Locus 171

Sequence ID	2R_DroMel_CAF1
Location	1,428,911 – 1,429,030
Length	119
Max. P	0.926589

overview

Window 4

Location	1,428,911 – 1,429,030
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.83
Mean single sequence MFE	-23.34
Consensus MFE	-22.54
Energy contribution	-22.26
Covariance contribution	-0.28
Combinations/Pair	1.10
Mean z-score	-1.17
Structure conservation index	0.97
SVM decision value	0.60
SVM RNA-class probability	0.796248
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1428911 119 + 20766785
U-UUUUUGCCCUUUGUUUGUUGUUUCUAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCACAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
.-.................(((((((.((..(((..(((((.((.((.(((.....))).)).))))))).....(((.....))))))..)).))))))).....((((......)))) ( -22.50)
>DroSec_CAF1 47372 119 + 1
U-UUCUUGCCCUUUGUUUGCUGUUUCCAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCGCAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
.-.................(((((((.((..(((..(((((.((.((.(((.....))).)).))))))).....(((.....))))))..)).))))))).....((((......)))) ( -24.40)
>DroSim_CAF1 52423 120 + 1
UUUUCUUGCCCUUUGUUUGCUGUUUCUAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCACAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
...................(((((((.((..(((..(((((.((.((.(((.....))).)).))))))).....(((.....))))))..)).))))))).....((((......)))) ( -24.80)
>DroEre_CAF1 45493 120 + 1
UUUUCUUGCCCUUUGUUUGCUGUUUCUAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCACAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
...................(((((((.((..(((..(((((.((.((.(((.....))).)).))))))).....(((.....))))))..)).))))))).....((((......)))) ( -24.80)
>DroYak_CAF1 49991 115 + 1
UUUUCUUGCC----GUUUGCUGUUUCUAUCGGUGUUGCUAUAGCUAAAGAAAAUCUUUUGUUUCCACAGCGU-UUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
..........----.....(((((((.((..(((((((....(((...((((........))))...)))..-..)))).......)))..)).))))))).....((((......)))) ( -20.21)
>consensus
UUUUCUUGCCCUUUGUUUGCUGUUUCUAUCGGUGUUGCUGUUGCUAAGGAAAAUCUUUUGUUUGCACAGCUUUUUGCAAUUUUUGCCACUAAUUGAAAUAGAAUUUCUGCUUUGUUGUAG
...................(((((((.((..(((..(((((.((.((((.....)))).))....))))).....(((.....))))))..)).))))))).....((((......)))) (-22.54 = -22.26 +  -0.28)

alignment

secondary structure

dotplot

Window 5

Location	1,428,911 – 1,429,030
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.83
Mean single sequence MFE	-18.70
Consensus MFE	-15.57
Energy contribution	-15.81
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.82
Structure conservation index	0.83
SVM decision value	1.18
SVM RNA-class probability	0.926589
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1428911 119 - 20766785
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGUGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUAGAAACAACAAACAAAGGGCAAAAA-A
..........((((.....)).((((.((..((((((.....))).....(((((((...................)).)))))..)))..)).)))).............)).....-. ( -18.01)
>DroSec_CAF1 47372 119 - 1
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGCGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUGGAAACAGCAAACAAAGGGCAAGAA-A
..........((.(((((...))))).....(..((..............))..))).............(((((.((....))......(.((....)).).....)))))......-. ( -15.94)
>DroSim_CAF1 52423 120 - 1
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGUGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUAGAAACAGCAAACAAAGGGCAAGAAAA
.................((((.((((.((..((((((.....))).....(((((((...................)).)))))..)))..)).))))..((.........)).)))).. ( -18.71)
>DroEre_CAF1 45493 120 - 1
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGUGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUAGAAACAGCAAACAAAGGGCAAGAAAA
.................((((.((((.((..((((((.....))).....(((((((...................)).)))))..)))..)).))))..((.........)).)))).. ( -18.71)
>DroYak_CAF1 49991 115 - 1
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAA-ACGCUGUGGAAACAAAAGAUUUUCUUUAGCUAUAGCAACACCGAUAGAAACAGCAAAC----GGCAAGAAAA
..........((.......((.((((.((..((((((.....)))..-..(((((((.....((((.....))))..)))))))..)))..)).)))).)).....----.))....... ( -22.12)
>consensus
CUACAACAAAGCAGAAAUUCUAUUUCAAUUAGUGGCAAAAAUUGCAAAAAGCUGUGCAAACAAAAGAUUUUCCUUAGCAACAGCAACACCGAUAGAAACAGCAAACAAAGGGCAAGAAAA
..........((((.....)).((((.((..((((((.....))).....(((((((...................)).)))))..)))..)).)))).............))....... (-15.57 = -15.81 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:31:02 2006