Locus 651

Sequence ID 2R_DroMel_CAF1
Location 3,236,659 – 3,236,776
Length 117
Max. P 0.808498
window1154 window1155

overview

Window 4

Location 3,236,659 – 3,236,759
Length 100
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 79.03
Mean single sequence MFE -24.10
Consensus MFE -18.92
Energy contribution -18.73
Covariance contribution -0.19
Combinations/Pair 1.25
Mean z-score -0.91
Structure conservation index 0.79
SVM decision value -0.03
SVM RNA-class probability 0.517750
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3236659 100 - 20766785
UUUGUGACGCCAACUGUGACGUAGGAAUAUUGAGCUGAGUGGCGUCAUAGUUUGCGUGAAAUCUUGACAAACCCA-GCAAAUGAAUAUUUACAGCUCUGUG
..((((((((((...((...(((....)))...))....))))))))))((((((.((...............))-)))))).......((((....)))) ( -22.36)
>DroSec_CAF1 5809 100 - 1
UUUGUGACGCCAACUAUGACGUAGGAAUAUUGAGCAGAGUGGCGUCAUAGUUUGCGUGAAAUCUUCACAACCCCA-GCAAAUGAAUAUUUACAUCUCUGUG
..((((((((((.((.((...(((.....)))..)).))))))))))))((((((((((.....)))).......-))))))................... ( -23.81)
>DroSim_CAF1 9919 100 - 1
UUUGUGACGCCAACUGUGACGUAGGAAUAUUGAGCAGAGUGGCGUCAUAGUUUGCGUGAAAUCUUCACAACCCUA-GCAAAUGAAUAUUUACAGCUCUGUG
..((((((((((.((((...(((....)))...))))..))))))))))((((((((((.....)))).......-)))))).......((((....)))) ( -27.61)
>DroEre_CAF1 5545 99 - 1
-UUGUGACGCCAACUGUGACGUAGGAAUAUUAAGCACUGUGGCGUCAUAGUUUGCGUGAAAUCUUCACAACCGCCUG-AAAUGAAUACUUACAACUCUGUG
-((((((.((.(((((((((((.((...........))...))))))))))).))((((.....)))).........-..........))))))....... ( -24.60)
>DroYak_CAF1 5610 99 - 1
--UGUGACGCCAACUGUGACGUAGAAACAUUAAGCACUGUGGCGUCAUAGUUUGCGUGAAAUUUUCACAACCGCCUGCAAAUGAAUAUUUACAACUCUGUA
--(((((.((.(((((((((((....(((........))).))))))))))).))((((.....))))....................)))))........ ( -25.90)
>DroPer_CAF1 30781 81 - 1
UUUGUGACGACAGCAGUGACGAUGG---AUUGACCAUGUCGGCGUCACUGUUUGCAUGACAUCUCCUUCACCUUA---AGCUGAAUA--------------
.(..((.(((..(((((((((.(.(---((.......))).)))))))))))))))..).......((((.(...---.).))))..-------------- ( -20.30)
>consensus
UUUGUGACGCCAACUGUGACGUAGGAAUAUUGAGCAGAGUGGCGUCAUAGUUUGCGUGAAAUCUUCACAACCCCA_GCAAAUGAAUAUUUACAACUCUGUG
....(.((((.(((((((((((...................))))))))))).)))).).......................................... (-18.92 = -18.73 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 3,236,686 – 3,236,776
Length 90
Sequences 6
Columns 90
Reading direction reverse
Mean pairwise identity 80.71
Mean single sequence MFE -25.17
Consensus MFE -18.92
Energy contribution -18.73
Covariance contribution -0.19
Combinations/Pair 1.25
Mean z-score -1.68
Structure conservation index 0.75
SVM decision value 0.64
SVM RNA-class probability 0.808498
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3236686 90 - 20766785
CUUUGUGACCUUCUUCAUUUGUGACGCCAACUGUGACGUAGGAAUAUUGAGCUGAGUGGCGUCAUAGUUUGCGUGAAAUCUUGACAAACC
..............(((....(.((((.(((((((((((.((.........)).....))))))))))).)))).).....)))...... ( -22.50)
>DroSec_CAF1 5836 90 - 1
UUCGGUGACCUUCUUCAUUUGUGACGCCAACUAUGACGUAGGAAUAUUGAGCAGAGUGGCGUCAUAGUUUGCGUGAAAUCUUCACAACCC
...(((............(((((((((((.((.((...(((.....)))..)).))))))))))))).....((((.....)))).))). ( -24.10)
>DroSim_CAF1 9946 90 - 1
UUCGGUGACCUUCUUCAUUUGUGACGCCAACUGUGACGUAGGAAUAUUGAGCAGAGUGGCGUCAUAGUUUGCGUGAAAUCUUCACAACCC
...(((............(((((((((((.((((...(((....)))...))))..))))))))))).....((((.....)))).))). ( -27.30)
>DroEre_CAF1 5572 88 - 1
UUUUGUGACCUUCUUC--UUGUGACGCCAACUGUGACGUAGGAAUAUUAAGCACUGUGGCGUCAUAGUUUGCGUGAAAUCUUCACAACCG
..((((((.....(((--.....((((.(((((((((((.((...........))...))))))))))).)))))))....))))))... ( -25.20)
>DroYak_CAF1 5638 87 - 1
UUUUGUGACCUUUUUC---UGUGACGCCAACUGUGACGUAGAAACAUUAAGCACUGUGGCGUCAUAGUUUGCGUGAAAUUUUCACAACCG
..((((((....((((---....((((.(((((((((((....(((........))).))))))))))).))))))))...))))))... ( -29.20)
>DroPer_CAF1 30792 82 - 1
CCCGGU-----UUUCCAUUUGUGACGACAGCAGUGACGAUGG---AUUGACCAUGUCGGCGUCACUGUUUGCAUGACAUCUCCUUCACCU
...(((-----(.((((((.((.((.......)).)))))))---)..))))(((((((((........))).))))))........... ( -22.70)
>consensus
UUCGGUGACCUUCUUCAUUUGUGACGCCAACUGUGACGUAGGAAUAUUGAGCAGAGUGGCGUCAUAGUUUGCGUGAAAUCUUCACAACCC
.....................(.((((.(((((((((((...................))))))))))).)))).).............. (-18.92 = -18.73 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:42 2006