Locus 8166

Sequence ID	3R_DroMel_CAF1
Location	21,961,863 – 21,961,954
Length	91
Max. P	0.917707

overview

Window 0

Location	21,961,863 – 21,961,954
Length	91
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	79.52
Mean single sequence MFE	-25.75
Consensus MFE	-18.08
Energy contribution	-18.22
Covariance contribution	0.14
Combinations/Pair	1.27
Mean z-score	-2.05
Structure conservation index	0.70
SVM decision value	1.12
SVM RNA-class probability	0.917707
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21961863 91 + 27905053
GUGGAGCUGAAGCAUUCGCCUUUGUGCGGACUCCCAGUUCCAAAUUUGGUACGCAUGAAUCAUGACC-AAAUGUGUAAAUUUGUUUUAAUCC
.((((((((.....(((((......)))))....)))))))).(((((((...((((...)))))))-)))).................... ( -22.90)
>DroSec_CAF1 1150 91 + 1
GUGGAGCUGAGGCAUUCGCUUUUGUGCGGACUCCCAGUUCCAAAUUUGGUAAGAAUGAAUCUUGACC-AAAUGUGUAAAUUUGUUUUAAUCC
.((((((((.((..(((((......)))))..)))))))))).(((((((((((.....)))).)))-)))).................... ( -30.50)
>DroSim_CAF1 1151 91 + 1
GUGGAGCUGAGGCUUUCGCUUUUGUGCGGACUCCCAGUUCCAAAUUUGGUAAGAAUGAAUCCUGACC-AAAUGUGUAAAAUUGUUUUAAUCC
.((((((((.((..(((((......)))))..)))))))))).(((((((.((........)).)))-)))).................... ( -29.30)
>DroEre_CAF1 1152 92 + 1
GUGGAGCUGAGGCUUUCGCUUUUGUGCGGACUCCCAGUUCCAAAUUUGGUAAGUAUUAAGCAUGACCAUAAUGUAAACAUUUGCUUGAAUUU
.((((((((.((..(((((......)))))..)))))))))).............(((((((.......((((....))))))))))).... ( -28.21)
>DroYak_CAF1 1151 92 + 1
GGGGAGCUGAGGCUUUUGCUUUUGUGCGAACUCCCAGCUCCAAGUUUGGUAAGUAGUAAUCAUAACCCAAAUGCAUGAAUUUGCUUUAAUCU
(((((((((.((..(((((......)))))..)))))))))..(((((((........)))).)))))....(((......)))........ ( -27.40)
>DroPer_CAF1 10469 86 + 1
GUGGAGCCGAGGCUUUUGCCUUUGUGCGUACUCCAAGCUCUAGCCAUGGUAAAUAU--ACUCUGUCCGGAA----UAAAUAUUGUAUAAUCC
..(((((((((((....))).))).))....(((..((....))((.((((....)--))).))...))).----..............))) ( -16.20)
>consensus
GUGGAGCUGAGGCUUUCGCUUUUGUGCGGACUCCCAGUUCCAAAUUUGGUAAGUAUGAAUCAUGACC_AAAUGUGUAAAUUUGUUUUAAUCC
.((((((((.((..(((((......)))))..)))))))))).................................................. (-18.08 = -18.22 +   0.14)

alignment

secondary structure

dotplot

Window 1

Location	21,961,863 – 21,961,954
Length	91
Sequences	6
Columns	92
Reading direction	reverse
Mean pairwise identity	79.52
Mean single sequence MFE	-21.69
Consensus MFE	-12.71
Energy contribution	-13.27
Covariance contribution	0.56
Combinations/Pair	1.25
Mean z-score	-1.81
Structure conservation index	0.59
SVM decision value	0.32
SVM RNA-class probability	0.687313
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21961863 91 - 27905053
GGAUUAAAACAAAUUUACACAUUU-GGUCAUGAUUCAUGCGUACCAAAUUUGGAACUGGGAGUCCGCACAAAGGCGAAUGCUUCAGCUCCAC
....................((((-(((((((...))))...))))))).((((.(((((.((.(((......))).))..))))).)))). ( -19.40)
>DroSec_CAF1 1150 91 - 1
GGAUUAAAACAAAUUUACACAUUU-GGUCAAGAUUCAUUCUUACCAAAUUUGGAACUGGGAGUCCGCACAAAAGCGAAUGCCUCAGCUCCAC
....................((((-(((.((((.....))))))))))).((((.(((((.((.(((......))).))..))))).)))). ( -24.30)
>DroSim_CAF1 1151 91 - 1
GGAUUAAAACAAUUUUACACAUUU-GGUCAGGAUUCAUUCUUACCAAAUUUGGAACUGGGAGUCCGCACAAAAGCGAAAGCCUCAGCUCCAC
....................((((-(((.((((.....))))))))))).((((.(((((.((.(((......)))...))))))).)))). ( -23.70)
>DroEre_CAF1 1152 92 - 1
AAAUUCAAGCAAAUGUUUACAUUAUGGUCAUGCUUAAUACUUACCAAAUUUGGAACUGGGAGUCCGCACAAAAGCGAAAGCCUCAGCUCCAC
......(((((((((....)))).......)))))...............((((.(((((.((.(((......)))...))))))).)))). ( -19.01)
>DroYak_CAF1 1151 92 - 1
AGAUUAAAGCAAAUUCAUGCAUUUGGGUUAUGAUUACUACUUACCAAACUUGGAGCUGGGAGUUCGCACAAAAGCAAAAGCCUCAGCUCCCC
........(((......))).(((((.................)))))...(((((((((..((.((......)).))..)).))))))).. ( -23.93)
>DroPer_CAF1 10469 86 - 1
GGAUUAUACAAUAUUUA----UUCCGGACAGAGU--AUAUUUACCAUGGCUAGAGCUUGGAGUACGCACAAAGGCAAAAGCCUCGGCUCCAC
(((............((----((((((.((..((--(....)))..))((....)))))))))).((....((((....))))..))))).. ( -19.80)
>consensus
GGAUUAAAACAAAUUUACACAUUU_GGUCAUGAUUCAUACUUACCAAAUUUGGAACUGGGAGUCCGCACAAAAGCGAAAGCCUCAGCUCCAC
.........................(((.(((.......)))))).....((((.(((((.((.(((......)))...))))))).)))). (-12.71 = -13.27 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:05 2006