Locus 5575

Sequence ID	3L_DroMel_CAF1
Location	15,289,333 – 15,289,431
Length	98
Max. P	0.995575

overview

Window 7

Location	15,289,333 – 15,289,431
Length	98
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	70.41
Mean single sequence MFE	-23.24
Consensus MFE	-16.08
Energy contribution	-16.89
Covariance contribution	0.81
Combinations/Pair	1.40
Mean z-score	-1.70
Structure conservation index	0.69
SVM decision value	1.79
SVM RNA-class probability	0.977223
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15289333 98 + 23771897
UUGUCCUCACUCAAGUAAUCUUUUUUCCGACCAUUUGUUUGGGCAGUUGUCUCUGCCGUUUGCCAAAAGUUCUGCCCAAACAUAACCGGAGGACCAGA
..((((((((....))...........((......(((((((((((........((.....))........)))))))))))....)))))))).... ( -28.29)
>DroSim_CAF1 21157 98 + 1
UUGUCCUCACUCAAGUAAUCUUUUUUCCGACCAUUUGUUUGGGCAGUUGUCUCUGCCGUUUGCCAAAAGUUCUGCCCAAACAUAACCGGAGGACCAGA
..((((((((....))...........((......(((((((((((........((.....))........)))))))))))....)))))))).... ( -28.29)
>DroEre_CAF1 21103 98 + 1
UUGUCCUCACACAAGUAAUCUUUUUUCCGACCAUUUGUUUGGGCAGUUGUCUCUGCCGUUUGCCAAAAGUUCUGCCCAAACACAACCGGAGGACCAGA
..((((((....(((....))).............(((((((((((........((.....))........)))))))))))......)))))).... ( -27.99)
>DroWil_CAF1 18321 79 + 1
UGGCUUUUCUCUCUACUAUCGUUAUAUGGUUUUCUUAUUUCUUUUAUUUUCCUCUUGGCUCUAGGCCCAGAAAAACGAG-------------------
..................(((((....((.....................))(((.(((.....))).)))..))))).------------------- (  -9.80)
>DroYak_CAF1 18337 98 + 1
UUGUCCCCACUCAAGUAAUCUUUUUUCCGACCAUUUGUUUGGACAGUUGUCUCUGCCGUUUGCCAAAAGUUCUGCCCAAACAUAACCGGAGGACCAGA
..((((..((....)).........((((......(((((((.(((........((.....))........))).)))))))....)))))))).... ( -20.59)
>DroAna_CAF1 19835 98 + 1
UUGUCCCCACUCAAGUAAUCUUUUUUUCGGGCAUUUGUUUGGGCAGUUGUCUCUGCCGUUUGCCAAAAGUUCUGCUCAAACAUCACCAGAGGAGGCAA
.((((.((((....))............((.....(((((((((((........((.....))........)))))))))))...))...)).)))). ( -24.49)
>consensus
UUGUCCUCACUCAAGUAAUCUUUUUUCCGACCAUUUGUUUGGGCAGUUGUCUCUGCCGUUUGCCAAAAGUUCUGCCCAAACAUAACCGGAGGACCAGA
......................(((((((......(((((((((((........((.....))........)))))))))))....)))))))..... (-16.08 = -16.89 +   0.81)

alignment

secondary structure

dotplot

Window 8

Location	15,289,333 – 15,289,431
Length	98
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	70.41
Mean single sequence MFE	-30.78
Consensus MFE	-20.74
Energy contribution	-22.75
Covariance contribution	2.01
Combinations/Pair	1.35
Mean z-score	-3.23
Structure conservation index	0.67
SVM decision value	2.59
SVM RNA-class probability	0.995575
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15289333 98 - 23771897
UCUGGUCCUCCGGUUAUGUUUGGGCAGAACUUUUGGCAAACGGCAGAGACAACUGCCCAAACAAAUGGUCGGAAAAAAGAUUACUUGAGUGAGGACAA
....((((((((..(((((((((((((...(((((.(....).)))))....)))))))))))..))..)))).......((((....)))))))).. ( -37.00)
>DroSim_CAF1 21157 98 - 1
UCUGGUCCUCCGGUUAUGUUUGGGCAGAACUUUUGGCAAACGGCAGAGACAACUGCCCAAACAAAUGGUCGGAAAAAAGAUUACUUGAGUGAGGACAA
....((((((((..(((((((((((((...(((((.(....).)))))....)))))))))))..))..)))).......((((....)))))))).. ( -37.00)
>DroEre_CAF1 21103 98 - 1
UCUGGUCCUCCGGUUGUGUUUGGGCAGAACUUUUGGCAAACGGCAGAGACAACUGCCCAAACAAAUGGUCGGAAAAAAGAUUACUUGUGUGAGGACAA
....((((((((..(.(((((((((((...(((((.(....).)))))....)))))))))))...)..)))).......((((....)))))))).. ( -37.10)
>DroWil_CAF1 18321 79 - 1
-------------------CUCGUUUUUCUGGGCCUAGAGCCAAGAGGAAAAUAAAAGAAAUAAGAAAACCAUAUAACGAUAGUAGAGAGAAAAGCCA
-------------------(((.(((((((.(((.....))).)))))))..........................((....)).))).......... ( -11.50)
>DroYak_CAF1 18337 98 - 1
UCUGGUCCUCCGGUUAUGUUUGGGCAGAACUUUUGGCAAACGGCAGAGACAACUGUCCAAACAAAUGGUCGGAAAAAAGAUUACUUGAGUGGGGACAA
....((((.(((.((((((((((((((...(((((.(....).)))))....)))))))))))..(((((........)))))..))).))))))).. ( -33.90)
>DroAna_CAF1 19835 98 - 1
UUGCCUCCUCUGGUGAUGUUUGAGCAGAACUUUUGGCAAACGGCAGAGACAACUGCCCAAACAAAUGCCCGAAAAAAAGAUUACUUGAGUGGGGACAA
.(((((((((.(((((((((((..((((...)))).)))))(((((......)))))......................)))))).))).)))).)). ( -28.20)
>consensus
UCUGGUCCUCCGGUUAUGUUUGGGCAGAACUUUUGGCAAACGGCAGAGACAACUGCCCAAACAAAUGGUCGGAAAAAAGAUUACUUGAGUGAGGACAA
....(((((((((..((((((((((((...(((((.(....).)))))....)))))))))))..)..))))).......((((....)))))))).. (-20.74 = -22.75 +   2.01)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:47 2006