Locus 5922

Sequence ID 3L_DroMel_CAF1
Location 15,908,100 – 15,908,220
Length 120
Max. P 0.893236
window9455 window9456

overview

Window 5

Location 15,908,100 – 15,908,220
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 77.06
Mean single sequence MFE -32.05
Consensus MFE -15.50
Energy contribution -14.83
Covariance contribution -0.66
Combinations/Pair 1.12
Mean z-score -2.68
Structure conservation index 0.48
SVM decision value 0.05
SVM RNA-class probability 0.561091
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15908100 120 + 23771897
CGAAAACUCAAAAAUCGCCCAGACCACAGCCCCCCUCCCCUCCAAAAAAAAGGGGGGUCGAGUGAUGGGGGGCCUUUGGUUUUCGGCACAUUGCCAAAUAAUAUUUUUCUAUAAUAUUUG
.((((((.((((..((.((((...(((.((((((((..............))))))))...))).)))).))..))))))))))(((.....)))(((((.(((......))).))))). ( -40.94)
>DroEre_CAF1 7687 98 + 1
A-AAAACGCACCAGU-----------------UCCUCCACCCCCAA--AAAAGGGGGCCGAGUGAUGGG-GGUCUUUGAUUUUCGGCACAUUGCCAAAUAAUAAU-GUCUAUUAUAUUUG
(-((.((.(.(((.(-----------------..(((..(((((..--....)))))..)))..)))))-.)).))).......(((.....)))..((((((..-...))))))..... ( -25.80)
>DroYak_CAF1 7667 100 + 1
C-AAAACUCACCAAU-----------------GCCUCCGCCCCAAAAAAAAAGGGGGCCGAGUGAUGGG-GGCCUUUGGUUUUCGGCACAUUGCCAAAUAAUAUU-UUCUAUAAUAUUUG
.-.......(((((.-----------------(((((((((((..........)))))..(....))))-)))..)))))....(((.....)))(((((.(((.-....))).))))). ( -29.40)
>consensus
C_AAAACUCACCAAU_________________CCCUCCACCCCAAAAAAAAAGGGGGCCGAGUGAUGGG_GGCCUUUGGUUUUCGGCACAUUGCCAAAUAAUAUU_UUCUAUAAUAUUUG
..................................(((..((((..........))))..))).....((.((((...)))).))(((.....)))......................... (-15.50 = -14.83 +  -0.66)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 15,908,100 – 15,908,220
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 77.06
Mean single sequence MFE -35.60
Consensus MFE -17.94
Energy contribution -18.50
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -2.93
Structure conservation index 0.50
SVM decision value 0.98
SVM RNA-class probability 0.893236
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15908100 120 - 23771897
CAAAUAUUAUAGAAAAAUAUUAUUUGGCAAUGUGCCGAAAACCAAAGGCCCCCCAUCACUCGACCCCCCUUUUUUUUGGAGGGGAGGGGGGCUGUGGUCUGGGCGAUUUUUGAGUUUUCG
.(((((.(((......))).)))))(((.....)))(((((((((((((((...(((((..(.((((((((((((....))))))))))))).)))))..))))...))))).)))))). ( -44.20)
>DroEre_CAF1 7687 98 - 1
CAAAUAUAAUAGAC-AUUAUUAUUUGGCAAUGUGCCGAAAAUCAAAGACC-CCCAUCACUCGGCCCCCUUUU--UUGGGGGUGGAGGA-----------------ACUGGUGCGUUUU-U
..............-.......((((((.....))))))....(((((((-.(((((.(((.((((((....--..)))))).)))))-----------------..))).).)))))-) ( -33.10)
>DroYak_CAF1 7667 100 - 1
CAAAUAUUAUAGAA-AAUAUUAUUUGGCAAUGUGCCGAAAACCAAAGGCC-CCCAUCACUCGGCCCCCUUUUUUUUUGGGGCGGAGGC-----------------AUUGGUGAGUUUU-G
..((((((......-)))))).((((((.....)))))).....(((((.-((((...(((.(((((..........))))).)))..-----------------..))).).)))))-. ( -29.50)
>consensus
CAAAUAUUAUAGAA_AAUAUUAUUUGGCAAUGUGCCGAAAACCAAAGGCC_CCCAUCACUCGGCCCCCUUUUUUUUUGGGGCGGAGGA_________________AUUGGUGAGUUUU_G
......................((((((.....))))))...................(((.(((((..........))))).))).................................. (-17.94 = -18.50 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:08 2006