Locus 7086

Sequence ID 3L_DroMel_CAF1
Location 19,145,001 – 19,145,222
Length 221
Max. P 0.641300
window11495 window11496

overview

Window 5

Location 19,145,001 – 19,145,119
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.19
Mean single sequence MFE -32.18
Consensus MFE -25.80
Energy contribution -25.83
Covariance contribution 0.03
Combinations/Pair 1.18
Mean z-score -2.34
Structure conservation index 0.80
SVM decision value 0.22
SVM RNA-class probability 0.638123
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19145001 118 + 23771897
-AACAGGACGUAGAAAAGGAGUCUCGACUCCUGA-GGUUCUGCGCUUUGAAAAUUACUUUCUGUUUAGACAAUAUUAUGGAUCGCUUAAUGCCAUCCACCGUUAACAAAUUGUUUACCCA
-..(((..(((((((.((((((....))))))..-..)))))))..))).............(..((((((((....(((((.((.....)).)))))..(....)..))))))))..). ( -33.10)
>DroSec_CAF1 7900 118 + 1
-AAAAGGACGUAGAAAAGGAGUCUCGACUCCUGA-GGUUCUGCGCUUUGAAAAUUACUUUCUGUUUAGACAAUAUUAUGGAUCGCUUAAUGCCAUCCACCGUUGACAAAUUGUUUACCCA
-..((((.(((((((.((((((....))))))..-..)))))))))))((((.....)))).(..((((((((....(((((.((.....)).)))))..(....)..))))))))..). ( -33.20)
>DroAna_CAF1 1015 120 + 1
UGCCAGGACACAGGAAGGAUUUCUAAACAGCUGAAGGUUGAGCGCUUUAGAAAUUACUUUCUGUUUAGACAAUAUUAUGGAUCGUUUAAUGCCAUCCACUGUUGACAAAUUGUUUACCCA
.....((..((((((((((((((((((..(((........)))..)))))))))).)))))))).((((((((....(((((.((.....)).))))).((....)).)))))))).)). ( -32.70)
>DroSim_CAF1 7553 118 + 1
-AACAGGACGUAGAAAAGGAGUCUCGACUCCUGA-GGUUCUGCGCUUUGAAAAUUACUUUCUGUUUAGACAAUAUUAUGGAUCGCUUAAUGCCAUCCACCGUUGACAAAUUGUUUACCCA
-..(((..(((((((.((((((....))))))..-..)))))))..))).............(..((((((((....(((((.((.....)).)))))..(....)..))))))))..). ( -33.10)
>DroEre_CAF1 8321 118 + 1
-AGCAGGACGUAGAAAAGGAGUUUCGACUCCUGA-GGUUCUGCGCUUUGAAAAUUACUUUCUGUUUAGACAAUAUUAUGGAUCGCUUAAUGCCAUCCACCGUUGACAAAUUGUUUACCCA
-.(((((((.(.....((((((....)))))).)-.))))))).....((((.....)))).(..((((((((....(((((.((.....)).)))))..(....)..))))))))..). ( -32.30)
>DroYak_CAF1 8349 118 + 1
-AGCAGGACGUAGAAAAGGAGUUUCGACUCCUGA-GGUUCUGCGCUUUGAAAAUUACUUUCUGUUUAGACAACAUUAUGGAUCGCUUAAUGCCAUCUACCGUUGACAAAUUGUUUACCCA
-.(((((((.(.....((((((....)))))).)-.))))))).....((((.....)))).(..(((((((.....(((((.((.....)).)))))..(....)...)))))))..). ( -28.70)
>consensus
_AACAGGACGUAGAAAAGGAGUCUCGACUCCUGA_GGUUCUGCGCUUUGAAAAUUACUUUCUGUUUAGACAAUAUUAUGGAUCGCUUAAUGCCAUCCACCGUUGACAAAUUGUUUACCCA
....(((.(((((((.((((((....)))))).....))))))))))...............(..((((((((....(((((.((.....)).)))))..(....)..))))))))..). (-25.80 = -25.83 +   0.03)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,145,119 – 19,145,222
Length 103
Sequences 5
Columns 103
Reading direction reverse
Mean pairwise identity 91.30
Mean single sequence MFE -31.00
Consensus MFE -24.82
Energy contribution -25.14
Covariance contribution 0.32
Combinations/Pair 1.12
Mean z-score -1.48
Structure conservation index 0.80
SVM decision value 0.22
SVM RNA-class probability 0.641300
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19145119 103 - 23771897
UGAUUGACAGUGGUUAACGGGGGACGGGUUCAAAAGUUGAUUGAACCUCGGCGACAGUUUCUGCUUUUUGGAGGCGAGGUUCCCUCAAUCGAUUCCGGAAAAA
.((((((..((.....)).((((((.(((((((.......)))))))(((.(..(((..........)))..).))).))))))))))))............. ( -29.60)
>DroSec_CAF1 8018 100 - 1
UGAUUGACAGUGAAUAACGGGGGUCGGGUUUAAAAGUUGAUUGAACCUCGGCGACAGUUUCUGCU---UGGAGGCGAGGUUCCCUCAAUCGAUUCCGGAAAAA
.................(.(((((((.........(((((..((((((((.(..((((....)).---))..).))))))))..)))))))))))).)..... ( -31.80)
>DroSim_CAF1 7671 100 - 1
UGAUUGACAGUGGAUAACAGGGGUCGGGUUCAAAAGUUUAUUGAACCUCGGCGACAGUUUCUGCU---UGCAGGCGAGGCUCCCACAAUCGAUUCCGGAAAAA
.((((((..((((......(..(((((((((((.......))))))).))))..)((((((.(((---....))))))))).))))..))))))......... ( -31.90)
>DroEre_CAF1 8439 100 - 1
UGAUUGACAAAGGAAAACGGGGGUCGUGCUCAAAAGUUGAUUGAACCUUGGCGACAGUUUCUGCU---UGGAGGCGAGGUUCCCUCAAUCGAUUCCGGAAAAA
.................(.(((((((.........(((((..((((((((.(..((((....)).---))..).))))))))..)))))))))))).)..... ( -29.70)
>DroYak_CAF1 8467 100 - 1
UGAUUGACAGAGGAAAAUGGGGGUCGGGUUCAAAAGUUGAUUGAACCUCGGCGACAGUUUCAGCU---UGGAGGCGAGGUUUCCUCAAUCGAUUCCGGAAAAA
.((((((..(((((((...(..(((((((((((.......))))))).))))..).(((((....---..)))))....)))))))..))))))......... ( -32.00)
>consensus
UGAUUGACAGUGGAUAACGGGGGUCGGGUUCAAAAGUUGAUUGAACCUCGGCGACAGUUUCUGCU___UGGAGGCGAGGUUCCCUCAAUCGAUUCCGGAAAAA
.................(.(((((((.........(((((..((((((((.(..((((....))....))..).))))))))..)))))))))))).)..... (-24.82 = -25.14 +   0.32)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:28 2006