Locus 4843

Sequence ID 3L_DroMel_CAF1
Location 13,578,241 – 13,578,334
Length 93
Max. P 0.500000
window7639

overview

Window 9

Location 13,578,241 – 13,578,334
Length 93
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.50
Mean single sequence MFE -26.25
Consensus MFE -15.56
Energy contribution -15.48
Covariance contribution -0.08
Combinations/Pair 1.25
Mean z-score -1.41
Structure conservation index 0.59
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13578241 93 + 23771897
-GAC--AAGGU-----AAA-AAUAGUGCAGCAUACU--------------U--UGCGGCGCCUGCUGUUGUACAUAUGAAAUGGCAUAGUUCAACUGGCUGUUAACAGUUGCGGC--CAA
-...--.....-----...-....((((.(((....--------------.--))).)))).....((((.((.((((......)))))).))))(((((((........)))))--)). ( -25.50)
>DroVir_CAF1 82750 105 + 1
-GACUAAAGGUGCAGGUAAAAAUAGUGCAGCGCAC--------------ACACACAAGCACACACACCUAUACAUGCGAAAUGGCAUAGUUCAACUGGCUGUUAACAGUUGCGGCGCCAA
-.......(((((..((((.......(((((((..--------------........)).....((.....((((((......)))).)).....)))))))......)))).))))).. ( -24.82)
>DroGri_CAF1 80195 118 + 1
-GACCAAAGGUACACGAAA-AAUAGUGCAGCAUGCUGGCCAUUCUACAUACAUACAUAUAUGUAUAUACAUACAUAUGAAAUGGCAUAGUUCAACUGGCUCUUAACAGCUGCGGCGCCAA
-.(((...)))........-....((((.(((.((((((((((....(((((((....)))))))...(((....))).)))))).(((.....)))........))))))).))))... ( -28.50)
>DroEre_CAF1 61151 93 + 1
-GAC--AAGGU-----AAA-AAUAGUGCAGCAUACU--------------U--UGCGGCGCCUGCUGUUGUACAUAUGAAAUGGCAUAGUUCAACUGGCUGUUAACAGUUGCGGC--CAA
-...--.....-----...-....((((.(((....--------------.--))).)))).....((((.((.((((......)))))).))))(((((((........)))))--)). ( -25.50)
>DroYak_CAF1 62601 93 + 1
-GAC--AAGGU-----AAA-AAUAGUGCAGCAUACU--------------U--UGCGGCGCCUGCUGUUGUACAUAUGAAAUGGCAUAGUUCAACUGGCUGUUAACAGUUGCGGC--CAA
-...--.....-----...-....((((.(((....--------------.--))).)))).....((((.((.((((......)))))).))))(((((((........)))))--)). ( -25.50)
>DroPer_CAF1 67847 94 + 1
GUAC--AAGGU-----AAA-AAUAGUGCAGCAUACU--------------U--UGCGGCGCCUGCUGUUGUACAUAUGAAAUGGCAUAGUUCAACUGGCUGUUAACAGUUGCGGC--CAA
((((--(((((-----(..-....((((.(((....--------------.--))).)))).)))).))))))........((((......((((((........))))))..))--)). ( -27.70)
>consensus
_GAC__AAGGU_____AAA_AAUAGUGCAGCAUACU______________U__UGCGGCGCCUGCUGUUGUACAUAUGAAAUGGCAUAGUUCAACUGGCUGUUAACAGUUGCGGC__CAA
.........................((((((.......................(((((....)))))...........((((((.(((.....)))))))))....))))))....... (-15.56 = -15.48 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:34:57 2006