Locus 8692

Sequence ID	X_DroMel_CAF1
Location	22,074,146 – 22,074,343
Length	197
Max. P	0.895769

overview

Window 8

Location	22,074,146 – 22,074,263
Length	117
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	93.06
Mean single sequence MFE	-35.51
Consensus MFE	-28.91
Energy contribution	-29.14
Covariance contribution	0.23
Combinations/Pair	1.09
Mean z-score	-2.05
Structure conservation index	0.81
SVM decision value	-0.03
SVM RNA-class probability	0.518886
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22074146 117 - 22224390
AUUGGACAUAAUCCGGGCCAUUUGAGAGUAAUCCCGGAGUGAACCGGGAUAAUUCAAACGGCCAGAUCGCUCAACAGGAUUCCCAAAGGG---GGCCACUCAAAAUCAUCACCCUAUCGC
.((((....(((((.((((.((((((....(((((((......)))))))..)))))).)))).((....))....))))).)))).(((---(.................))))..... ( -36.03)
>DroSec_CAF1 139423 120 - 1
AUUAGACAUAACCCGGGCCAUUUAAGAGUAAUUCCGGAGCGAUCUGGGAUAAUCCAAACGGCCAGAUCGCUCAACAGGAUUCCCAAAGGGUCGGGCCACCCAAAAUCAUCACCCUAUCGC
...........(((((.((.(((..(((....(((.(((((((((((......((....)))))))))))))....))))))..))))).)))))......................... ( -35.40)
>DroSim_CAF1 111902 120 - 1
AUUAGACAUAACCCGGGCCAUUUAAGAGUAAUUCCGGAGCGAUCUGGGAUAAUCCAAACGGCCAGAUCGCUCAACAGGAUUCCCAAAGGGGCGGGCCACCCAAAAUCAUCACCCUAUCGC
...............((((.............(((.(((((((((((......((....)))))))))))))....)))..(((....)))..))))....................... ( -35.10)
>consensus
AUUAGACAUAACCCGGGCCAUUUAAGAGUAAUUCCGGAGCGAUCUGGGAUAAUCCAAACGGCCAGAUCGCUCAACAGGAUUCCCAAAGGG_CGGGCCACCCAAAAUCAUCACCCUAUCGC
...............((((..........(((((..(((((((((((..............)))))))))))....)))))(((...)))...))))....................... (-28.91 = -29.14 +   0.23)

alignment

secondary structure

dotplot

Window 9

Location	22,074,183 – 22,074,303
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	91.67
Mean single sequence MFE	-45.77
Consensus MFE	-36.26
Energy contribution	-36.27
Covariance contribution	0.01
Combinations/Pair	1.16
Mean z-score	-3.39
Structure conservation index	0.79
SVM decision value	0.99
SVM RNA-class probability	0.895769
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22074183 120 + 22224390
AUCCUGUUGAGCGAUCUGGCCGUUUGAAUUAUCCCGGUUCACUCCGGGAUUACUCUCAAAUGGCCCGGAUUAUGUCCAAUGACCCAAAUCGGGAGGGGAUUAGAAAUAUGACGAAAUAGG
..((((((..(((((((((((((((((...(((((((......))))))).....)))))))).)))))))..((((.....(((.....)))...)))).........).)..)))))) ( -44.70)
>DroSec_CAF1 139463 120 + 1
AUCCUGUUGAGCGAUCUGGCCGUUUGGAUUAUCCCAGAUCGCUCCGGAAUUACUCUUAAAUGGCCCGGGUUAUGUCUAAUAGCCCAAGUCGGGAGAGGAUUAGGAAUAUGGCGCAAUAGG
..(((((((.(((((((((((....))......)))))))))(((..((((.(((((...((((..(((((((.....)))))))..)))).))))))))).)))........))))))) ( -46.30)
>DroSim_CAF1 111942 120 + 1
AUCCUGUUGAGCGAUCUGGCCGUUUGGAUUAUCCCAGAUCGCUCCGGAAUUACUCUUAAAUGGCCCGGGUUAUGUCUAAUAGCCCAAGUCGGGAGAGGAUUAGGAAUAUGGCGCAAUAGG
..(((((((.(((((((((((....))......)))))))))(((..((((.(((((...((((..(((((((.....)))))))..)))).))))))))).)))........))))))) ( -46.30)
>consensus
AUCCUGUUGAGCGAUCUGGCCGUUUGGAUUAUCCCAGAUCGCUCCGGAAUUACUCUUAAAUGGCCCGGGUUAUGUCUAAUAGCCCAAGUCGGGAGAGGAUUAGGAAUAUGGCGCAAUAGG
..(((((((((((((((((..............)))))))))))...((((.(((((...((((..(((((((.....)))))))..)))).))))))))).............)))))) (-36.26 = -36.27 +   0.01)

alignment

secondary structure

dotplot

Window 0

Location	22,074,223 – 22,074,343
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	89.33
Mean single sequence MFE	-34.93
Consensus MFE	-29.67
Energy contribution	-29.57
Covariance contribution	-0.10
Combinations/Pair	1.15
Mean z-score	-1.70
Structure conservation index	0.85
SVM decision value	-0.03
SVM RNA-class probability	0.517833
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 22074223 120 + 22224390
ACUCCGGGAUUACUCUCAAAUGGCCCGGAUUAUGUCCAAUGACCCAAAUCGGGAGGGGAUUAGAAAUAUGACGAAAUAGGGCCCCCGGCAAUAUUGCAUUGGAAGACAGGAAAAUACAUA
..((((((....(........).)))))).....(((((((.(((.....))).((((..(.....(((......))).)..))))..........)))))))................. ( -30.00)
>DroSec_CAF1 139503 116 + 1
GCUCCGGAAUUACUCUUAAAUGGCCCGGGUUAUGUCUAAUAGCCCAAGUCGGGAGAGGAUUAGGAAUAUGGCGCAAUAGGGCGCCGGGCAAUAUUGCAUUGGAAGUCAGGAAAAU----A
..(((.......(((((...((((..(((((((.....)))))))..)))).)))))((((.......((((((......)))))).(((....)))......)))).)))....----. ( -37.40)
>DroSim_CAF1 111982 116 + 1
GCUCCGGAAUUACUCUUAAAUGGCCCGGGUUAUGUCUAAUAGCCCAAGUCGGGAGAGGAUUAGGAAUAUGGCGCAAUAGGGCGCCGGGCAAUAUUGCAUUGGAAGUCAGGAAAAU----A
..(((.......(((((...((((..(((((((.....)))))))..)))).)))))((((.......((((((......)))))).(((....)))......)))).)))....----. ( -37.40)
>consensus
GCUCCGGAAUUACUCUUAAAUGGCCCGGGUUAUGUCUAAUAGCCCAAGUCGGGAGAGGAUUAGGAAUAUGGCGCAAUAGGGCGCCGGGCAAUAUUGCAUUGGAAGUCAGGAAAAU____A
..(((((((((.(((((...((((..(((((((.....)))))))..)))).)))))))))...........((((((..((.....))..)))))).)))))................. (-29.67 = -29.57 +  -0.10)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:10:28 2006