Locus 1491

Sequence ID	3R_DroMel_CAF1
Location	4,302,696 – 4,302,791
Length	95
Max. P	0.921471

overview

Window 5

Location	4,302,696 – 4,302,791
Length	95
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	87.20
Mean single sequence MFE	-23.20
Consensus MFE	-19.01
Energy contribution	-19.10
Covariance contribution	0.09
Combinations/Pair	1.14
Mean z-score	-2.11
Structure conservation index	0.82
SVM decision value	0.43
SVM RNA-class probability	0.733383
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4302696 95 + 27905053
GGCGAAUGGAGUAAGUAAAGUGAGCUCAGAAUCCUUUGGCUCAUAAAAUGUCAAGGAAAUUUUUAUUGAUGAGCCAAAGGCGAACGACGACGACA
..((....((((...........)))).....((((((((((((..((((..((.....))..)))).))))))))))))....))......... ( -22.00)
>DroSec_CAF1 103882 92 + 1
---GAAUGGAGUAAGUAAAGUGAGCUCCGAAUCCUUUGGCUCAUAAAAUGUCAAGGAAAUUUUUAUUGAUGAGCCAAAGGCGAACGACGACGACA
---...((((((...........))))))...((((((((((((..((((..((.....))..)))).))))))))))))............... ( -24.90)
>DroSim_CAF1 104494 92 + 1
---GAAUGGAGUAAGUAAAGUGAGCUCCGAAUCCUUUGGCUCAUAAAACGUCAAGGAAAUUUUUAUUGAUGAGCCAAAGGCGAACGACGACGACA
---...((((((...........))))))...(((((((((((.......((((...........)))))))))))))))............... ( -23.61)
>DroEre_CAF1 107142 95 + 1
AGCGAGUGGAGUAAGUAAAGCGAGCUCAGAAUCCUUUGGCUCAUAAAAUGUCAAGGAAAUUUUUAUUGAUGAGCCAAAGGCGAACGACGACGACA
.(((..((((((..(.....)..)))).....((((((((((((..((((..((.....))..)))).))))))))))))))..)).)....... ( -24.30)
>DroWil_CAF1 115325 82 + 1
CACGAAAGGAGUAA---------ACUCUGAGUCCU-UGGCUCGUAAAAUAUAAAGAAGAUUUUUAUUGAUGAGCCAAAAGCGAACGACGAC---A
..((...((((...---------.))))..((..(-((((((((.....(((((((...)))))))..)))))))))..))...)).....---. ( -20.20)
>DroYak_CAF1 107421 92 + 1
GGCGAAUGGAGUAAGUAAAGUGAGCUCAGAAUCCUUUGGCUCAUAAAAUGUCAAGGAAAUUUUUAUUGAUGAGCCAAAGG---ACGACGACGACA
..((....((((...........))))....(((((((((((((..((((..((.....))..)))).))))))))))))---)))......... ( -24.20)
>consensus
_GCGAAUGGAGUAAGUAAAGUGAGCUCAGAAUCCUUUGGCUCAUAAAAUGUCAAGGAAAUUUUUAUUGAUGAGCCAAAGGCGAACGACGACGACA
........((((...........)))).....((((((((((((..((((..((.....))..)))).))))))))))))............... (-19.01 = -19.10 +   0.09)

alignment

secondary structure

dotplot

Window 6

Location	4,302,696 – 4,302,791
Length	95
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	87.20
Mean single sequence MFE	-21.06
Consensus MFE	-17.90
Energy contribution	-18.32
Covariance contribution	0.42
Combinations/Pair	1.13
Mean z-score	-2.40
Structure conservation index	0.85
SVM decision value	1.14
SVM RNA-class probability	0.921471
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4302696 95 - 27905053
UGUCGUCGUCGUUCGCCUUUGGCUCAUCAAUAAAAAUUUCCUUGACAUUUUAUGAGCCAAAGGAUUCUGAGCUCACUUUACUUACUCCAUUCGCC
..........(((((((((((((((((.....(((((.((...)).)))))))))))))))))....)))))....................... ( -21.80)
>DroSec_CAF1 103882 92 - 1
UGUCGUCGUCGUUCGCCUUUGGCUCAUCAAUAAAAAUUUCCUUGACAUUUUAUGAGCCAAAGGAUUCGGAGCUCACUUUACUUACUCCAUUC---
...............((((((((((((.....(((((.((...)).)))))))))))))))))....((((.............))))....--- ( -22.92)
>DroSim_CAF1 104494 92 - 1
UGUCGUCGUCGUUCGCCUUUGGCUCAUCAAUAAAAAUUUCCUUGACGUUUUAUGAGCCAAAGGAUUCGGAGCUCACUUUACUUACUCCAUUC---
...............((((((((((((.....(((((.((...)).)))))))))))))))))....((((.............))))....--- ( -23.22)
>DroEre_CAF1 107142 95 - 1
UGUCGUCGUCGUUCGCCUUUGGCUCAUCAAUAAAAAUUUCCUUGACAUUUUAUGAGCCAAAGGAUUCUGAGCUCGCUUUACUUACUCCACUCGCU
....(.((..(((((((((((((((((.....(((((.((...)).)))))))))))))))))....))))).)))................... ( -22.10)
>DroWil_CAF1 115325 82 - 1
U---GUCGUCGUUCGCUUUUGGCUCAUCAAUAAAAAUCUUCUUUAUAUUUUACGAGCCA-AGGACUCAGAGU---------UUACUCCUUUCGUG
.---(((((.....)).((((((((...((((.(((.....))).))))....))))))-)))))...(((.---------...)))........ ( -13.20)
>DroYak_CAF1 107421 92 - 1
UGUCGUCGUCGU---CCUUUGGCUCAUCAAUAAAAAUUUCCUUGACAUUUUAUGAGCCAAAGGAUUCUGAGCUCACUUUACUUACUCCAUUCGCC
.....(((..((---((((((((((((.....(((((.((...)).)))))))))))))))))))..)))......................... ( -23.10)
>consensus
UGUCGUCGUCGUUCGCCUUUGGCUCAUCAAUAAAAAUUUCCUUGACAUUUUAUGAGCCAAAGGAUUCUGAGCUCACUUUACUUACUCCAUUCGC_
..........((((.((((((((((((.....(((((.((...)).))))))))))))))))).....))))....................... (-17.90 = -18.32 +   0.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:53 2006