Locus 5247

Sequence ID 2L_DroMel_CAF1
Location 14,799,284 – 14,799,400
Length 116
Max. P 0.713613
window8354 window8355

overview

Window 4

Location 14,799,284 – 14,799,400
Length 116
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 79.83
Mean single sequence MFE -25.52
Consensus MFE -14.11
Energy contribution -16.92
Covariance contribution 2.81
Combinations/Pair 1.04
Mean z-score -1.81
Structure conservation index 0.55
SVM decision value 0.01
SVM RNA-class probability 0.538049
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14799284 116 + 22407834
--UCUUUGUUAUCUCUCUGUUUUU-CCUUCAAUGGCUUUGUAAACAAAGCA-AAGUGCAAAUUUAUGUGGUGAACCACUUGAAAUCGAACAUUUUUUCCAUCAGAGGAGAUGCCCUGAAU
--...........((...((.(((-((((..(((((((((....))))))(-(((((...((((..((((....))))...))))....))))))...)))..))))))).))...)).. ( -28.50)
>DroGri_CAF1 50253 103 + 1
-----------UGCCUCUGUUU-----CUCGAGAGCUGUGCGCACAACACAAAAGUGCAAAUUGCUGUGGUAAACCACUUGAAAAAAAUAC-AAAUAAAACCACAAAAAAAUACUUGACU
-----------...........-----.((((((((..(((((...........)))))....)))((((....)))).............-.....................))))).. ( -17.90)
>DroSec_CAF1 45928 116 + 1
--UCUUUGUUAUCUCACUGUUUUU-CCCUCAAUGGCUUUGUAAACAAAGCA-AAGUGCAAAUUUAUGUGGUAAACCACUUGAAAUCGAAAAUUUUUUCCAUCAGAGGAGAUGCCCUGAAU
--...........(((..((...(-(((((.(((((((((....)))))).-.........((((.((((....)))).))))...............)))..)))).)).))..))).. ( -23.90)
>DroSim_CAF1 46488 116 + 1
--UCUUUGUUAUCUCUCUGUUUUU-CCUUCAAUGGCUUUGUAAACAAAGCA-AAGUGCAAAUUUAUGUGGUAAACCACUUGAAAUCGAACAUUUUUUCCAUCAGAGGAGAUGCCUUGAAU
--...........((...((.(((-((((..(((((((((....))))))(-(((((...((((..((((....))))...))))....))))))...)))..))))))).))...)).. ( -27.00)
>DroYak_CAF1 41849 116 + 1
--UCUUUGUUAUCUCUCUGUUUUU-CCUUCAAUGGCUUUGUAAACAAAGCA-AAGUGCAAAUUUAUGUGGUAAACCACUUGAAAUCGAACAUUUUUUCCAUCAGAGGAGAUGCCCUGAAU
--...........((...((.(((-((((..(((((((((....))))))(-(((((...((((..((((....))))...))))....))))))...)))..))))))).))...)).. ( -27.00)
>DroAna_CAF1 33901 118 + 1
UGUUUUUCUUAUUCAUCUGUUUGUGCGUUCGAUUGCUUUGUAAACAAAGCA-AAGUGCAAAUUUAUGUGGUAAACCUCUUGAAAUGGAACAUUC-AGCCAUCAGAGGAGCUGCCCUGAAU
.....(((.....(((..(((((..(......((((((((....)))))))-).)..)))))..))).((((..(((((.((..(((.......-..))))))))))...))))..))). ( -28.80)
>consensus
__UCUUUGUUAUCUCUCUGUUUUU_CCUUCAAUGGCUUUGUAAACAAAGCA_AAGUGCAAAUUUAUGUGGUAAACCACUUGAAAUCGAACAUUUUUUCCAUCAGAGGAGAUGCCCUGAAU
.........((((((((((...............((((((....))))))...........((((.((((....)))).))))..................)))).))))))........ (-14.11 = -16.92 +   2.81)

alignment

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secondary structure

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dotplot

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Window 5

Location 14,799,284 – 14,799,400
Length 116
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.83
Mean single sequence MFE -26.23
Consensus MFE -15.83
Energy contribution -16.20
Covariance contribution 0.37
Combinations/Pair 1.33
Mean z-score -1.81
Structure conservation index 0.60
SVM decision value 0.38
SVM RNA-class probability 0.713613
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14799284 116 - 22407834
AUUCAGGGCAUCUCCUCUGAUGGAAAAAAUGUUCGAUUUCAAGUGGUUCACCACAUAAAUUUGCACUU-UGCUUUGUUUACAAAGCCAUUGAAGG-AAAAACAGAGAGAUAACAAAGA--
......(..(((((.((((...(((......)))..((((((((((....))))..............-.((((((....))))))..)))))).-.....)))))))))..).....-- ( -27.20)
>DroGri_CAF1 50253 103 - 1
AGUCAAGUAUUUUUUUGUGGUUUUAUUU-GUAUUUUUUUCAAGUGGUUUACCACAGCAAUUUGCACUUUUGUGUUGUGCGCACAGCUCUCGAG-----AAACAGAGGCA-----------
.(((..(((..((.(((((((.((((((-(.........)))))))...))))))).))..))).(((..(.(((((....))))).)..)))-----.......))).----------- ( -25.70)
>DroSec_CAF1 45928 116 - 1
AUUCAGGGCAUCUCCUCUGAUGGAAAAAAUUUUCGAUUUCAAGUGGUUUACCACAUAAAUUUGCACUU-UGCUUUGUUUACAAAGCCAUUGAGGG-AAAAACAGUGAGAUAACAAAGA--
......(..(((((..(((...((((....))))..((((((((((....))))..............-.((((((....))))))..)))))).-.....))).)))))..).....-- ( -25.60)
>DroSim_CAF1 46488 116 - 1
AUUCAAGGCAUCUCCUCUGAUGGAAAAAAUGUUCGAUUUCAAGUGGUUUACCACAUAAAUUUGCACUU-UGCUUUGUUUACAAAGCCAUUGAAGG-AAAAACAGAGAGAUAACAAAGA--
......(..(((((.((((...(((......)))..((((((((((....))))..............-.((((((....))))))..)))))).-.....)))))))))..).....-- ( -27.40)
>DroYak_CAF1 41849 116 - 1
AUUCAGGGCAUCUCCUCUGAUGGAAAAAAUGUUCGAUUUCAAGUGGUUUACCACAUAAAUUUGCACUU-UGCUUUGUUUACAAAGCCAUUGAAGG-AAAAACAGAGAGAUAACAAAGA--
......(..(((((.((((...(((......)))..((((((((((....))))..............-.((((((....))))))..)))))).-.....)))))))))..).....-- ( -27.20)
>DroAna_CAF1 33901 118 - 1
AUUCAGGGCAGCUCCUCUGAUGGCU-GAAUGUUCCAUUUCAAGAGGUUUACCACAUAAAUUUGCACUU-UGCUUUGUUUACAAAGCAAUCGAACGCACAAACAGAUGAAUAAGAAAAACA
(((((((......((((((((((..-.......)))))...)))))....)).........(((...(-(((((((....))))))))......)))........))))).......... ( -24.30)
>consensus
AUUCAGGGCAUCUCCUCUGAUGGAAAAAAUGUUCGAUUUCAAGUGGUUUACCACAUAAAUUUGCACUU_UGCUUUGUUUACAAAGCCAUUGAAGG_AAAAACAGAGAGAUAACAAAGA__
.(((.((((((.(((......)))....))))))...(((((((((....))))................((((((....))))))..)))))............)))............ (-15.83 = -16.20 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:42 2006