Locus 6845

Sequence ID 3L_DroMel_CAF1
Location 18,360,886 – 18,360,981
Length 95
Max. P 0.998853
window11101 window11102

overview

Window 1

Location 18,360,886 – 18,360,981
Length 95
Sequences 4
Columns 107
Reading direction forward
Mean pairwise identity 76.14
Mean single sequence MFE -24.05
Consensus MFE -14.95
Energy contribution -15.95
Covariance contribution 1.00
Combinations/Pair 1.23
Mean z-score -2.33
Structure conservation index 0.62
SVM decision value 2.02
SVM RNA-class probability 0.985854
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18360886 95 + 23771897
---UUUGGUUUGGGAAUUUGCCAGUGGACCCUUUUUUUUGGGUCUUCAUUAAUUUCUGCACGAGUAUCCGCAGAAUCGGAC---------UAUUUGUGUUCCUUCCU
---...((...((((........(.((((((........)))))).)..........(((((((((((((......)))).---------))))))))))))).)). ( -29.80)
>DroSec_CAF1 144929 90 + 1
---UUUGGUUUGGGAAUUUGCCAGUGGACCCUUU-UUUUGGGUCUUCAUUAAAUUCUGCACGAGCAUCCGCAGAAUUGGCC---------UGUUUGUGUUU----CU
---...((..((.((((..(((.(.((((((...-....)))))).)....((((((((..........))))))))))).---------.)))).))..)----). ( -27.00)
>DroSim_CAF1 155932 90 + 1
---UUUGGUUUGAGAAUUUGCCAGUGGACCCUUU-UUUUGGGUCUUCAUUAAAUUCUGCACGAGCAUCCGCAGAAUUGGCC---------UGUUUGUGUUU----CU
---.........((((((((.....((((((...-....))))))....))))))))(((((((((.(((......)))..---------)))))))))..----.. ( -26.70)
>DroAna_CAF1 141446 97 + 1
UUCUUUUGUCUG-CAGAUUGCCUUUCGAUCCUUC-UUU---GUCUUCAUUUAAUUCUGAAGGAGCAUCCGGAGA-UCGUCCCCACUUUAUUGUUUUUAUUU----GU
...(((((..((-(.(((((.....)))))....-...---.((((((........)))))).)))..))))).-..........................----.. ( -12.70)
>consensus
___UUUGGUUUGGGAAUUUGCCAGUGGACCCUUU_UUUUGGGUCUUCAUUAAAUUCUGCACGAGCAUCCGCAGAAUCGGCC_________UGUUUGUGUUU____CU
............((((((((.....((((((........))))))....))))))))(((((((((.(((......)))...........)))))))))........ (-14.95 = -15.95 +   1.00)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 2

Location 18,360,886 – 18,360,981
Length 95
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 76.14
Mean single sequence MFE -21.23
Consensus MFE -12.85
Energy contribution -14.85
Covariance contribution 2.00
Combinations/Pair 1.06
Mean z-score -2.87
Structure conservation index 0.61
SVM decision value 3.25
SVM RNA-class probability 0.998853
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18360886 95 - 23771897
AGGAAGGAACACAAAUA---------GUCCGAUUCUGCGGAUACUCGUGCAGAAAUUAAUGAAGACCCAAAAAAAAGGGUCCACUGGCAAAUUCCCAAACCAAA---
.((..((((......((---------((....((((((((.....).))))))).........(((((........))))).)))).....))))....))...--- ( -21.80)
>DroSec_CAF1 144929 90 - 1
AG----AAACACAAACA---------GGCCAAUUCUGCGGAUGCUCGUGCAGAAUUUAAUGAAGACCCAAAA-AAAGGGUCCACUGGCAAAUUCCCAAACCAAA---
..----...........---------.(((((((((((((.....).))))))))).......(((((....-...)))))....)))................--- ( -22.30)
>DroSim_CAF1 155932 90 - 1
AG----AAACACAAACA---------GGCCAAUUCUGCGGAUGCUCGUGCAGAAUUUAAUGAAGACCCAAAA-AAAGGGUCCACUGGCAAAUUCUCAAACCAAA---
..----...........---------.(((((((((((((.....).))))))))).......(((((....-...)))))....)))................--- ( -22.30)
>DroAna_CAF1 141446 97 - 1
AC----AAAUAAAAACAAUAAAGUGGGGACGA-UCUCCGGAUGCUCCUUCAGAAUUAAAUGAAGAC---AAA-GAAGGAUCGAAAGGCAAUCUG-CAGACAAAAGAA
..----..................((((....-.))))(..(((..(((((........)))))..---..(-((..(.((....)))..))))-))..)....... ( -18.50)
>consensus
AG____AAACACAAACA_________GGCCAAUUCUGCGGAUGCUCGUGCAGAAUUUAAUGAAGACCCAAAA_AAAGGGUCCACUGGCAAAUUCCCAAACCAAA___
...........................((((((((((((........))))))))).......(((((........)))))....)))................... (-12.85 = -14.85 +   2.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:09 2006