Locus 2865

Sequence ID	3L_DroMel_CAF1
Location	8,195,306 – 8,195,402
Length	96
Max. P	0.759131

overview

Window 6

Location	8,195,306 – 8,195,402
Length	96
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	78.69
Mean single sequence MFE	-26.43
Consensus MFE	-16.74
Energy contribution	-17.52
Covariance contribution	0.78
Combinations/Pair	1.15
Mean z-score	-1.44
Structure conservation index	0.63
SVM decision value	0.19
SVM RNA-class probability	0.628114
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8195306 96 + 23771897
AUCCAUUGCGCUGCUGAAAUCGCGUAAUUGGCAUUUUUAAGCAAAAUUCACGCUUCAACACUUUUUCAAGUGUGAGCCUGGCGCAGCA---GGAGC-----AUC-------------
......(((.((((((....)((((....((((((((.....)))))((((((((.((......)).)))))))))))..))))))))---)..))-----)..------------- ( -27.50)
>DroSim_CAF1 20870 96 + 1
AUCCAUUGCGCUGCUGAAAUCGCGUAAUUGGCAUUUUUAAGCAAAAUUCACGCUUCAACACUUUUUCAAGUGUGAGCCUGGCGCAGCA---GGAGC-----AUC-------------
......(((.((((((....)((((....((((((((.....)))))((((((((.((......)).)))))))))))..))))))))---)..))-----)..------------- ( -27.50)
>DroEre_CAF1 26298 112 + 1
AUCCAUUGCGUGGCUGAAAUCGCGUAAUUGGCAUUUUUAAGCAAAAUUCACGCUUCAACACUUUUUCAAGUGUGAGCUGGGCGCAGCAGCAGGAGU-----GGCAGGAUUCGCAGGA
(((((((((((((......)))))))))((.(((((((..((.....((((((((.((......)).))))))))((((....)))).))))))))-----).))))))........ ( -33.60)
>DroWil_CAF1 24283 91 + 1
CUCCAUCGCCAUGUUAAAUUCGCGUAAUUGGCAUUUUUAAGCAAAAUUCACGCUUCAACACUUUUUCAAGUGUGAGUCUUGCCAA--------UGU-----CUG-------------
.......((((.((((........))))))))........((((.((((((((((.((......)).)))))))))).))))...--------...-----...------------- ( -21.20)
>DroYak_CAF1 23750 99 + 1
AUCCAUUGCGUUGCUGAAAUCGCGUAAUUGGCAUUUUUAAGCAAAAUUCACGCUUCAACACUUUUUCAAGUGUGAGCCUGGUGCAGCAGCAGGAGU-----ACC-------------
.(((.....(((((((..(((((((((((.((........))..)))).))))((((.(((((....)))))))))...))).))))))).)))..-----...------------- ( -24.70)
>DroAna_CAF1 22012 113 + 1
AUCCAUUGCAUUGCUGAAAUCGCGUAAUUGGCAUUUUUAAGCAAAAUUCACGCUUCAACACUUUUUCGAGCGUGAGACUUCCAGAGCA---GGAAUGAAACAUA-ACGUACGUAUUA
.(((..(((.(((((((((..((.......))..)))).)))))..(((((((((.((......)).))))))))).........)))---)))..........-............ ( -24.10)
>consensus
AUCCAUUGCGUUGCUGAAAUCGCGUAAUUGGCAUUUUUAAGCAAAAUUCACGCUUCAACACUUUUUCAAGUGUGAGCCUGGCGCAGCA___GGAGU_____AUC_____________
.(((..(((..((((((((..((.......))..)))).))))...(((((((((.((......)).))))))))).........)))...)))....................... (-16.74 = -17.52 +   0.78)

alignment

secondary structure

dotplot

Window 7

Location	8,195,306 – 8,195,402
Length	96
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	78.69
Mean single sequence MFE	-26.82
Consensus MFE	-17.92
Energy contribution	-18.83
Covariance contribution	0.92
Combinations/Pair	1.11
Mean z-score	-1.49
Structure conservation index	0.67
SVM decision value	0.50
SVM RNA-class probability	0.759131
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8195306 96 - 23771897
-------------GAU-----GCUCC---UGCUGCGCCAGGCUCACACUUGAAAAAGUGUUGAAGCGUGAAUUUUGCUUAAAAAUGCCAAUUACGCGAUUUCAGCAGCGCAAUGGAU
-------------...-----..(((---...(((((...((..((((((....))))))(((((((((((((..((........)).)))).)))).))))))).)))))..))). ( -30.00)
>DroSim_CAF1 20870 96 - 1
-------------GAU-----GCUCC---UGCUGCGCCAGGCUCACACUUGAAAAAGUGUUGAAGCGUGAAUUUUGCUUAAAAAUGCCAAUUACGCGAUUUCAGCAGCGCAAUGGAU
-------------...-----..(((---...(((((...((..((((((....))))))(((((((((((((..((........)).)))).)))).))))))).)))))..))). ( -30.00)
>DroEre_CAF1 26298 112 - 1
UCCUGCGAAUCCUGCC-----ACUCCUGCUGCUGCGCCCAGCUCACACUUGAAAAAGUGUUGAAGCGUGAAUUUUGCUUAAAAAUGCCAAUUACGCGAUUUCAGCCACGCAAUGGAU
(((((((......((.-----......)).(((((((...((((((((((....))))).)).)))((((..((.((........)).)))))))))....))))..))))..))). ( -27.40)
>DroWil_CAF1 24283 91 - 1
-------------CAG-----ACA--------UUGGCAAGACUCACACUUGAAAAAGUGUUGAAGCGUGAAUUUUGCUUAAAAAUGCCAAUUACGCGAAUUUAACAUGGCGAUGGAG
-------------...-----.((--------(((.((....((((((((....))))).))).((((((..((.((........)).))))))))..........)).)))))... ( -23.80)
>DroYak_CAF1 23750 99 - 1
-------------GGU-----ACUCCUGCUGCUGCACCAGGCUCACACUUGAAAAAGUGUUGAAGCGUGAAUUUUGCUUAAAAAUGCCAAUUACGCGAUUUCAGCAACGCAAUGGAU
-------------...-----..(((((((((((........((((((((....))))).))).((((((..((.((........)).)))))))).....)))))..)))..))). ( -26.30)
>DroAna_CAF1 22012 113 - 1
UAAUACGUACGU-UAUGUUUCAUUCC---UGCUCUGGAAGUCUCACGCUCGAAAAAGUGUUGAAGCGUGAAUUUUGCUUAAAAAUGCCAAUUACGCGAUUUCAGCAAUGCAAUGGAU
............-.....(((((((.---((((...(((((((((((((......)))).))).((((((..((.((........)).))))))))))))))))))..).)))))). ( -23.40)
>consensus
_____________GAU_____ACUCC___UGCUGCGCCAGGCUCACACUUGAAAAAGUGUUGAAGCGUGAAUUUUGCUUAAAAAUGCCAAUUACGCGAUUUCAGCAACGCAAUGGAU
.......................(((...(((..............((((....))))(((((((((((((((..((........)).)))).)))).)))))))...)))..))). (-17.92 = -18.83 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:42 2006