Locus 5301

Sequence ID	3L_DroMel_CAF1
Location	14,660,213 – 14,660,303
Length	90
Max. P	0.975740

overview

Window 8

Location	14,660,213 – 14,660,303
Length	90
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	92.35
Mean single sequence MFE	-28.36
Consensus MFE	-21.90
Energy contribution	-23.10
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-1.61
Structure conservation index	0.77
SVM decision value	0.16
SVM RNA-class probability	0.611102
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14660213 90 + 23771897
UCUG-AUGCUCUCG-GAAUGGCAAAACCCAAAUACAGCCCUGAGAAUUCCACAUUAUGGGACUAGGUCGAC-UGGUUGGGCCAUUAAAGUGCU
....-..((.((..-.((((((..((((........(.((((....(((((.....))))).)))).)...-.))))..))))))..)).)). ( -22.00)
>DroSec_CAF1 10019 91 + 1
UCUG-AUGCACUCGGGAAUGGCAAAACCCAAAUACAGCCCUGAGAAUUCCACAUUCUGGGGCCAGGUCGAC-UGGCUUAGCCAUUAAAGUGCU
....-..(((((....((((((....(((.....((....))(((((.....))))))))(((((.....)-))))...))))))..))))). ( -31.10)
>DroSim_CAF1 10154 91 + 1
UCUG-AUGCACUCGGGAAUGGCAAAACCCAAAUACAGCCCUGAGAAUUCCACAUUCUGGGGCCAGGUCGAC-UGGCUGGGCCAUUAAAGUGCU
....-..(((((....((((((....(((.....((....))(((((.....))))))))(((((.....)-))))...))))))..))))). ( -30.90)
>DroEre_CAF1 10465 90 + 1
UCUG-AUGCACUUG-GAAUGGCAAAAACCAAAUACUGCCCUGAGAAUUCCACAUUAUGGGGCCAGGUCGAC-UGGCUGGGCCAUUAAUGUGCU
....-..((((...-.((((((.....(((.......((((((..........))).)))(((((.....)-)))))))))))))...)))). ( -27.50)
>DroYak_CAF1 10383 92 + 1
UCUGGAUGCACUUG-GAAUGGCAAAACCCAAACACAGCCCUGAGAAUUCCACAUUCUGGGGCCAGGUCGACGUUGCUGGGCCAUUAAAGUGCU
.......((((((.-.((((((..(((....((...(((((.(((((.....))))))))))...))....))).....)))))).)))))). ( -30.30)
>consensus
UCUG_AUGCACUCG_GAAUGGCAAAACCCAAAUACAGCCCUGAGAAUUCCACAUUCUGGGGCCAGGUCGAC_UGGCUGGGCCAUUAAAGUGCU
.......(((((....((((((.....(((...((.(((((.(((((.....))))))))))...)).....)))....))))))..))))). (-21.90 = -23.10 +   1.20)

alignment

secondary structure

dotplot

Window 9

Location	14,660,213 – 14,660,303
Length	90
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	92.35
Mean single sequence MFE	-29.98
Consensus MFE	-25.18
Energy contribution	-25.90
Covariance contribution	0.72
Combinations/Pair	1.14
Mean z-score	-1.96
Structure conservation index	0.84
SVM decision value	1.76
SVM RNA-class probability	0.975740
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14660213 90 - 23771897
AGCACUUUAAUGGCCCAACCA-GUCGACCUAGUCCCAUAAUGUGGAAUUCUCAGGGCUGUAUUUGGGUUUUGCCAUUC-CGAGAGCAU-CAGA
.((.(((.((((((((((.((-((((((...)))((((...)))).........)))))...)))).....)))))).-.))).))..-.... ( -21.60)
>DroSec_CAF1 10019 91 - 1
AGCACUUUAAUGGCUAAGCCA-GUCGACCUGGCCCCAGAAUGUGGAAUUCUCAGGGCUGUAUUUGGGUUUUGCCAUUCCCGAGUGCAU-CAGA
.((((((.((((((.(((((.-....((..(((((.(((((.....)))))..))))))).....))))).))))))...))))))..-.... ( -35.20)
>DroSim_CAF1 10154 91 - 1
AGCACUUUAAUGGCCCAGCCA-GUCGACCUGGCCCCAGAAUGUGGAAUUCUCAGGGCUGUAUUUGGGUUUUGCCAUUCCCGAGUGCAU-CAGA
.((((((.((((((..((((.-....((..(((((.(((((.....)))))..))))))).....))))..))))))...))))))..-.... ( -33.30)
>DroEre_CAF1 10465 90 - 1
AGCACAUUAAUGGCCCAGCCA-GUCGACCUGGCCCCAUAAUGUGGAAUUCUCAGGGCAGUAUUUGGUUUUUGCCAUUC-CAAGUGCAU-CAGA
.((((.......((((.((((-(.....))))).((((...))))........))))......((((....))))...-...))))..-.... ( -28.60)
>DroYak_CAF1 10383 92 - 1
AGCACUUUAAUGGCCCAGCAACGUCGACCUGGCCCCAGAAUGUGGAAUUCUCAGGGCUGUGUUUGGGUUUUGCCAUUC-CAAGUGCAUCCAGA
.((((((.((((((.....(((.(.(((.((((((.(((((.....)))))..)))))).))).).)))..)))))).-.))))))....... ( -31.20)
>consensus
AGCACUUUAAUGGCCCAGCCA_GUCGACCUGGCCCCAGAAUGUGGAAUUCUCAGGGCUGUAUUUGGGUUUUGCCAUUC_CGAGUGCAU_CAGA
.((((((.((((((..((((......((..(((((.(((((.....)))))..))))))).....))))..))))))...))))))....... (-25.18 = -25.90 +   0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:43 2006