Locus 1247

Sequence ID	3L_DroMel_CAF1
Location	3,550,222 – 3,550,329
Length	107
Max. P	0.998214

overview

Window 5

Location	3,550,222 – 3,550,329
Length	107
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	91.49
Mean single sequence MFE	-27.09
Consensus MFE	-22.08
Energy contribution	-22.72
Covariance contribution	0.64
Combinations/Pair	1.04
Mean z-score	-3.06
Structure conservation index	0.82
SVM decision value	3.04
SVM RNA-class probability	0.998214
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3550222 107 + 23771897
CAAAAUCAUGUUUAGGGCUGACUGCAUUUGAAGUGCAGUAGGUAACAAACUGGUUGCAAAGAAUAAAAAAGCUGGGCGAAAAUAAAAUGGCAAAAGGGGCAGCAGGA
...(((((.((((...(((.(((((((.....))))))).)))...)))))))))...............((((.((.(........).))........)))).... ( -21.90)
>DroSec_CAF1 80211 107 + 1
CAAAAUCCUGUUUAGGGCUGACUGCAUUUGAAGUGCAGUAGGUAACAAACAGGUUGCAAAGAAUAAAGGAGCUGGGCGAAAAUAAAAUAGCAAAAGGGGCAGCAGGA
.....(((((((...((((.(((((((.....)))))))..(((((......)))))............))))................((.......))))))))) ( -26.30)
>DroSim_CAF1 84721 107 + 1
CAAAAUCCUGUUUAGGGCUGACUGCAUUUGAAGUGCAGUAGGUAACAAACAGGUUGCAAGGAAUAAAGAAGCCGGGCUAAAAUAAAAUGGCAAAAGGGGCAGCAGGA
.....(((((((...((((.(((((((.....)))))))..(((((......)))))............))))..((((........)))).........))))))) ( -30.60)
>DroEre_CAF1 98492 106 + 1
UAAAAUCCUGUUUAAGGCUGACUGCAUUUGAAGUGCAGUAGGUAACAAGCAGGUUGGAAAAAAUAAAGAAGCUGCGCGAAAAUAAAAUGGCAA-AGGGGCAGCAGGA
......(((((((...(((.(((((((.....))))))).)))...))))))).................(((((.(................-..).))))).... ( -30.17)
>DroYak_CAF1 83606 106 + 1
UAAAAUCCGGUUUAAGGCUGACUGCAUUUCAAGUGCAGUAGGUAACAAACAAGUUGAAAAAAAUAAAGAAGCUGGGCGAACAUAAAAUGGCAA-AGGCGCAGCAGGA
.....(((.((((...(((.(((((((.....))))))).)))...))))....................((((.((................-..)).)))).))) ( -26.47)
>consensus
CAAAAUCCUGUUUAGGGCUGACUGCAUUUGAAGUGCAGUAGGUAACAAACAGGUUGCAAAGAAUAAAGAAGCUGGGCGAAAAUAAAAUGGCAAAAGGGGCAGCAGGA
.....(((((((...((((.(((((((.....)))))))..(((((......)))))............))))................((.......))))))))) (-22.08 = -22.72 +   0.64)

alignment

secondary structure

dotplot

Window 6

Location	3,550,222 – 3,550,329
Length	107
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	91.49
Mean single sequence MFE	-17.25
Consensus MFE	-15.17
Energy contribution	-15.69
Covariance contribution	0.52
Combinations/Pair	1.10
Mean z-score	-1.37
Structure conservation index	0.88
SVM decision value	0.58
SVM RNA-class probability	0.788167
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3550222 107 - 23771897
UCCUGCUGCCCCUUUUGCCAUUUUAUUUUCGCCCAGCUUUUUUAUUCUUUGCAACCAGUUUGUUACCUACUGCACUUCAAAUGCAGUCAGCCCUAAACAUGAUUUUG
....((((.........................))))....................(((((....((((((((.......)))))).))...)))))......... ( -11.21)
>DroSec_CAF1 80211 107 - 1
UCCUGCUGCCCCUUUUGCUAUUUUAUUUUCGCCCAGCUCCUUUAUUCUUUGCAACCUGUUUGUUACCUACUGCACUUCAAAUGCAGUCAGCCCUAAACAGGAUUUUG
....((((.........................)))).................((((((((....((((((((.......)))))).))...))))))))...... ( -18.41)
>DroSim_CAF1 84721 107 - 1
UCCUGCUGCCCCUUUUGCCAUUUUAUUUUAGCCCGGCUUCUUUAUUCCUUGCAACCUGUUUGUUACCUACUGCACUUCAAAUGCAGUCAGCCCUAAACAGGAUUUUG
...(((..........(((...............))).............))).((((((((....((((((((.......)))))).))...))))))))...... ( -20.06)
>DroEre_CAF1 98492 106 - 1
UCCUGCUGCCCCU-UUGCCAUUUUAUUUUCGCGCAGCUUCUUUAUUUUUUCCAACCUGCUUGUUACCUACUGCACUUCAAAUGCAGUCAGCCUUAAACAGGAUUUUA
....(((((....-..................))))).................((((.(((....((((((((.......)))))).))...))).))))...... ( -18.65)
>DroYak_CAF1 83606 106 - 1
UCCUGCUGCGCCU-UUGCCAUUUUAUGUUCGCCCAGCUUCUUUAUUUUUUUCAACUUGUUUGUUACCUACUGCACUUGAAAUGCAGUCAGCCUUAAACCGGAUUUUA
(((.((((.((..-..((........))..)).))))....................(((((....((((((((.......)))))).))...))))).)))..... ( -17.90)
>consensus
UCCUGCUGCCCCUUUUGCCAUUUUAUUUUCGCCCAGCUUCUUUAUUCUUUGCAACCUGUUUGUUACCUACUGCACUUCAAAUGCAGUCAGCCCUAAACAGGAUUUUG
....((((.........................)))).................((((((((....((((((((.......)))))).))...))))))))...... (-15.17 = -15.69 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:02 2006