Locus 211

Sequence ID 2R_DroMel_CAF1
Location 1,509,585 – 1,509,772
Length 187
Max. P 0.787976
window476 window477 window478

overview

Window 6

Location 1,509,585 – 1,509,679
Length 94
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 93.01
Mean single sequence MFE -26.71
Consensus MFE -19.78
Energy contribution -20.86
Covariance contribution 1.08
Combinations/Pair 1.08
Mean z-score -2.09
Structure conservation index 0.74
SVM decision value 0.30
SVM RNA-class probability 0.680492
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1509585 94 + 20766785
UUGGUUACAACACUC-AAACAGACUGACAAAUAGACAUGCGUCGAUGGCUAGGGGAGGUUAGCGAAGGACAAACAUAUCUGGCCAUUCGGCCAUA
(..(((.........-.....)))..).........(((.(((((((((((((....(((.((....).).)))...)))))))).)))))))). ( -24.34)
>DroSec_CAF1 40626 94 + 1
GUGGUUACAACACUC-AAACAGACUGACAAAUAGACAUGCGUCGAUGGCUAGGAGAGGUUAGCGAAGGACACACAUAUCUGGCCAUUCGGCCAUA
(((.......)))..-....................(((.(((((((((((((....((...(....)..)).....)))))))).)))))))). ( -23.10)
>DroSim_CAF1 44925 94 + 1
GUGGUUACAACACCC-AAACAGACUGACAAAUAGACAUGCGUCGAUGGCUAGGAGAGGUUAGCGAAGGACAAACAUAUCUGGCCAUUCGGCCAUA
(((.......)))..-....................(((.(((((((((((((....(((.((....).).)))...)))))))).)))))))). ( -24.20)
>DroEre_CAF1 49241 92 + 1
GUGGUUACAACACUCGAAACAGAGUGACAAAUAGACAUGCGUGGAUGGCUAG--GAGGUUAGCGAAGGACAAACACAU-UGGCCAUUCGGCCAUA
((((((....(((((......)))))................((((((((((--...(((.((....).).)))...)-))))))))))))))). ( -30.80)
>DroYak_CAF1 64530 94 + 1
GUGGUUACAACACUC-AAACAGAGUGACAAAUAGACAUACGUGAAUGGCUAGGGGAGGUAAGCGAAGGACAAACACAUCUGGCCAUUCAGCCAUA
((((((....(((((-.....)))))................(((((((((((....((...(....)....))...))))))))))))))))). ( -31.10)
>consensus
GUGGUUACAACACUC_AAACAGACUGACAAAUAGACAUGCGUCGAUGGCUAGGAGAGGUUAGCGAAGGACAAACAUAUCUGGCCAUUCGGCCAUA
((((((...........................(((....)))((((((((((....(((.((....).).)))...)))))))))).)))))). (-19.78 = -20.86 +   1.08)

