Locus 2512

Sequence ID	2R_DroMel_CAF1
Location	8,948,582 – 8,948,734
Length	152
Max. P	0.842161

overview

Window 6

Location	8,948,582 – 8,948,701
Length	119
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	92.15
Mean single sequence MFE	-38.90
Consensus MFE	-37.28
Energy contribution	-36.70
Covariance contribution	-0.58
Combinations/Pair	1.12
Mean z-score	-1.07
Structure conservation index	0.96
SVM decision value	0.66
SVM RNA-class probability	0.813331
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8948582 119 + 20766785
GGCCGAGCGGUCUAAGGCGCCAGACUCAAGAUUGA-AAAUCUUACUUUCUGAACGAAAGUGUUUGUGAAUGAGCGUUCUGGUCCUCUUUGAGGGCGUGGGUUCGAAUCCCACUUCUGACA
....(((((.((.....(((.((((..(((((...-..)))))((((((.....)))))))))))))...)).)))))..((((((...))))))(((((.......)))))........ ( -36.40)
>DroPse_CAF1 14125 113 + 1
GGCCGAGCGGUCUAAGGCGCCAGACUCAAGGUGUUGAAAUCUUGCUUUCUGAACGGAAGUGU-------UGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACA
.((((((.((.(((..((((((((..((((((......))))))...)))).((....))..-------...))))..))).)).)))....)))(((((.......)))))........ ( -40.60)
>DroSec_CAF1 23440 114 + 1
GGCCGAGCGGUCUAAGGCGCCAGACUCAAGAUUGA-AAUUCUUACUUUCCGAACGAAAGUGUU-----AUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACA
.((((((.((.(((..(((((((((..((((....-...))))((((((.....)))))))))-----.)).))))..))).)).)))....)))(((((.......)))))........ ( -36.70)
>DroEre_CAF1 22889 113 + 1
GGCCGAGCGGUCUAAGGCGCCAGACUCAAGAUGAU-AAAUCUUACUUUCUGAACGAAAGUGU------AUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACA
.((((((.((.(((..((((((.((..(((((...-..)))))((((((.....))))))))------.)).))))..))).)).)))....)))(((((.......)))))........ ( -39.10)
>DroAna_CAF1 18714 115 + 1
GGCCGAGCGGUCUAAGGCGCCAGACUCAAGAUAUA-GAAUCUUGCUUUCUGAACGAAAGUGC----GAGUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACA
.((((((.((.(((..((((...(((((((((...-..)))))((((((.....))))))..----))))..))))..))).)).)))....)))(((((.......)))))........ ( -40.90)
>DroPer_CAF1 14215 113 + 1
GGCCGAGCGGUCUAAGGCGCCAGACUCAAGGUAUUGAAAUCUUGCUUUCUGAACGAAAGUGU-------UGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACA
.((((((.((.(((..((((((((..((((((......))))))...)))).((....))..-------...))))..))).)).)))....)))(((((.......)))))........ ( -39.70)
>consensus
GGCCGAGCGGUCUAAGGCGCCAGACUCAAGAUAUA_AAAUCUUACUUUCUGAACGAAAGUGU______AUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACA
.((((((.((.(((..((((((.....(((((......)))))((((((.....)))))).........)).))))..))).)).)))....)))(((((.......)))))........ (-37.28 = -36.70 +  -0.58)

alignment

secondary structure

dotplot

Window 7

Location	8,948,621 – 8,948,734
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.78
Mean single sequence MFE	-29.62
Consensus MFE	-21.89
Energy contribution	-21.67
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-1.84
Structure conservation index	0.74
SVM decision value	0.75
SVM RNA-class probability	0.842161
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8948621 113 + 20766785
CUUACUUUCUGAACGAAAGUGUUUGUGAAUGAGCGUUCUGGUCCUCUUUGAGGGCGUGGGUUCGAAUCCCACUUCUGACAAAUAUUUUUUUAAGCCCA---CAGAAAUUAG---CAAUG-
..(((((((.....)))))))...........((.(((((((((((...))))))(((((.......)))))..........................---)))))....)---)....- ( -29.60)
>DroSec_CAF1 23479 108 + 1
CUUACUUUCCGAACGAAAGUGUU-----AUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACAAAUAUUUUUUGCAGCCCA---AAAAAAAGAA---CGUUG-
..(((((((.....)))))))..-----...((((((((.((((((...))))))(((((.......)))))..(((.((((.....)))))))....---......))))---)))).- ( -33.80)
>DroEre_CAF1 22928 103 + 1
CUUACUUUCUGAACGAAAGUGU------AUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACAAAUAUUUUUUGCAUAUUUA--AAGAAUAUUA---------
..(((((((.....))))))).------......(((...((((((...))))))(((((.......)))))....))).(((((((((((......))--))))))))).--------- ( -27.40)
>DroYak_CAF1 18578 102 + 1
CUUACUUUCUGAACGAAAGUGU------AUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACAAAUAUUUUUUGCAUCCCC---AAGAAUAUAA---------
..(((((((.....))))))).------......(((((.((((((...))))))(((((.......)))))...((.((((.....)))))).....---.)))))....--------- ( -25.50)
>DroAna_CAF1 18753 94 + 1
CUUGCUUUCUGAACGAAAGUGC----GAGUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACAAAUCUUUUUCUCG-----------AAA----------UC-
...((((((.....)))))).(----(((.(((.(((.((((((((...))))))(((((.......)))))......))))))))...))))-----------...----------..- ( -26.80)
>DroPer_CAF1 14255 113 + 1
CUUGCUUUCUGAACGAAAGUGU-------UGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACAAAUAUUUUUUGCUUCUUUUGUCAGAAUGUAAUAACUUUCG
.............(((((((..-------...(((((((.((((((...))))))(((((.......)))))....((((((..............)))))))))))))....))))))) ( -34.64)
>consensus
CUUACUUUCUGAACGAAAGUGU______AUGAGCGUUCUGGUCCUCUCUGAGGGCGUGGGUUCGAAUCCCACUUCUGACAAAUAUUUUUUGCAUCCCA___AAGAAAAUAA______U__
..(((((((.....))))))).............(((...((((((...))))))(((((.......)))))....)))......................................... (-21.89 = -21.67 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:57 2006