Locus 5764

Sequence ID X_DroMel_CAF1
Location 14,954,453 – 14,954,594
Length 141
Max. P 0.918822
window9355 window9356

overview

Window 5

Location 14,954,453 – 14,954,555
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 68.19
Mean single sequence MFE -28.70
Consensus MFE -5.09
Energy contribution -4.17
Covariance contribution -0.92
Combinations/Pair 1.41
Mean z-score -2.41
Structure conservation index 0.18
SVM decision value 1.12
SVM RNA-class probability 0.918822
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14954453 102 + 22224390
-UGGCUGGCUGCUGUUAGUUGUUCGUUUUUAGCUAUU-----CACUUGUACAAUGUGGAUUUAG-------UU--GUUCGGUUAUGGACAUAC--AAGUACG-AGUGGUCAUGGCAGUAU
-......((((((((((((((........)))))).(-----(((((((((..((((.......-------.(--(((((....)))))))))--).)))))-)))))..)))))))).. ( -29.30)
>DroPse_CAF1 4655 113 + 1
GUGGUUCGUUGUUGUUUGGUGUUCAUUAUUUGUUCGUUUUAGAGCUUGUACAAUGUAUAGUAUGUAUGUACAUGAGUACACUUAUGUAUGUACAUAUGUACAAUGUGCGCAUA-------
..................((((.........((((......))))..(((((.((((((.((((((((((((((((....)))))))))))))))))))))).))))))))).------- ( -36.40)
>DroSim_CAF1 891 102 + 1
-UGGUUGGCUGCUGUUAGUUGUUCGUUUUUAGCUAUU-----CACUUGUACAAUGUGGAUUUAG-------UU--GUUUGGUUAUGGACAUAC--AAGUACG-AGUGGUCAUGGAUGUGU
-....((((..((..((.((((..(((..((((((..-----((((....(.....).....))-------.)--)..))))))..)))..))--)).))..-))..))))......... ( -23.20)
>DroYak_CAF1 874 103 + 1
-UGGUUGGCUGCUGUUAGUUGUUCGUUUUUAGCUAUU-----CACUUGUACAUUGUGGAUUUAG-------UU--GUUUGGUUAUGGACAUAC--AAGUACGGAGUGGUCAUGGAGGUAU
-....((((..((.(((.((((..(((..((((((..-----((((....(.....).....))-------.)--)..))))))..)))..))--)).)).).))..))))......... ( -22.80)
>DroPer_CAF1 4626 113 + 1
GUGGUUCGUUGUUGUUUGGUGUUCAUUAUUUGUUCGUUUUAGAGCUUGUACAAUGUAUAGUAUGUAUGUACAUGAGUACACUUAUGUAUGUCCAUAUGUACAAUGUGCGCAUA-------
..................((((.........((((......))))..(((((.((((((.((((.(((((((((((....))))))))))).)))))))))).))))))))).------- ( -31.80)
>consensus
_UGGUUGGCUGCUGUUAGUUGUUCGUUUUUAGCUAUU_____CACUUGUACAAUGUGGAUUUAG_______UU__GUUCGGUUAUGGACAUAC__AAGUACG_AGUGGUCAUGG__GU_U
..........................................(((((((((...(((..................(((((....))))).)))....))))).))))............. ( -5.09 =  -4.17 +  -0.92)

alignment

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secondary structure

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dotplot

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Window 6

Location 14,954,489 – 14,954,594
Length 105
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 68.23
Mean single sequence MFE -29.06
Consensus MFE -5.09
Energy contribution -4.17
Covariance contribution -0.92
Combinations/Pair 1.41
Mean z-score -1.94
Structure conservation index 0.18
SVM decision value 0.04
SVM RNA-class probability 0.554748
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14954489 105 + 22224390
--CACUUGUACAAUGUGGAUUUAG-------UU--GUUCGGUUAUGGACAUAC--AAGUACG-AGUGGUCAUGGCAGUAUUUUGUGGCAAUGUGUGUGCCCGCUGUU-GACUUCCUUGUU
--(((((((((..((((.......-------.(--(((((....)))))))))--).)))))-))))((((..(((((.....(.((((.......)))))))))))-)))......... ( -27.80)
>DroPse_CAF1 4695 105 + 1
AGAGCUUGUACAAUGUAUAGUAUGUAUGUACAUGAGUACACUUAUGUAUGUACAUAUGUACAAUGUGCGCAUA-------UUUCUGGUAAAGC--GU-----CUUUC-GACUUCCUCGUU
.(((((((((((.((((((.((((((((((((((((....)))))))))))))))))))))).))))).((..-------....))...))))--((-----(....-)))....))... ( -35.70)
>DroSim_CAF1 927 103 + 1
--CACUUGUACAAUGUGGAUUUAG-------UU--GUUUGGUUAUGGACAUAC--AAGUACG-AGUGGUCAUGGAUGUGUUUUGUGGCAAUGU--GUGCCCGCUGUC-GACUUCCUUGUU
--(((((((((..((((..((((.-------..--.........))))..)))--).)))))-))))..((.(((.((.....((((((....--.)).))))....-.)).))).)).. ( -23.70)
>DroYak_CAF1 910 105 + 1
--CACUUGUACAUUGUGGAUUUAG-------UU--GUUUGGUUAUGGACAUAC--AAGUACGGAGUGGUCAUGGAGGUAUUUUGUGGCAAUGU--GUGCUUGAUGUCGGACUUCCUUGUU
--.......(((....(((.....-------..--....((((...(((((.(--(((((((.(...((((..(((...)))..))))..).)--)))))))))))).))))))).))). ( -27.00)
>DroPer_CAF1 4666 105 + 1
AGAGCUUGUACAAUGUAUAGUAUGUAUGUACAUGAGUACACUUAUGUAUGUCCAUAUGUACAAUGUGCGCAUA-------UUUCUGGUAAAGC--GU-----CUUUC-GACUUCCUCGUU
.(((((((((((.((((((.((((.(((((((((((....))))))))))).)))))))))).))))).((..-------....))...))))--((-----(....-)))....))... ( -31.10)
>consensus
__CACUUGUACAAUGUGGAUUUAG_______UU__GUUCGGUUAUGGACAUAC__AAGUACG_AGUGGUCAUGG__GU_UUUUGUGGCAAUGU__GUGC__GCUGUC_GACUUCCUUGUU
..(((((((((...(((..................(((((....))))).)))....))))).))))..................................................... ( -5.09 =  -4.17 +  -0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:52 2006