAAGUUCAAAGUGGCAAACGCUUUUGGCCAGCUGCUCUCUGCAGCUCCCACUUUAAAAGCUGACCCACGCCCACUCCCCAAAAUGAAAAUGGGAAAAA
..(((..((((.(((((((.....((.....)).((((((.....)))))).)))))))...))))...))).........((((.........))))..... ( -26.50)
>DroEre_CAF1 51947 102 + 1
CUUGGCAAGUUCAAAGUGGCAAACGCUUUUGGCCAGCUGCUCUCUGCAGCUCCCACUUUAAAAGCUGACCCACGCCCACUCCCCGAAAUGAAAAUGGGAAA-A
..(((..((((.(((((((.....((.....)).((((((.....)))))).)))))))...))))...))).......((((....((....))))))..-. ( -26.20)
>DroYak_CAF1 58792 102 + 1
CUUGGCAAGUUCAAAGUGGCAAACGCUUUUGGCCAUCUGCUCUCUGGAGCUCCCACU-UAAAAGCUGACCCACGCCCACUCCCCAAAAUGAAAAUGGGAAAAA
.((((..(((.....((((.....((((((((......((((....))))......)-)))))))....))))....)))..))))................. ( -22.90)
>consensus
CUUGGCAAGUUCAAAGUGGCAAACGCUUUUGGCCAGCUGCUCUCUGCAGCUCCCACUUUAAAAGCUGACCCACGCCCACUCCCCAAAAUGAAAAUGGGAAAAA
.((((..(((.....((((.....((((((((..((((((.....)))))).))).....)))))....))))....)))..))))................. (-22.34 = -22.62 +   0.28)

alignment

secondary structure

dotplot

Window 9

Location	13,740,822 – 13,740,925
Length	103
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	96.50
Mean single sequence MFE	-35.46
Consensus MFE	-31.16
Energy contribution	-32.00
Covariance contribution	0.84
Combinations/Pair	1.03
Mean z-score	-1.87
Structure conservation index	0.88
SVM decision value	1.75
SVM RNA-class probability	0.975492
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13740822 103 - 22224390
UUUUUCGCAUUUUCAUUUUGGGUAGUGGGCGUGGGUCAGCAUUUAAAGUGGGAGCUGCAGAGAGCAGCUGGCCAAAAGCGUUUGCCACUUUGAACUUGCCAAG
......(((..((((....((((.(..(((((.((((..(((.....)))..((((((.....))))))))))....)))))..).))))))))..))).... ( -33.70)
>DroSec_CAF1 51827 103 - 1
UUUUUCCCAUUUUCAUUUUGGGGAGUGGGCGUGGGUCAGCUUUUAAAGUGGGAGCUGCAGAGAGCAGCUGGCCAAAAGCGUUUGCCACUUUGAACCUGCCAAG
.....((((((..(......)..))))))....((.(((..((((((((((.((((((.....)))))).((.....)).....)))))))))).)))))... ( -38.20)
>DroSim_CAF1 57652 103 - 1
UUUUUCCCAUUUUCAUUUUGGGGAGUGGGCGUGGGUCAGCUUUUAAAGUGGGAGCUGCAGAGAGCAGCUGGCCAAAAGCGUUUGCCACUUUGAACUUGCCAAG
.....((((((..(......)..))))))....(((.((..((((((((((.((((((.....)))))).((.....)).....)))))))))))).)))... ( -37.00)
>DroEre_CAF1 51947 102 - 1
U-UUUCCCAUUUUCAUUUCGGGGAGUGGGCGUGGGUCAGCUUUUAAAGUGGGAGCUGCAGAGAGCAGCUGGCCAAAAGCGUUUGCCACUUUGAACUUGCCAAG
.-...((((((..(......)..))))))....(((.((..((((((((((.((((((.....)))))).((.....)).....)))))))))))).)))... ( -37.00)
>DroYak_CAF1 58792 102 - 1
UUUUUCCCAUUUUCAUUUUGGGGAGUGGGCGUGGGUCAGCUUUUA-AGUGGGAGCUCCAGAGAGCAGAUGGCCAAAAGCGUUUGCCACUUUGAACUUGCCAAG
.....((((((..(......)..)))))).(..(((.(((((((.-...))))))).(((((.(((((((........)))))))..))))).)))..).... ( -31.40)
>consensus
UUUUUCCCAUUUUCAUUUUGGGGAGUGGGCGUGGGUCAGCUUUUAAAGUGGGAGCUGCAGAGAGCAGCUGGCCAAAAGCGUUUGCCACUUUGAACUUGCCAAG
.....(((((((((......)))))))))....((.(((..((((((((((.((((((.....)))))).((.....)).....)))))))))).)))))... (-31.16 = -32.00 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:27 2006