Locus 1108

Sequence ID 2L_DroMel_CAF1
Location 3,009,095 – 3,009,307
Length 212
Max. P 0.882535
window1804 window1805

overview

Window 4

Location 3,009,095 – 3,009,193
Length 98
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 93.24
Mean single sequence MFE -26.97
Consensus MFE -22.19
Energy contribution -21.97
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.28
Structure conservation index 0.82
SVM decision value 0.27
SVM RNA-class probability 0.662028
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3009095 98 - 22407834
CAGCCACGGGCAGAAACCAAGUUGUUGGUCCGCACUGAGACAAGC-AAAACCGCAAGUCAUGUGGGUUAAGUACACUUACUUAACAACAAUCCCAAACU
...((((((((...(((......))).)))).......(((..((-......))..)))..))))((((((((....)))))))).............. ( -24.70)
>DroSec_CAF1 16556 98 - 1
CAGCCACGGGCAGAAAGCGAGUUGUUGGCCCGCACUGAGGAAGGC-AAAACCGCAAGUCAUGUGGGUUAAGUAAACUUACUUAACAACAAUCCCAAACU
(((...(((((....(((.....))).)))))..))).(((....-....(((((.....)))))((((((((....)))))))).....)))...... ( -28.00)
>DroEre_CAF1 17163 99 - 1
CAGCCACGGGCAGAAACCGAGUUUUUAGCCCGCACUGAGAAAGGCCAAAACCGCAAGUCAUGUGGGUUAAGUACACUUACUUAACAACAAUCCCAAACU
(((...(((((((((((...)))))).)))))..))).....((......(((((.....)))))((((((((....)))))))).......))..... ( -28.20)
>consensus
CAGCCACGGGCAGAAACCGAGUUGUUGGCCCGCACUGAGAAAGGC_AAAACCGCAAGUCAUGUGGGUUAAGUACACUUACUUAACAACAAUCCCAAACU
(((...(((((...((.....))....)))))..))).............(((((.....)))))((((((((....)))))))).............. (-22.19 = -21.97 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 3,009,193 – 3,009,307
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 93.22
Mean single sequence MFE -33.27
Consensus MFE -30.90
Energy contribution -30.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.93
SVM decision value 0.92
SVM RNA-class probability 0.882535
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 3009193 114 - 22407834
CUCAAAGUCACUCAAGGUUAAGAAAUCUCUUUGCGCACGCAUA------CGUAUACGCACUGUGGCCACAACUCAACAGAUCGCAGGCAAUGACAGCUUUUUGGCCUUUUCGAGUGAUGA
......((((((((((((((((((.(.((.(((((((((....------)))....)).(((((..(...........)..))))))))).)).)..)))))))))))...))))))).. ( -32.20)
>DroSec_CAF1 16654 108 - 1
CUCAAAGUCACUCAAGGUUAAGAAAUCUCUUUGCGCACGCAU------------ACGCACUGUGGCCACAACUCAACAGAUCGCAGGCAAUGACAGCUUUUUGGCCUUUUCGAGUGAUGA
......((((((((((((((((((.(.((.((((....((..------------..)).(((((..(...........)..))))))))).)).)..)))))))))))...))))))).. ( -32.10)
>DroEre_CAF1 17262 120 - 1
CUCAAAGUCACUCAAGGUUAAGAAAUCUCUUUGCGCACGCAUACGCACACGUAUACGCACUGUGGCCACAACUCAACAGAUCGCAGGCAAUGACAGCUUUUUGGCCUUUUCGAGUGAUGA
......((((((((((((((((((.(.((.((((...((.(((((....))))).))..(((((..(...........)..))))))))).)).)..)))))))))))...))))))).. ( -35.50)
>consensus
CUCAAAGUCACUCAAGGUUAAGAAAUCUCUUUGCGCACGCAUA______CGUAUACGCACUGUGGCCACAACUCAACAGAUCGCAGGCAAUGACAGCUUUUUGGCCUUUUCGAGUGAUGA
......((((((((((((((((((.......(((....)))...............((.(((((..(...........)..))))))).........)))))))))))...))))))).. (-30.90 = -30.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:54 2006