Locus 2545

Sequence ID 2L_DroMel_CAF1
Location 7,034,983 – 7,035,124
Length 141
Max. P 0.962689
window4068 window4069

overview

Window 8

Location 7,034,983 – 7,035,086
Length 103
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 80.50
Mean single sequence MFE -19.12
Consensus MFE -16.32
Energy contribution -16.52
Covariance contribution 0.19
Combinations/Pair 1.06
Mean z-score -2.65
Structure conservation index 0.85
SVM decision value 1.54
SVM RNA-class probability 0.962689
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7034983 103 + 22407834
---CUAU-A-UCC-AUAUUACUACCU----UUGCUAAAAAUUGGCAAUGAUCCCCA---AAUGAUCAUUGUUGACUUAAGCAUUUCUACUUUAUAUACUUGCAGAUGC--CAAA-AAUU
---....-.-...-((((........----.((((.....(..(((((((((....---...)))))))))..)....))))..........))))....((....))--....-.... ( -16.41)
>DroGri_CAF1 3876 107 + 1
UUA-UAU-U-ACUACUACUGCUCUA-----UUGCUAUAAAUUGGCAAUGAUCUGUAA--GACGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUAC--CAAAAAAUU
...-...-.-.......((((....-----.((((.(((.(..(((((((((.....--...)))))))))..).)))))))....(((.....)))...))))....--......... ( -22.30)
>DroWil_CAF1 6096 109 + 1
---CUAUUA-UCU-CUAUUAUCUACU----UUGCUCUAAAUUGGCAAUGAUCCCUCAACAAUGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUACCACAAA-AAUU
---......-...-....(((((...----.((((.(((.(..(((((((((..........)))))))))..).)))))))....(((.....))).....))))).......-.... ( -18.00)
>DroMoj_CAF1 3826 106 + 1
UUACUAU-U-ACU-CUAUUGCUAUA-----UUGCUGUAAAUUGGCAAUGAUCUGUAA--ACCGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUAC--CAAA-AAUU
.......-.-...-...((((((((-----(((((.(((.(..(((((((((.(...--.).)))))))))..).)))))))..........)))))...))))....--....-.... ( -20.50)
>DroAna_CAF1 3481 100 + 1
-----AU-ACUCU-CUAUUACCAACU-----UGCUAUAAAUUGGCAAUGAUCCCGC---CAUGGUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUUC--CAA--AAUU
-----..-.....-............-----((((.(((.(..(((((((((....---...)))))))))..).)))))))..........................--...--.... ( -17.30)
>DroPer_CAF1 4493 107 + 1
---CUAU-A-UCU-CUCUGUCUCUCUAUUAUGGCUAUAAAUUGGCAAUGAUCCCCC----AUGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUAC-ACAAA-AAUU
---....-.-...-.(((((....(......)(((.(((.(..(((((((((....----..)))))))))..).))))))...................)))))...-.....-.... ( -20.20)
>consensus
___CUAU_A_UCU_CUAUUACUAUCU____UUGCUAUAAAUUGGCAAUGAUCCCUA___AAUGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUAC__CAAA_AAUU
...............................((((.(((.(..(((((((((..........)))))))))..).)))))))..................................... (-16.32 = -16.52 +   0.19)

alignment

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secondary structure

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dotplot

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Window 9

Location 7,035,012 – 7,035,124
Length 112
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 91.34
Mean single sequence MFE -18.69
Consensus MFE -16.41
Energy contribution -16.43
Covariance contribution 0.03
Combinations/Pair 1.04
Mean z-score -1.80
Structure conservation index 0.88
SVM decision value 0.96
SVM RNA-class probability 0.890311
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7035012 112 + 22407834
AUUGGCAAUGAUCCCCA---AAUGAUCAUUGUUGACUUAAGCAUUUCUACUUUAUAUACUUGCAGAUGC--CAAA-AAUUUAACUAAUUUACUUUGAUUUGCUUUCUCUUAUUCAA--AA
.(..(((((((((....---...)))))))))..)...(((((..((..............((....))--...(-((((.....))))).....))..)))))............--.. ( -19.30)
>DroVir_CAF1 5129 116 + 1
AUUGGCAAUGAUCUGUGA--AGCGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUGUACUUGCAGAUAC--CAAAAAAUUUAACUAAUUUACUUUGAUUUGCUUUCUCUUAUUCAACUAA
.(..(((((((((.....--...)))))))))..).....((((.........))))....((((((..--....(((((.....)))))......)))))).................. ( -19.90)
>DroGri_CAF1 3907 114 + 1
AUUGGCAAUGAUCUGUAA--GACGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUAC--CAAAAAAUUUAACUAAUUUACUUUGAUUUGCUUUCUCUUAUUCAA--AA
.(..(((((((((.....--...)))))))))..)..........................((((((..--....(((((.....)))))......))))))..............--.. ( -19.30)
>DroWil_CAF1 6126 117 + 1
AUUGGCAAUGAUCCCUCAACAAUGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUACCACAAA-AAUUUAACUAAUUUACUUUGAUUUGCUUUCUCUUAUUCAA--AA
.(..(((((((((..........)))))))))..)..........................((((((.......(-((((.....)))))......))))))..............--.. ( -17.22)
>DroMoj_CAF1 3857 111 + 1
AUUGGCAAUGAUCUGUAA--ACCGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUAC--CAAA-AAUUUAACUAAUUUACUUUGAUUUGCUUUCUCUUAUUCAA----
.(..(((((((((.(...--.).)))))))))..)..........................((((((..--...(-((((.....)))))......))))))..............---- ( -19.00)
>DroAna_CAF1 3508 111 + 1
AUUGGCAAUGAUCCCGC---CAUGGUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUUC--CAA--AAUUUAACUAAUUUACUUUGAUUUGCUUUCUCUUAUUCAA--AA
.(..(((((((((....---...)))))))))..)..........................(((((((.--..(--((((.....))))).....)))))))..............--.. ( -17.40)
>consensus
AUUGGCAAUGAUCCCUAA__AACGAUCAUUGUUGACUUAAGCAUUUCUAUUUUAUAUACUUGCAGAUAC__CAAA_AAUUUAACUAAUUUACUUUGAUUUGCUUUCUCUUAUUCAA__AA
.(..(((((((((..........)))))))))..)..........................((((((....((((.((((.....))))...)))))))))).................. (-16.41 = -16.43 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:26 2006