Locus 954

Sequence ID 3L_DroMel_CAF1
Location 2,849,288 – 2,849,389
Length 101
Max. P 0.970572
window1465

overview

Window 5

Location 2,849,288 – 2,849,389
Length 101
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 69.53
Mean single sequence MFE -28.27
Consensus MFE -12.04
Energy contribution -12.92
Covariance contribution 0.88
Combinations/Pair 1.14
Mean z-score -2.16
Structure conservation index 0.43
SVM decision value 1.66
SVM RNA-class probability 0.970572
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2849288 101 - 23771897
AUGGAGAGCGUGGGCCACUUGCCAAGGUGGCUCAUGCACUGUGCAAAAA-ACUUGGUUCCUAA-GAGA---AAAACUCAUAUCAGUAUUAUAUGAUAAAUUGCAAA
....((.(((((((((((((....))))))))))))).)).(((((...-.(((((...))))-)...---........(((((........)))))..))))).. ( -33.70)
>DroSim_CAF1 84827 97 - 1
AUGGAGAGCGUGGG-CACUUGCCAAGGUGGC-CAUGCACUGUGCUAAAA-ACUUGGUCCCUAA-GAGA---AAAACUC--AUGAGUUUGAUAUAGAAAAAUUCGAA
...(((.((((((.-(((((....))))).)-)))))............-.(((((...))))-)...---....)))--.(((((((.........))))))).. ( -26.80)
>DroEre_CAF1 97560 102 - 1
AUGGAGAGCGUGGG-CACUUGCCAAGGUGGCUCAUGCACUGUGCCGAAA-UCUUGGUCCUUACAGAGAGGUAAAACUC--UUCAGUAUGAUGUGGAGAAAUGCCAA
.......(((((((-(((((....)))).)))))))).(((((((((..-..)))))....))))...((((...(((--(.((......)).))))...)))).. ( -32.30)
>DroYak_CAF1 99019 100 - 1
AUGGAGAGCGUGGG-CACUUGCCAAGGUGGCUCAUGCACUGUGCUUAAA-ACUUGGUCCUUAAGGAGAAAUCAAAUUC--UUCAGCUGGCUAUGG--AAUUGCCAC
.(((((((((((((-(((((....)))).))))))))............-......(((....)))..........))--))))..((((.....--....)))). ( -28.90)
>DroAna_CAF1 83350 86 - 1
CCACGGAGAAAGAG-CACUUGUCAAGGUGGAAGGUGCACUGAGAGAAAAGACUUC------AA-UAU------AACAC--A----UUUUCUCUUAAAAAAUUCGAG
...((((......(-(((((..(.....)..))))))..((((((((((......------..-...------.....--.----)))))))))).....)))).. ( -19.63)
>consensus
AUGGAGAGCGUGGG_CACUUGCCAAGGUGGCUCAUGCACUGUGCUAAAA_ACUUGGUCCCUAA_GAGA___AAAACUC__AUCAGUUUGAUAUGGAAAAAUGCCAA
....((.(((((((.(((((....))))).))))))).)).................................................................. (-12.04 = -12.92 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:14 2006