Locus 1872

Sequence ID 3L_DroMel_CAF1
Location 5,237,826 – 5,238,043
Length 217
Max. P 0.902898
window2916 window2917

overview

Window 6

Location 5,237,826 – 5,237,932
Length 106
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 83.19
Mean single sequence MFE -29.87
Consensus MFE -17.96
Energy contribution -18.52
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -1.86
Structure conservation index 0.60
SVM decision value 0.02
SVM RNA-class probability 0.542613
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5237826 106 + 23771897
--GUGUGUGU------AUUUGUGAGAGUGUGU------AUGUGGGAUGCAGUCACACUGACAGUCAAUGCAGUGCGACAAGUCACAAAUGUGCAUAUCAAUGGAUGUGUCAAAAACGUUG
--(((((..(------((((((((.....(((------((.....)))))(((.(((((.((.....))))))).)))...)))))))))..))))).....(((((.......))))). ( -34.90)
>DroEre_CAF1 105251 106 + 1
AU--AUGUGU------GUAUGCGAGAGUGUGU------AUGUGGGAUGCAGUCACAUUGACAGUCAAUGCAGUGCGACAAGUCACAAAUGUGCAUAUCAAUGGAUGUGUCAAAAACGUUG
..--.(((((------((((.(.(.(......------.).).).)))))(((.(((((.((.....))))))).)))....))))((((((((((((....))))))).....))))). ( -25.90)
>DroYak_CAF1 104798 111 + 1
-U--AUGUAUUUAAAAGUAUAUAUGUGUGUGU------GUGUGGGAUGCAGUCACAUUGACAGUCAAUGCAGUGCGACAAGUCACAAAUGUGCAUAUCAAUGGAUGUGUCAAAAACGUUG
-(--(((((((....)))))))).(((((..(------((.((.(((...(((.(((((.((.....))))))).)))..))).)).)))..))))).....(((((.......))))). ( -25.90)
>DroAna_CAF1 99841 112 + 1
--AUAUCUGU------AUAUGUGUCCGCUUGUAUCCUUGUGUGCGUUGCAUUCACAUUGACUGUCAAUGCAGUGCGACAAGUCACAAAUGUGCAUAUCAAUGGAUGUGUCAAAAACGUUG
--((((((((------..(((((..((.((((...(((((.(((((((((((.(((.....))).))))))))))))))))..)))).))..)))))..))))))))............. ( -32.80)
>consensus
____AUGUGU______AUAUGUGAGAGUGUGU______AUGUGGGAUGCAGUCACAUUGACAGUCAAUGCAGUGCGACAAGUCACAAAUGUGCAUAUCAAUGGAUGUGUCAAAAACGUUG
.......................................(((((......(((.(((((.((.....))))))).)))...)))))((((((((((((....))))))).....))))). (-17.96 = -18.52 +   0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 5,237,932 – 5,238,043
Length 111
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 76.92
Mean single sequence MFE -33.15
Consensus MFE -15.81
Energy contribution -21.19
Covariance contribution 5.38
Combinations/Pair 1.09
Mean z-score -2.14
Structure conservation index 0.48
SVM decision value 1.03
SVM RNA-class probability 0.902898
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5237932 111 - 23771897
GAGUUAGUCGGAGUGGAUUUCGACCCUCCUCCUCGUCCACAACAUUUUGCAGAUCCCUUCGAUGUGGCUGCAGCUUCUUCGAGGAAUGCGAAAUGUAUUAUUAACUCUCGG
((((((((....((((((...((......))...)))))).((((((((((..(((..((((...(((....)))...))))))).))))))))))...)))))))).... ( -37.70)
>DroSec_CAF1 102340 108 - 1
GAGUUAGUCGGAGUGGAUUUCGUCCCU---CCUCGUCCACAACAUUUUGCAGAUCCCUCCGAUGUGGCUGCAGCUUCUUCGAGGAAUGCGAAAUGUAUUAUUAACUCUCGG
((((((((.((((.((((...))))))---)).........((((((((((....((((.((...(((....)))...))))))..))))))))))...)))))))).... ( -38.70)
>DroSim_CAF1 98415 108 - 1
GAGUUAGUCGGAGUGGAUUUCGUCCCU---CCUCGUCCACAACAUUUUGCAGAUCCCUCCGAUGUGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
......(((((((.((((((((.....---.................)).)))))))))))))................................................ ( -16.45)
>DroEre_CAF1 105357 108 - 1
GAGUUAGUCGGAGUGGAUUUUGCCCCU---CCUCGCUCGCAACAUUUUGCAGAUACCACCGAUGUGGCUGCAGCUUCUUCGAGGAAUGCGAAAUGUAUUAUUAACUCUCGG
((((((((...((((.(((((((...(---(((((...((.......(((((...((((....))))))))))).....))))))..))))))).)))))))))))).... ( -34.21)
>DroYak_CAF1 104909 108 - 1
GAGUUAGUCGGAGUGGAUUUUGCCCCA---CCUCGUCCGCAACAUUUUGCAGAUCCCUUCGAAGGGUUUGCAGCUUCUUCGAGGAAUGCGAAAUGUAUUAUUAACUCUCGG
((((((((((..((((........)))---)..))......((((((((((..(((..(((((((((.....)).)))))))))).))))))))))...)))))))).... ( -38.70)
>consensus
GAGUUAGUCGGAGUGGAUUUCGCCCCU___CCUCGUCCACAACAUUUUGCAGAUCCCUCCGAUGUGGCUGCAGCUUCUUCGAGGAAUGCGAAAUGUAUUAUUAACUCUCGG
((((((((....((((((................)))))).((((((((((....(((.(((.(.(((....))).).))))))..))))))))))...)))))))).... (-15.81 = -21.19 +   5.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:47 2006