Locus 5313

Sequence ID 3L_DroMel_CAF1
Location 14,674,243 – 14,674,382
Length 139
Max. P 0.722296
window8398 window8399

overview

Window 8

Location 14,674,243 – 14,674,342
Length 99
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 89.05
Mean single sequence MFE -16.60
Consensus MFE -12.56
Energy contribution -13.36
Covariance contribution 0.80
Combinations/Pair 1.00
Mean z-score -1.63
Structure conservation index 0.76
SVM decision value 0.18
SVM RNA-class probability 0.620050
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14674243 99 + 23771897
CAUAUAUACAAAUAAGCUGUCUCAAAGCAAAAGCCAAACAAAAAAGUGAUUUGUUGUCAUAUGCAAAGUCAAAUCUUUUUCGUUGGCUUCCAUCAAACA
...............(((.......)))..(((((((...((((((((((((((........)).))))))...))))))..))))))).......... ( -18.30)
>DroSec_CAF1 24072 97 + 1
--UAUAAACGAAUAAGCUGUCUUAAAGCAAAAGCCAAACAAAAAAGUGAUUUGUUGUCAUAUGCAAAGCCAAAUCUUUUUCGUUGGCUUUCAUUGAAUA
--......(((....(((.......))).((((((((....(((((.((((((((((.....))))...)))))))))))..))))))))..))).... ( -18.60)
>DroSim_CAF1 24894 97 + 1
--UAUAUACGAAUAAGCUGUCUUAAAGCAAAAGCCAAACAAAAAAGUGAUUUGUUGUCAUAUGCAAAGCCAAAUCUUUUUCGUUGGCUUUCAUUAAACA
--.............(((.......))).((((((((....(((((.((((((((((.....))))...)))))))))))..))))))))......... ( -18.30)
>DroEre_CAF1 24500 96 + 1
--UAUAUCAGAAUAAGCUGUCUUAAAGCAAAAGCCAAAUAAAAAA-CCAUUUGUUGUCAUAUGCAAAGCAAAAUCUUUUUUGUUGACUUCCAUUAAAAA
--................(((.....(((.......((((((...-...))))))......)))..(((((((....))))))))))............ ( -10.12)
>DroYak_CAF1 24867 94 + 1
--UAUAUACGAAUAAGCUGUCUUAAAACAAAAGCCAAA--AAAAA-ACAUUUGUUGUUAUAUGCAAAGCCAAAUCUUUUUUGUUGGCUUGCAUUAAACA
--.............(((((......))).(((((((.--(((((-(.(((((((((.....))))...))))).)))))).)))))))))........ ( -17.70)
>consensus
__UAUAUACGAAUAAGCUGUCUUAAAGCAAAAGCCAAACAAAAAAGUGAUUUGUUGUCAUAUGCAAAGCCAAAUCUUUUUCGUUGGCUUCCAUUAAACA
...............(((.......)))..(((((((...((((((...(((((........))))).......))))))..))))))).......... (-12.56 = -13.36 +   0.80)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,674,262 – 14,674,382
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 75.87
Mean single sequence MFE -22.54
Consensus MFE -13.29
Energy contribution -14.25
Covariance contribution 0.96
Combinations/Pair 1.14
Mean z-score -1.73
Structure conservation index 0.59
SVM decision value 0.40
SVM RNA-class probability 0.722296
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14674262 120 - 23771897
UAAUUCAGUUCGACUUUUGCAGCAUAAAAUCUGGAAAAAAUGUUUGAUGGAAGCCAACGAAAAAGAUUUGACUUUGCAUAUGACAACAAAUCACUUUUUUGUUUGGCUUUUGCUUUGAGA
...(((((..(...((((.(((........))).))))..........((((((((((((((((((((((...((((....).)))))))))..))))))).))))))))))..))))). ( -24.60)
>DroSec_CAF1 24089 93 - 1
UAAUCC--------------------------G-AAAAAAUAUUCAAUGAAAGCCAACGAAAAAGAUUUGGCUUUGCAUAUGACAACAAAUCACUUUUUUGUUUGGCUUUUGCUUUAAGA
......--------------------------(-((......)))...((((((((((((((((((((((................))))))..))))))).)))))))))......... ( -19.69)
>DroSim_CAF1 24911 94 - 1
UAAUCC--------------------------GGAAAAAAUGUUUAAUGAAAGCCAACGAAAAAGAUUUGGCUUUGCAUAUGACAACAAAUCACUUUUUUGUUUGGCUUUUGCUUUAAGA
......--------------------------..........(((((.((((((((((((((((((((((................))))))..))))))).)))))))))...))))). ( -19.89)
>DroEre_CAF1 24517 119 - 1
UAACUCAGUUUGACUUCUGCGUCAUAAAAUAGCAAAAAAAUUUUUAAUGGAAGUCAACAAAAAAGAUUUUGCUUUGCAUAUGACAACAAAUGG-UUUUUUAUUUGGCUUUUGCUUUAAGA
.............(((..((((((((....(((((((...(((((..((........)))))))..))))))).....))))))..(((((((-....)))))))......))...))). ( -20.50)
>DroYak_CAF1 24884 117 - 1
UAAUUCAGUUCGGCUUUUGCUGCCUAAAAAAACAAAAAAAUGUUUAAUGCAAGCCAACAAAAAAGAUUUGGCUUUGCAUAUAACAACAAAUGU-UUUUU--UUUGGCUUUUGUUUUAAGA
(((..(((...(((....)))(((.(((((((((......((((..(((((((((((..........))))).))))))..)))).....)))-)))))--)..)))..)))..)))... ( -28.00)
>consensus
UAAUUCAGUU_G_CUU_UGC__C_UAAAA___GAAAAAAAUGUUUAAUGAAAGCCAACGAAAAAGAUUUGGCUUUGCAUAUGACAACAAAUCACUUUUUUGUUUGGCUUUUGCUUUAAGA
................................................((((((((((((((((((((((................))))))..))))))).)))))))))......... (-13.29 = -14.25 +   0.96)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:47:02 2006