Locus 5262

Sequence ID	X_DroMel_CAF1
Location	13,758,733 – 13,758,828
Length	95
Max. P	0.999995

overview

Window 3

Location	13,758,733 – 13,758,828
Length	95
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	94.47
Mean single sequence MFE	-21.28
Consensus MFE	-19.99
Energy contribution	-19.87
Covariance contribution	-0.12
Combinations/Pair	1.11
Mean z-score	-2.13
Structure conservation index	0.94
SVM decision value	3.60
SVM RNA-class probability	0.999435
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13758733 95 + 22224390
ACUUGAAAU--AUUUCGCUGCUCUU-AGCUGAUGAUCUUUGCUAUGUUGCUGCCUGCUA--UUUAUGUUAUUCUUAUCAAUUGUUGCAAGCAGCAACAUU
.........--.....((((....)-)))..............((((((((((.(((.(--(...((.((....)).))...)).))).)))))))))). ( -21.70)
>DroSec_CAF1 69477 97 + 1
ACUUGAAAU--AUUUCGCUGCUCUU-UGCUGAUGAUCUUUGCUAUGUUGCUGCCUGCUAUGUUUAUGUUAUUCUUAUCAAUUGUUGCAAGCAGCAACAUU
.........--...((((.((....-.)).).)))........((((((((((.(((...(((.(((.......))).)))....))).)))))))))). ( -21.70)
>DroSim_CAF1 75513 97 + 1
ACUUGAAAU--AUUUCGCUGCUCUU-UGCUGAUGAUCUAUGCUAUGUUGCUGCCUGCUAUGUUUAUGUUAUUCUUAUCAAUUGUUGCAAGCAGCAACAUU
.......((--(..((((.((....-.)).).)))..)))...((((((((((.(((...(((.(((.......))).)))....))).)))))))))). ( -22.90)
>DroEre_CAF1 70222 96 + 1
ACUUGAAAU--AUUUCGCCGCUCUUCUGCUGAUGAUCUUUGCUAUGUUGCUGCCCGCUA--UUUAUGUUAUUCUUAUCAAUUGUUGCAAGCAGCAACAUU
.........--...((((.((......)).).)))........((((((((((..((.(--(...((.((....)).))...)).))..)))))))))). ( -19.00)
>DroYak_CAF1 78408 97 + 1
ACUUGAAAUAUAUUUCACCGCUCUU-UGCUGAUGAUCUUUGCCAUGUUGCUGCCUGCUA--UUUAUGUUAUUCUUAUCAAUUGUUGCAAGCGGCAACAUU
..............((((.((....-.)).).)))........((((((((((.(((.(--(...((.((....)).))...)).))).)))))))))). ( -21.10)
>consensus
ACUUGAAAU__AUUUCGCUGCUCUU_UGCUGAUGAUCUUUGCUAUGUUGCUGCCUGCUA__UUUAUGUUAUUCUUAUCAAUUGUUGCAAGCAGCAACAUU
..............((((.((......)).).)))........((((((((((.(((............................))).)))))))))). (-19.99 = -19.87 +  -0.12)

alignment

secondary structure

dotplot

Window 4

Location	13,758,733 – 13,758,828
Length	95
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	94.47
Mean single sequence MFE	-24.36
Consensus MFE	-23.87
Energy contribution	-23.75
Covariance contribution	-0.12
Combinations/Pair	1.09
Mean z-score	-3.53
Structure conservation index	0.98
SVM decision value	5.87
SVM RNA-class probability	0.999995
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13758733 95 - 22224390
AAUGUUGCUGCUUGCAACAAUUGAUAAGAAUAACAUAAA--UAGCAGGCAGCAACAUAGCAAAGAUCAUCAGCU-AAGAGCAGCGAAAU--AUUUCAAGU
.((((((((((((((......((.((....)).))....--..)))))))))))))).((...(.....).((.-....)).)).....--......... ( -24.80)
>DroSec_CAF1 69477 97 - 1
AAUGUUGCUGCUUGCAACAAUUGAUAAGAAUAACAUAAACAUAGCAGGCAGCAACAUAGCAAAGAUCAUCAGCA-AAGAGCAGCGAAAU--AUUUCAAGU
.((((((((((((((............................)))))))))))))).((...(.....).((.-....)).)).....--......... ( -24.19)
>DroSim_CAF1 75513 97 - 1
AAUGUUGCUGCUUGCAACAAUUGAUAAGAAUAACAUAAACAUAGCAGGCAGCAACAUAGCAUAGAUCAUCAGCA-AAGAGCAGCGAAAU--AUUUCAAGU
.((((((((((((((............................)))))))))))))).((...(.....).((.-....)).)).....--......... ( -24.19)
>DroEre_CAF1 70222 96 - 1
AAUGUUGCUGCUUGCAACAAUUGAUAAGAAUAACAUAAA--UAGCGGGCAGCAACAUAGCAAAGAUCAUCAGCAGAAGAGCGGCGAAAU--AUUUCAAGU
.((((((((((((((......((.((....)).))....--..)))))))))))))).((...(.((.((....)).)).).)).....--......... ( -24.90)
>DroYak_CAF1 78408 97 - 1
AAUGUUGCCGCUUGCAACAAUUGAUAAGAAUAACAUAAA--UAGCAGGCAGCAACAUGGCAAAGAUCAUCAGCA-AAGAGCGGUGAAAUAUAUUUCAAGU
.(((((((.((((((......((.((....)).))....--..)))))).)))))))........(((((.((.-....))))))).............. ( -23.70)
>consensus
AAUGUUGCUGCUUGCAACAAUUGAUAAGAAUAACAUAAA__UAGCAGGCAGCAACAUAGCAAAGAUCAUCAGCA_AAGAGCAGCGAAAU__AUUUCAAGU
.((((((((((((((............................)))))))))))))).((...(.....).((......)).))((((....)))).... (-23.87 = -23.75 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:32 2006