Locus 2312

Sequence ID	3L_DroMel_CAF1
Location	6,506,783 – 6,506,942
Length	159
Max. P	0.997311

overview

Window 9

Location	6,506,783 – 6,506,902
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.98
Mean single sequence MFE	-23.04
Consensus MFE	-20.40
Energy contribution	-20.48
Covariance contribution	0.08
Combinations/Pair	1.04
Mean z-score	-1.42
Structure conservation index	0.89
SVM decision value	0.51
SVM RNA-class probability	0.763521
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6506783 119 - 23771897
UAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUC-CUUUUGCCGAGCGCCUUUCAAGUAAAAUCCCCAAAAUUAACAAAAACCUAUUAGGCCAAAC
...................(((((((((((.((((((((..(((.....)))......-))))))))))))).))))))..........................((.....))...... ( -22.60)
>DroSec_CAF1 2105 119 - 1
UAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUC-CUUUUGCCGAGCGCCUUUCAAGUAAAAUCCCCAAAAUUAACAAAAACCUAUUAGGCCAAAC
...................(((((((((((.((((((((..(((.....)))......-))))))))))))).))))))..........................((.....))...... ( -22.60)
>DroSim_CAF1 2098 119 - 1
UAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUC-CUUUUGCCGAGCGCCUUUCAAGUAAAAUCCCCAAAAUUAACAAAAACCUAUUAGGCCAAAC
...................(((((((((((.((((((((..(((.....)))......-))))))))))))).))))))..........................((.....))...... ( -22.60)
>DroEre_CAF1 2048 119 - 1
UAACGUAAACAUGCAAUGGUGAAAGCGCUUAUGUAAAAGCGGCAACAUGUGUAAAAUC-CUUUUGCUGAGCGCCUUUCAAGUAAAAUCCCCAAAAUUAACAAAAACCUAUUAGGCCAAGC
....(((....)))..(((((((((((((((.(((((((..(((.....)))......-))))))))))))).))))))..........................((.....)))))... ( -23.40)
>DroYak_CAF1 2019 120 - 1
UAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUCCCUUUUGCUGAGCGCCUUUCAAGUGAAAUCCCCAAAAUUAACAAAAACCUAUUAGGCCAAGC
............((..((.(((((((((((((.((((((.((..((....)).....))))))))))))))).))))))..))......................((.....))....)) ( -24.00)
>consensus
UAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUC_CUUUUGCCGAGCGCCUUUCAAGUAAAAUCCCCAAAAUUAACAAAAACCUAUUAGGCCAAAC
...................(((((((((((.((((((((..(((.....))).......))))))))))))).))))))..........................((.....))...... (-20.40 = -20.48 +   0.08)

alignment

secondary structure

dotplot

Window 0

Location	6,506,823 – 6,506,942
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.15
Mean single sequence MFE	-29.88
Consensus MFE	-27.58
Energy contribution	-27.50
Covariance contribution	-0.08
Combinations/Pair	1.06
Mean z-score	-2.10
Structure conservation index	0.92
SVM decision value	2.84
SVM RNA-class probability	0.997311
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6506823 119 - 23771897
AGUCUUCAGGCAGUCCAUUGCAACAGGAAGAAAAUAAUAAUAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUC-CUUUUGCCGAGCGCCUUUCAA
..(((((..((((....)))).....)))))............................(((((((((((.((((((((..(((.....)))......-))))))))))))).)))))). ( -29.90)
>DroSec_CAF1 2145 119 - 1
AGUCUUCAGGCAGUCCAUUGCAACAGGAAGAAAAUAAUAAUAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUC-CUUUUGCCGAGCGCCUUUCAA
..(((((..((((....)))).....)))))............................(((((((((((.((((((((..(((.....)))......-))))))))))))).)))))). ( -29.90)
>DroSim_CAF1 2138 119 - 1
AGUCUUCAGGCAGUCCAUUGCAACAGGAAGAAAAUAAUAAUAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUC-CUUUUGCCGAGCGCCUUUCAA
..(((((..((((....)))).....)))))............................(((((((((((.((((((((..(((.....)))......-))))))))))))).)))))). ( -29.90)
>DroEre_CAF1 2088 119 - 1
AGUCUUCAGGCAGUCCAUUGCAACAGGAGGAAAAUAAUAAUAACGUAAACAUGCAAUGGUGAAAGCGCUUAUGUAAAAGCGGCAACAUGUGUAAAAUC-CUUUUGCUGAGCGCCUUUCAA
.(((....)))...((((((((......(..............).......))))))))((((((((((((.(((((((..(((.....)))......-))))))))))))).)))))). ( -31.06)
>DroYak_CAF1 2059 120 - 1
AGUCUUCGGGCAGUCCAUUGCAACAGGAAGAAAAUAAUAAUAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUCCCUUUUGCUGAGCGCCUUUCAA
.(((....)))......(((((.............................)))))...(((((((((((((.((((((.((..((....)).....))))))))))))))).)))))). ( -28.65)
>consensus
AGUCUUCAGGCAGUCCAUUGCAACAGGAAGAAAAUAAUAAUAACGAAAACAUGCAACAGUGAAAGCGCUUAGGUAAAAGCGGCAACAUGUGUAAAAUC_CUUUUGCCGAGCGCCUUUCAA
..(((((..((((....)))).....)))))............................(((((((((((.((((((((..(((.....))).......))))))))))))).)))))). (-27.58 = -27.50 +  -0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:17 2006