Locus 4762

Sequence ID	3L_DroMel_CAF1
Location	13,375,008 – 13,375,122
Length	114
Max. P	0.520806

overview

Window 5

Location	13,375,008 – 13,375,122
Length	114
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.33
Mean single sequence MFE	-33.11
Consensus MFE	-21.60
Energy contribution	-21.49
Covariance contribution	-0.11
Combinations/Pair	1.24
Mean z-score	-1.44
Structure conservation index	0.65
SVM decision value	-0.03
SVM RNA-class probability	0.520806
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13375008 114 + 23771897
-----GGUCUUA-UUCAGUGCGGUUUUAUCUUGACUCACUGGAGACGAACACGUCCGUAUCGCUCGGUGCUUCGCACCUGACUGAAUCUUUGGUCGAUGGCUCAGUUCUAAAUUGAGCCA
-----.(((((.-..(((((.((((.......)))))))))))))).....((.(((..(((.(((((((...))))).)).))).....))).)).(((((((((.....))))))))) ( -38.00)
>DroPse_CAF1 23533 114 + 1
AUCUAAGUUU---UUUUGGGCAAUU---CUUUUACUCUCAGAAGACGAACACGUCCGUAUCGCUCGGUGCUUCGCACCUGACUGAAUCUUUGGCCGAUUGCUCGGUUCUAAAUUGAGCCA
..........---....((((((((---.........((((..((((....))))..........(((((...)))))...))))..........))))))))(((((......))))). ( -30.31)
>DroEre_CAF1 46789 96 + 1
-----GA-----------------UU--UCUUGGCUCACUGGAGACGAACACGUCCGUAUCGCUCGGUGCUUCGCACCUGACUGAAUCUUUGGUCGAUGGCUCAGUUCUAAAUUGAGCCA
-----..-----------------..--..(((((.((..(((((((....))))....(((.(((((((...))))).)).))).))).)))))))(((((((((.....))))))))) ( -30.60)
>DroYak_CAF1 48389 113 + 1
-----GGUUUUAGUUCAGUGCGGGUU--UCUUAACUCACUGGAGACGAACACGUCCGUAUCGCUCGGUGCUUCGCACCUGACUGAAUCUUUGGUCGAUGGCUCAGUUCUAAAUUGAGCCA
-----(..(..(((((((((((((((--....)))))....(.((((....))))).....))..(((((...)))))..)))))).))..)..)..(((((((((.....))))))))) ( -37.20)
>DroAna_CAF1 45836 105 + 1
-----------A-UUUUGUGCGGAU---UCUAGACUCGAAGGAGGCGAACACGUCCGUAUCGCUCGGUGCUUCGCACCUGACUGAAUCUUUGGCCGAUUGCUCGGUUCUAAAUUGAGCCA
-----------.-....((((((((---......(((....)))........)))))))).(((((((((...))))).............((((((....)))))).......)))).. ( -32.24)
>DroPer_CAF1 23588 114 + 1
AUCUAAGUUU---UUUUGGGCAAUU---CUUUUACUCUCAGAAGACGAACACGUCCGUAUCGCUCGGUGCUUCGCACCUGACUGAAUCUUUGGCCGAUUGCUCGGUUCUAAAUUGAGCCA
..........---....((((((((---.........((((..((((....))))..........(((((...)))))...))))..........))))))))(((((......))))). ( -30.31)
>consensus
_____GGUUU___UUUUGUGCGGUU___UCUUGACUCACAGGAGACGAACACGUCCGUAUCGCUCGGUGCUUCGCACCUGACUGAAUCUUUGGCCGAUGGCUCAGUUCUAAAUUGAGCCA
.............(((((((................)))))))((((....))))......(((((((((...))))).(((((((((.......)))...)))))).......)))).. (-21.60 = -21.49 +  -0.11)

alignment

secondary structure

dotplot

Window 6

Location	13,375,008 – 13,375,122
Length	114
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.33
Mean single sequence MFE	-30.67
Consensus MFE	-21.81
Energy contribution	-21.33
Covariance contribution	-0.47
Combinations/Pair	1.07
Mean z-score	-1.22
Structure conservation index	0.71
SVM decision value	-0.04
SVM RNA-class probability	0.515529
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13375008 114 - 23771897
UGGCUCAAUUUAGAACUGAGCCAUCGACCAAAGAUUCAGUCAGGUGCGAAGCACCGAGCGAUACGGACGUGUUCGUCUCCAGUGAGUCAAGAUAAAACCGCACUGAA-UAAGACC-----
(((((((.........)))))))..........(((((((..(((((...)))))(((((((((....))).))).)))..(((.((.........)))))))))))-)......----- ( -31.60)
>DroPse_CAF1 23533 114 - 1
UGGCUCAAUUUAGAACCGAGCAAUCGGCCAAAGAUUCAGUCAGGUGCGAAGCACCGAGCGAUACGGACGUGUUCGUCUUCUGAGAGUAAAAG---AAUUGCCCAAAA---AAACUUAGAU
(((((.(((((....((((....))))....))))).)))))(((((...)))))(.(((((..(((((....)))))(((.........))---)))))).)....---.......... ( -29.70)
>DroEre_CAF1 46789 96 - 1
UGGCUCAAUUUAGAACUGAGCCAUCGACCAAAGAUUCAGUCAGGUGCGAAGCACCGAGCGAUACGGACGUGUUCGUCUCCAGUGAGCCAAGA--AA-----------------UC-----
(((((((.....((.((((...(((.......))))))))).(((((...)))))(((((((((....))).))).)))...)))))))...--..-----------------..----- ( -30.50)
>DroYak_CAF1 48389 113 - 1
UGGCUCAAUUUAGAACUGAGCCAUCGACCAAAGAUUCAGUCAGGUGCGAAGCACCGAGCGAUACGGACGUGUUCGUCUCCAGUGAGUUAAGA--AACCCGCACUGAACUAAAACC-----
(((((((.........)))))))........((.((((((..(((((...)))))(((((((((....))).))).)))..(((.(((....--))).)))))))))))......----- ( -33.10)
>DroAna_CAF1 45836 105 - 1
UGGCUCAAUUUAGAACCGAGCAAUCGGCCAAAGAUUCAGUCAGGUGCGAAGCACCGAGCGAUACGGACGUGUUCGCCUCCUUCGAGUCUAGA---AUCCGCACAAAA-U-----------
((((...........((((....))))....((((((.....(((((...)))))(((((((((....))).))).)))....))))))...---....)).))...-.----------- ( -29.40)
>DroPer_CAF1 23588 114 - 1
UGGCUCAAUUUAGAACCGAGCAAUCGGCCAAAGAUUCAGUCAGGUGCGAAGCACCGAGCGAUACGGACGUGUUCGUCUUCUGAGAGUAAAAG---AAUUGCCCAAAA---AAACUUAGAU
(((((.(((((....((((....))))....))))).)))))(((((...)))))(.(((((..(((((....)))))(((.........))---)))))).)....---.......... ( -29.70)
>consensus
UGGCUCAAUUUAGAACCGAGCAAUCGACCAAAGAUUCAGUCAGGUGCGAAGCACCGAGCGAUACGGACGUGUUCGUCUCCAGUGAGUCAAGA___AACCGCACAAAA___AAACC_____
(((((.(((((.....(((....))).....))))).)))))(((((...)))))(((((((((....))).))).)))......................................... (-21.81 = -21.33 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:32:32 2006