Locus 2057

Sequence ID 3L_DroMel_CAF1
Location 5,664,230 – 5,664,331
Length 101
Max. P 0.828972
window3207 window3208

overview

Window 7

Location 5,664,230 – 5,664,331
Length 101
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 87.66
Mean single sequence MFE -34.54
Consensus MFE -22.90
Energy contribution -22.66
Covariance contribution -0.24
Combinations/Pair 1.12
Mean z-score -2.80
Structure conservation index 0.66
SVM decision value 0.71
SVM RNA-class probability 0.828972
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5664230 101 + 23771897
UAGAGCCAAAUCCUGAGUGCACACAGCAGGAGCAACUAU--------CCAGCCAGCUGGAGCGGCAUCAGAAGCAAAUGCACUCGGAAAAAUAAGACAGUACUUGCU----GA
............(((((((((....((..((((.....(--------((((....)))))...)).))....))...)))))))))..........((((....)))----). ( -29.50)
>DroSec_CAF1 36882 101 + 1
UAGAGCCAAAUCCUGAGUGCACACAGCAGGAGCAGCUAU--------CCAGCCAGCUGGAGCGGCAUCAGAAGCAAAUGCACUCGGAGAAAUAGGACUGUACUUGCU----AA
..(((((...(((((..((....)).)))))...((..(--------((((....)))))))))).))...(((((.((((.((..(....)..)).)))).)))))----.. ( -32.30)
>DroSim_CAF1 37970 100 + 1
UAGAGCCAAAU-CUGAGUGCACACAGCAGGAGCAGCUAU--------CCAGCCAGCUGGAGCGGCAUCAGAAGCAAAUGCACUCGGAGAAAUAGGACAGUACUCGAU----AA
..(((((...(-(((((((((....((....)).(((.(--------((((....)))))..)))............))))))))))......))......)))...----.. ( -30.90)
>DroEre_CAF1 40136 113 + 1
CAGAGCAAAAUCCUGAGUGCACACAGCAGGAGCAGCCAUCCAGCCAUCCAGCCAGCUGGAGCGGCAUCAGAAGCAAGUGCACUUGGAGAAAUAAGGCAGUACUUGCUGGCUAA
....((....(((((..((....)).)))))))((((.....(((.(((((....)))))..)))......(((((((((.((((......))))...))))))))))))).. ( -42.10)
>DroYak_CAF1 37647 105 + 1
CAGAGCAAAAUCCUGAGUGCACACAGCAGGAGCAGCCAA--------CCAGCCAGCUGGAGCGGCAUUAGAAGCAAGUGCACUCGGAGAAAUAAGGCAGUACUUGCUGGCUAA
..........((((((((((((...((....)).(((..--------((((....))))...)))...........)))))))))).))....((.((((....)))).)).. ( -37.90)
>consensus
UAGAGCCAAAUCCUGAGUGCACACAGCAGGAGCAGCUAU________CCAGCCAGCUGGAGCGGCAUCAGAAGCAAAUGCACUCGGAGAAAUAAGACAGUACUUGCU____AA
...(((......(((((((((....((.((.....))..........((((....)))).)).((.......))...)))))))))......(((......))))))...... (-22.90 = -22.66 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 5,664,230 – 5,664,331
Length 101
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 87.66
Mean single sequence MFE -33.49
Consensus MFE -25.54
Energy contribution -25.54
Covariance contribution -0.00
Combinations/Pair 1.12
Mean z-score -1.78
Structure conservation index 0.76
SVM decision value 0.45
SVM RNA-class probability 0.742510
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5664230 101 - 23771897
UC----AGCAAGUACUGUCUUAUUUUUCCGAGUGCAUUUGCUUCUGAUGCCGCUCCAGCUGGCUGG--------AUAGUUGCUCCUGCUGUGUGCACUCAGGAUUUGGCUCUA
..----((((((......))).....(((((((((((..((....((.((.(((((((....))))--------)..)).))))..))...)))))))).)))....)))... ( -30.80)
>DroSec_CAF1 36882 101 - 1
UU----AGCAAGUACAGUCCUAUUUCUCCGAGUGCAUUUGCUUCUGAUGCCGCUCCAGCUGGCUGG--------AUAGCUGCUCCUGCUGUGUGCACUCAGGAUUUGGCUCUA
..----.........((..(((..(((..((((((((..((....((.((.(((((((....))))--------)..)).))))..))...)))))))).)))..)))..)). ( -32.60)
>DroSim_CAF1 37970 100 - 1
UU----AUCGAGUACUGUCCUAUUUCUCCGAGUGCAUUUGCUUCUGAUGCCGCUCCAGCUGGCUGG--------AUAGCUGCUCCUGCUGUGUGCACUCAG-AUUUGGCUCUA
..----...(((.......(((..(((..((((((((..((....((.((.(((((((....))))--------)..)).))))..))...))))))))))-)..)))))).. ( -30.81)
>DroEre_CAF1 40136 113 - 1
UUAGCCAGCAAGUACUGCCUUAUUUCUCCAAGUGCACUUGCUUCUGAUGCCGCUCCAGCUGGCUGGAUGGCUGGAUGGCUGCUCCUGCUGUGUGCACUCAGGAUUUUGCUCUG
.((((((((((((...(((((........))).)))))))).(((...((((.(((((....))))))))).))))))))).(((((..((....)).))))).......... ( -38.00)
>DroYak_CAF1 37647 105 - 1
UUAGCCAGCAAGUACUGCCUUAUUUCUCCGAGUGCACUUGCUUCUAAUGCCGCUCCAGCUGGCUGG--------UUGGCUGCUCCUGCUGUGUGCACUCAGGAUUUUGCUCUG
..(((..(((.....)))........(((((((((((..((.......((((..((((....))))--------.)))).......))...)))))))).)))....)))... ( -35.24)
>consensus
UU____AGCAAGUACUGUCUUAUUUCUCCGAGUGCAUUUGCUUCUGAUGCCGCUCCAGCUGGCUGG________AUAGCUGCUCCUGCUGUGUGCACUCAGGAUUUGGCUCUA
......((((((((......))))).(((((((((((..((....((.((.(((((((....))))..........))).))))..))...)))))))).)))....)))... (-25.54 = -25.54 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:23 2006