Locus 1497

Sequence ID	X_DroMel_CAF1
Location	4,425,419 – 4,425,538
Length	119
Max. P	0.999958

overview

Window 7

Location	4,425,419 – 4,425,538
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.29
Mean single sequence MFE	-34.48
Consensus MFE	-31.80
Energy contribution	-32.00
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-3.23
Structure conservation index	0.92
SVM decision value	4.87
SVM RNA-class probability	0.999958
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4425419 119 + 22224390
AUUAAACAUCUUGUGUGGAGCUUUAACGCCGUUUUACCCGGUAUCUGUAUCUCGUUCCGCUCGGUAUUUGUCUUUGUCGGCGUUUUGAUGUUU-UUAUCUCUGCCCGAUGCUCCACAUAC
...........((((((((((......((((....((..((((....))))..))......))))..........(((((.((...((((...-.))))...))))))))))))))))). ( -33.20)
>DroSec_CAF1 27812 119 + 1
AUUAAACAUCUUGUGUGGAGCUUUAACGCCGUUUUACCCGGUAUCUGUAUCUCGUUCCGCCCGGUAUUUGUCUUUGUCGGCGUUUUGAUGUUU-UUAUCUCUGCCCGAUGCUCCACAUAC
...........((((((((((.............((((.(((................))).)))).........(((((.((...((((...-.))))...))))))))))))))))). ( -33.19)
>DroSim_CAF1 29145 119 + 1
AUUAAACAUCUUGUGUGGAGCUUUAACGCCGUUUUACCCGGUAUCUGUAUCUCGUUCCGCCCGGUAUUUGUCUUUGUCGGCGUUUUGAUGUUU-UUAUCUCUGCCCGAUGCUCCACAUAC
...........((((((((((.............((((.(((................))).)))).........(((((.((...((((...-.))))...))))))))))))))))). ( -33.19)
>DroEre_CAF1 28794 115 + 1
AUUAAACAUCUUGUGUGGAGCUUUAACGCCGUUUUACCCGGUAUCUGUAUCUUGU----CCCGGUGUUUGUCUUUGUCGGCGUCUUGAUGUUU-UUAUCUCUGCCCGAUGCUCCACAUAC
...........((((((((((...(((((((....((..((((....))))..))----..))))))).......(((((.((...((((...-.))))...))))))))))))))))). ( -35.50)
>DroYak_CAF1 28424 116 + 1
AUUAUACAUCUUGUGUGGAGCUUUAACGCCGUUUUACCCGGUAUCUGUAUCUUGU----CCCGGUGUUUGUCUUUGUCGGCGGUUUGAUGUUUUUUAUCUCUGCCCGAUGCUCCACAUAC
...........((((((((((...(((((((....((..((((....))))..))----..))))))).......((((((((...((((.....)))).))).))))))))))))))). ( -37.30)
>consensus
AUUAAACAUCUUGUGUGGAGCUUUAACGCCGUUUUACCCGGUAUCUGUAUCUCGUUCCGCCCGGUAUUUGUCUUUGUCGGCGUUUUGAUGUUU_UUAUCUCUGCCCGAUGCUCCACAUAC
...........((((((((((......((((....((..((((....))))..))......))))..........(((((.((...((((.....))))...))))))))))))))))). (-31.80 = -32.00 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	4,425,419 – 4,425,538
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.29
Mean single sequence MFE	-29.72
Consensus MFE	-27.99
Energy contribution	-28.23
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-2.23
Structure conservation index	0.94
SVM decision value	3.79
SVM RNA-class probability	0.999616
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4425419 119 - 22224390
GUAUGUGGAGCAUCGGGCAGAGAUAA-AAACAUCAAAACGCCGACAAAGACAAAUACCGAGCGGAACGAGAUACAGAUACCGGGUAAAACGGCGUUAAAGCUCCACACAAGAUGUUUAAU
...((((((((.(((..(...(((..-....)))....(((((..............)).))))..)))......((..(((.......)))..))...))))))))............. ( -28.54)
>DroSec_CAF1 27812 119 - 1
GUAUGUGGAGCAUCGGGCAGAGAUAA-AAACAUCAAAACGCCGACAAAGACAAAUACCGGGCGGAACGAGAUACAGAUACCGGGUAAAACGGCGUUAAAGCUCCACACAAGAUGUUUAAU
...(((((((((((.......)))..-.........(((((((......((.....((((...................))))))....)))))))...))))))))............. ( -29.91)
>DroSim_CAF1 29145 119 - 1
GUAUGUGGAGCAUCGGGCAGAGAUAA-AAACAUCAAAACGCCGACAAAGACAAAUACCGGGCGGAACGAGAUACAGAUACCGGGUAAAACGGCGUUAAAGCUCCACACAAGAUGUUUAAU
...(((((((((((.......)))..-.........(((((((......((.....((((...................))))))....)))))))...))))))))............. ( -29.91)
>DroEre_CAF1 28794 115 - 1
GUAUGUGGAGCAUCGGGCAGAGAUAA-AAACAUCAAGACGCCGACAAAGACAAACACCGGG----ACAAGAUACAGAUACCGGGUAAAACGGCGUUAAAGCUCCACACAAGAUGUUUAAU
...(((((((((((.......)))..-.........(((((((.....(.....).((((.----..............))))......)))))))...))))))))............. ( -31.66)
>DroYak_CAF1 28424 116 - 1
GUAUGUGGAGCAUCGGGCAGAGAUAAAAAACAUCAAACCGCCGACAAAGACAAACACCGGG----ACAAGAUACAGAUACCGGGUAAAACGGCGUUAAAGCUCCACACAAGAUGUAUAAU
...(((((((((((.......)))..............(((((.....(.....).((((.----..............))))......))))).....))))))))............. ( -28.56)
>consensus
GUAUGUGGAGCAUCGGGCAGAGAUAA_AAACAUCAAAACGCCGACAAAGACAAAUACCGGGCGGAACGAGAUACAGAUACCGGGUAAAACGGCGUUAAAGCUCCACACAAGAUGUUUAAU
...(((((((((((.......)))............(((((((......((.....((((...................))))))....)))))))...))))))))............. (-27.99 = -28.23 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:08 2006