Locus 2791

Sequence ID 3L_DroMel_CAF1
Location 7,916,998 – 7,917,090
Length 92
Max. P 0.998232
window4356 window4357

overview

Window 6

Location 7,916,998 – 7,917,090
Length 92
Sequences 5
Columns 99
Reading direction forward
Mean pairwise identity 69.21
Mean single sequence MFE -13.54
Consensus MFE -7.57
Energy contribution -8.01
Covariance contribution 0.44
Combinations/Pair 1.12
Mean z-score -2.53
Structure conservation index 0.56
SVM decision value 3.04
SVM RNA-class probability 0.998232
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7916998 92 + 23771897
UUAUGUGGCCGCAAACAAGACCAA-GA-AAAGGUAAGGCAAAUAGGCCGAAAAUGA--AAAUGAAAAAU---AUUCAAAAAUAUCCGUAUAUUUUAUAA
((((.(((((.........(((..-..-...)))..........)))))...))))--...((((....---.))))(((((((....))))))).... ( -13.91)
>DroSec_CAF1 16213 85 + 1
UUAUGUGGCCGCAAACAAGACCAA-AAAAAAGGUAAGGCAAAUAGGCCGAAAAUGA--AA------AAA---AUA--UAUAUAUCCGUAUAUUUUAUAA
((((.(((((.........(((..-......)))..........)))))...))))--..------(((---(((--(((......))))))))).... ( -16.71)
>DroEre_CAF1 16369 86 + 1
UUAUGUGGCCGAAGGCAAGACCAA-AA-AAAGGUAAGGUAAAUAGGCCGAAAAUGA--------A--AAGAAAUA-AAUAAAACUCAUAUAUUUUAUAA
((((.(((((....((...(((..-..-...)))...)).....)))))...))))--------.--........-.((((((........)))))).. ( -15.00)
>DroYak_CAF1 16333 97 + 1
UUAUGUGGCCACAAACAAGACCAGGAA-AAAGGUAAAGUAAAUAGGCCGAAAGUGACAAAAUGAAAAAUGAAAAA-AAAAAGAAUCGUAUAUUUUAUAA
((((.(((((....((...(((.....-...)))...)).....)))))...))))....((((((.((((....-........))))...)))))).. ( -12.00)
>DroAna_CAF1 15179 72 + 1
UUAUGUGGCGGUAAACAAACCCAA-GA-AAAGGUAAAGUAAAUAAACCAAAAAC-------UGGAAAAU---AUUUC---------------UAUAUAU
.(((((((..(((.....(((...-..-...)))............(((.....-------)))....)---))..)---------------)))))). ( -10.10)
>consensus
UUAUGUGGCCGCAAACAAGACCAA_AA_AAAGGUAAGGUAAAUAGGCCGAAAAUGA__AA_UG_AAAAU___AUA_AAAAAUAUCCGUAUAUUUUAUAA
.....(((((.........(((.........)))..........))))).................................................. ( -7.57 =  -8.01 +   0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,916,998 – 7,917,090
Length 92
Sequences 5
Columns 99
Reading direction reverse
Mean pairwise identity 69.21
Mean single sequence MFE -11.58
Consensus MFE -7.92
Energy contribution -8.20
Covariance contribution 0.28
Combinations/Pair 1.22
Mean z-score -1.62
Structure conservation index 0.68
SVM decision value 1.56
SVM RNA-class probability 0.964259
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7916998 92 - 23771897
UUAUAAAAUAUACGGAUAUUUUUGAAU---AUUUUUCAUUU--UCAUUUUCGGCCUAUUUGCCUUACCUUU-UC-UUGGUCUUGUUUGCGGCCACAUAA
....(((((((.((((....)))).))---)))))......--........((((.....((...(((...-..-..)))...))....))))...... ( -14.10)
>DroSec_CAF1 16213 85 - 1
UUAUAAAAUAUACGGAUAUAUA--UAU---UUU------UU--UCAUUUUCGGCCUAUUUGCCUUACCUUUUUU-UUGGUCUUGUUUGCGGCCACAUAA
....((((((((........))--)))---)))------..--........((((.....((...(((......-..)))...))....))))...... ( -12.60)
>DroEre_CAF1 16369 86 - 1
UUAUAAAAUAUAUGAGUUUUAUU-UAUUUCUU--U--------UCAUUUUCGGCCUAUUUACCUUACCUUU-UU-UUGGUCUUGCCUUCGGCCACAUAA
..(((((((......))))))).-........--.--------........((((..........(((...-..-..))).........))))...... ( -10.61)
>DroYak_CAF1 16333 97 - 1
UUAUAAAAUAUACGAUUCUUUUU-UUUUUCAUUUUUCAUUUUGUCACUUUCGGCCUAUUUACUUUACCUUU-UUCCUGGUCUUGUUUGUGGCCACAUAA
.......................-...........................((((.((..((...(((...-.....)))...))..))))))...... ( -12.70)
>DroAna_CAF1 15179 72 - 1
AUAUAUA---------------GAAAU---AUUUUCCA-------GUUUUUGGUUUAUUUACUUUACCUUU-UC-UUGGGUUUGUUUACCGCCACAUAA
.......---------------.....---........-------.....((((......((...((((..-..-..))))..)).....))))..... (  -7.90)
>consensus
UUAUAAAAUAUACGAAUAUUUUU_UAU___AUUUU_CA_UU__UCAUUUUCGGCCUAUUUACCUUACCUUU_UU_UUGGUCUUGUUUGCGGCCACAUAA
...................................................((((.....((...(((.........)))...))....))))...... ( -7.92 =  -8.20 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:45 2006