Locus 8315

Sequence ID	3L_DroMel_CAF1
Location	21,767,703 – 21,767,802
Length	99
Max. P	0.983588

overview

Window 8

Location	21,767,703 – 21,767,802
Length	99
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	78.05
Mean single sequence MFE	-36.58
Consensus MFE	-24.60
Energy contribution	-24.75
Covariance contribution	0.15
Combinations/Pair	1.25
Mean z-score	-2.79
Structure conservation index	0.67
SVM decision value	1.95
SVM RNA-class probability	0.983588
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21767703 99 + 23771897
CAGCUCAGAGGAGGAGGUCAAACCCGCUGCUAAAUCUGCUGCCAAGUUGGCUCCUGCUAAGAAGGGGGCUUCCUCUAGUGAUGAUAGUUCCUCUGAAGA
....(((((((((((((((...(((((.((.......)).))....(((((....)))))...)))))))))).(((.......))).))))))))... ( -34.80)
>DroSec_CAF1 2930 87 + 1
CACCUCAGAGGAGGAGGCCAAACCCGCU------------GCCAAGGCGGCUCCUGCUAAGAAGGCGGCUUCCCCUAGUGAUGAUAGUUCCUCUGAAGA
..(.(((((((((((((((......(((------------((....)))))....(((.....)))))))))).(((.......))).)))))))).). ( -37.40)
>DroSim_CAF1 2446 87 + 1
CACCUCAGAGGAGGAGGCCAAACCCGCU------------GCCAAGGCGGCUCCUGCUAAGAAGGCGGCUUCCCCUAGUGAUGAUAGUUCCUCUGAAGA
..(.(((((((((((((((......(((------------((....)))))....(((.....)))))))))).(((.......))).)))))))).). ( -37.40)
>DroEre_CAF1 2430 96 + 1
CAGCUCAGAGGAGGAGGCCAAGCCCGCAGCUAAAUC---UGCCAAGGCGGCUCCUGCUAAGAAGGCGGCUUCCUCUAGUGAUGAUAGUUCCUCUGAAGA
....(((((((((((((((..(((.((((......)---)))...)))(.((.((....)).)).)))))))).(((.......))).))))))))... ( -37.90)
>DroYak_CAF1 2495 99 + 1
UAGCUCAGAGGAAGAGACCAAACCCUCUUCUAAAUCUUCUGUCAAGGCGGCUCCUGCUAAGAAGGCGGCGUCCUCUAGUGACGAUAGUUCCUCUGAAGA
....((((((((((((........)))........((..((((((((((.(.(((.......))).).)).)))....)))))..)))))))))))... ( -30.70)
>DroPer_CAF1 3100 97 + 1
--ACUCCGAGGAAGAAGAAAAGCCGGCAGCAAAGGCUCCAGCUAAGGCAGCCCCCAAAAAGCUUGCUGCUUCCUCCAGCGAGGAUAGUUCCUCGGAGGA
--.((((((((((...........((((((((.((((((......)).))))..........))))))))(((((....)))))...)))))))))).. ( -41.30)
>consensus
CAGCUCAGAGGAGGAGGCCAAACCCGCUGCUAAAUC___UGCCAAGGCGGCUCCUGCUAAGAAGGCGGCUUCCUCUAGUGAUGAUAGUUCCUCUGAAGA
....(((((((((((((((.....................(((.....))).(((.......))).))))))).(((.......))).))))))))... (-24.60 = -24.75 +   0.15)

alignment

secondary structure

dotplot

Window 9

Location	21,767,703 – 21,767,802
Length	99
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	78.05
Mean single sequence MFE	-34.10
Consensus MFE	-23.60
Energy contribution	-23.13
Covariance contribution	-0.47
Combinations/Pair	1.29
Mean z-score	-1.73
Structure conservation index	0.69
SVM decision value	1.04
SVM RNA-class probability	0.904396
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21767703 99 - 23771897
UCUUCAGAGGAACUAUCAUCACUAGAGGAAGCCCCCUUCUUAGCAGGAGCCAACUUGGCAGCAGAUUUAGCAGCGGGUUUGACCUCCUCCUCUGAGCUG
..(((((((((.............(((((((((((((.......))).(((.....))).((.......))...))))))..)))).)))))))))... ( -28.84)
>DroSec_CAF1 2930 87 - 1
UCUUCAGAGGAACUAUCAUCACUAGGGGAAGCCGCCUUCUUAGCAGGAGCCGCCUUGGC------------AGCGGGUUUGGCCUCCUCCUCUGAGGUG
.((((((((((.(((.......))).(((.((((((((((.....)))((.((....))------------.))))))..))).))))))))))))).. ( -33.60)
>DroSim_CAF1 2446 87 - 1
UCUUCAGAGGAACUAUCAUCACUAGGGGAAGCCGCCUUCUUAGCAGGAGCCGCCUUGGC------------AGCGGGUUUGGCCUCCUCCUCUGAGGUG
.((((((((((.(((.......))).(((.((((((((((.....)))((.((....))------------.))))))..))).))))))))))))).. ( -33.60)
>DroEre_CAF1 2430 96 - 1
UCUUCAGAGGAACUAUCAUCACUAGAGGAAGCCGCCUUCUUAGCAGGAGCCGCCUUGGCA---GAUUUAGCUGCGGGCUUGGCCUCCUCCUCUGAGCUG
..(((((((((.(((.......))).(((.((((.(((((....))))).)((((..(((---(......))))))))..))).))))))))))))... ( -36.10)
>DroYak_CAF1 2495 99 - 1
UCUUCAGAGGAACUAUCGUCACUAGAGGACGCCGCCUUCUUAGCAGGAGCCGCCUUGACAGAAGAUUUAGAAGAGGGUUUGGUCUCUUCCUCUGAGCUA
..((((((((((.....(((.(....))))(((((((((((..((((......)))).............))))))))..)))...))))))))))... ( -28.86)
>DroPer_CAF1 3100 97 - 1
UCCUCCGAGGAACUAUCCUCGCUGGAGGAAGCAGCAAGCUUUUUGGGGGCUGCCUUAGCUGGAGCCUUUGCUGCCGGCUUUUCUUCUUCCUCGGAGU--
..((((((((((...(((((....))))).(((((((.((....))(((((.((......))))))))))))))............)))))))))).-- ( -43.60)
>consensus
UCUUCAGAGGAACUAUCAUCACUAGAGGAAGCCGCCUUCUUAGCAGGAGCCGCCUUGGCA___GAUUUAGCAGCGGGUUUGGCCUCCUCCUCUGAGCUG
..(((((((((.(((.......))).(((.((((((((((.....)))(((.....)))...............))))..))).))))))))))))... (-23.60 = -23.13 +  -0.47)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:12:23 2006