alignment

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secondary structure

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dotplot

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Window 7

Location 1,509,639 – 1,509,740
Length 101
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.14
Mean single sequence MFE -29.18
Consensus MFE -21.64
Energy contribution -22.40
Covariance contribution 0.76
Combinations/Pair 1.14
Mean z-score -1.71
Structure conservation index 0.74
SVM decision value 0.58
SVM RNA-class probability 0.787976
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1509639 101 + 20766785
AGGUUAGCGAAGGACAAACAUAUCUGGCCAUUCGGCCAUAA-------------------ACCUAGUGUUCUAUACAUCCAAACUUCCCGUUUUGGGUGAAGUAAGCUGCUCGCCAGUGA
.(((.((((.((((((........(((((....)))))...-------------------......))))))...((((((((........))))))))........)))).)))..... ( -30.93)
>DroSec_CAF1 40680 101 + 1
AGGUUAGCGAAGGACACACAUAUCUGGCCAUUCGGCCAUAA-------------------ACCCAGUGUUCUAUACAUCCGAACUUCCCGUUUCGGGCGAAGUAAACUGCCAGCCAGUGA
.((((.(((.(((((((.......(((((....)))))...-------------------.....)))))))..........(((((((......)).)))))....))).))))..... ( -30.66)
>DroSim_CAF1 44979 101 + 1
AGGUUAGCGAAGGACAAACAUAUCUGGCCAUUCGGCCAUAA-------------------ACCUAGUGUUCUAUACAUCCGAACUUCCCGUUUUGGGCGAAGUAAACUGCCAGCCAGUGA
.((((.(((.((((((........(((((....)))))...-------------------......))))))..........(((((((......)).)))))....))).))))..... ( -28.73)
>DroEre_CAF1 49294 119 + 1
AGGUUAGCGAAGGACAAACACAU-UGGCCAUUCGGCCAUAAGCACUCCCUCUUAACCCAGGCCUAGAGUUCUAUACAUCCAAACUUUCAGUUUUGGGUGAUGUAAACUGCUCACCAGUGA
.((((((.((.(((.........-(((((....))))).......))).))))))))........((((..((((((((((((........)))))))).))))....))))........ ( -31.99)
>DroYak_CAF1 64584 120 + 1
AGGUAAGCGAAGGACAAACACAUCUGGCCAUUCAGCCAUAAAAACUUCAUCCACACAAAAACCUAGGGUCCUAUACAUCCAAAAUUCCCGUUCUGGCUGAAGUAAACUGCUCACCAGUGA
.(((.((((...............((((......)))).....((((((.(((.((.........((((.......)))).........))..))).))))))....)))).)))..... ( -23.57)
>consensus
AGGUUAGCGAAGGACAAACAUAUCUGGCCAUUCGGCCAUAA___________________ACCUAGUGUUCUAUACAUCCAAACUUCCCGUUUUGGGUGAAGUAAACUGCUCGCCAGUGA
.(((.((((....((.........(((((....))))).....................................((((((((........))))))))..))....)))).)))..... (-21.64 = -22.40 +   0.76)

alignment

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secondary structure

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dotplot

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Window 8

Location 1,509,679 – 1,509,772
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 83.46
Mean single sequence MFE -19.40
Consensus MFE -15.69
Energy contribution -16.47
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -1.46
Structure conservation index 0.81
SVM decision value -0.03
SVM RNA-class probability 0.516964
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 1509679 93 - 20766785
AAAAAAAAAAAAAAAACAAAGGCCAUCCAAAAUCACUGGCGAGCAGCUUACUUCACCCAAAACGGGAAGUUUGGAUGUAUAGAACACUAGGUU
....................(((((((((((......(((.....)))..((((.((......)))))))))))))...(((....))))))) ( -16.70)
>DroSec_CAF1 40720 80 - 1
AA-------------ACAAAGGCGAGCCAAAAUCACUGGCUGGCAGUUUACUUCGCCCGAAACGGGAAGUUCGGAUGUAUAGAACACUGGGUU
.(-------------((..((((.(((((.......))))).)).((((....((.(((((.(.....)))))).))....)))).))..))) ( -22.10)
>DroSim_CAF1 45019 80 - 1
AA-------------ACAAAGGCGAGCCAAAAUCACUGGCUGGCAGUUUACUUCGCCCAAAACGGGAAGUUCGGAUGUAUAGAACACUAGGUU
.(-------------((..((((.(((((.......))))).))...........(((.....)))..((((.........)))).))..))) ( -19.40)
>consensus
AA_____________ACAAAGGCGAGCCAAAAUCACUGGCUGGCAGUUUACUUCGCCCAAAACGGGAAGUUCGGAUGUAUAGAACACUAGGUU
.....................((.(((((.......))))).)).....(((((.((......)))))))((((.(((.....)))))))... (-15.69 = -16.47 +   0.78)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:32:34 2006