Locus 7396

Sequence ID 2L_DroMel_CAF1
Location 20,572,813 – 20,572,961
Length 148
Max. P 0.979852
window11879 window11880 window11881

overview

Window 9

Location 20,572,813 – 20,572,921
Length 108
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 86.44
Mean single sequence MFE -28.56
Consensus MFE -19.06
Energy contribution -19.25
Covariance contribution 0.19
Combinations/Pair 1.11
Mean z-score -1.91
Structure conservation index 0.67
SVM decision value 0.32
SVM RNA-class probability 0.685999
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20572813 108 - 22407834
CAGACAAACACUGGCCCACUUUGGCCCCACAUCUCC-CCAGAUACUGGACAGCCAACCUGGCCGGCAAGCAGGAGCAACCAUCCCUUAGCCCCAUGUAACCAUGUCCCC
..((((....((((((....(((((.(((.((((..-..))))..)))...)))))...))))))...(((((.((............)).)).))).....))))... ( -28.10)
>DroSec_CAF1 87609 100 - 1
CAGACAAACACUGGCCCAGUUUGGCCCCACAUCUCC-CCAGCCACUGGGCAGCCAACCUGGCCGGGAAGCAGGAGCAACCAUCCCUUAGCCCCA--------UGUCCCC
..((((......((((.((.(((((..........(-((((...)))))..))))).))))))(((.....(((.......))).....)))..--------))))... ( -31.00)
>DroSim_CAF1 88293 100 - 1
CAGACAAACACUGGCCCAGUUUGGCCCCACAUCUCC-CCAGCCACUGGGCAGCCAACCUGGCCGGGAAGCAGGAGCAACCAUCCCUUAACCCCA--------UGUCCCC
..((((......((((.((.(((((..........(-((((...)))))..))))).))))))(((.....(((.......)))......))).--------))))... ( -30.20)
>DroYak_CAF1 81967 99 - 1
CAGUAUAACACUGGCCCAC--UGGCCCCACAUCUACAGCCGCCACUGGGCAAGCAACCUGUCCGGGAAGCAGGAGUAACCAUCCCUUAGCCCCA--------UAUCCCC
((((.....))))(((((.--((((...............)))).)))))..((..(((....)))..)).(((.......)))..........--------....... ( -24.96)
>consensus
CAGACAAACACUGGCCCACUUUGGCCCCACAUCUCC_CCAGCCACUGGGCAGCCAACCUGGCCGGGAAGCAGGAGCAACCAUCCCUUAGCCCCA________UGUCCCC
............((((......))))....................((((((((.....))).(((.....(((.......))).....)))..........))))).. (-19.06 = -19.25 +   0.19)

alignment

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secondary structure

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dotplot

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Window 0

Location 20,572,842 – 20,572,961
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 81.76
Mean single sequence MFE -46.32
Consensus MFE -31.04
Energy contribution -31.64
Covariance contribution 0.60
Combinations/Pair 1.12
Mean z-score -1.60
Structure conservation index 0.67
SVM decision value -0.02
SVM RNA-class probability 0.523926
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20572842 119 + 22407834
GGUUGCUCCUGCUUGCCGGCCAGGUUGGCUGUCCAGUAUCUGG-GGAGAUGUGGGGCCAAAGUGGGCCAGUGUUUGUCUGGGCAUGACAGCAACUAAGCUGCAGCUGAGCGGGAUUUGAU
......((((((((((((((..(((((.(((((..((..(..(-(.(((..(..((((......)))).)..))).))..)..))))))))))))..))))..)).))))))))...... ( -48.70)
>DroSec_CAF1 87630 119 + 1
GGUUGCUCCUGCUUCCCGGCCAGGUUGGCUGCCCAGUGGCUGG-GGAGAUGUGGGGCCAAACUGGGCCAGUGUUUGUCUGGGCAUGACAGCAACUAAGCUGCAGCUGAGCAGGAUUCGAU
.((((.(((((((((((((((((((.....)))...)))))))-).(((..(..((((......)))).)..))).....(((.((.((((......)))))))))))))))))..)))) ( -49.30)
>DroSim_CAF1 88314 119 + 1
GGUUGCUCCUGCUUCCCGGCCAGGUUGGCUGCCCAGUGGCUGG-GGAGAUGUGGGGCCAAACUGGGCCAGUGUUUGUCUGGGCAUGACAGCAACUAAGCUGCAGCUGAGCAGGAUUUGAU
(((((((((..((((((((((((((.....)))...)))))))-))))....)))))..))))....(((..((((.((.(((.((.((((......))))))))).))))))..))).. ( -48.70)
>DroEre_CAF1 79650 96 + 1
-GUUACUCCUGCUG-CAGGACAGGUUGCUUGCCCAGUGGC---UGCGGAUG-------------------UGUUUACCUGGGCAUGACAGCAACUAAGCUGCAGCUAAGCGGGAUUUGAU
-....(((((((((-(((....((((((((((((((.(..---.(((....-------------------)))...))))))))....)))))))...)))))))..)).)))....... ( -37.00)
>DroYak_CAF1 81988 118 + 1
GGUUACUCCUGCUUCCCGGACAGGUUGCUUGCCCAGUGGCGGCUGUAGAUGUGGGGCCA--GUGGGCCAGUGUUAUACUGGCCAUGACAGCAAGUAAACUGCAGCUGAGCGGGAUUUGAU
......((((((((....(.(((.((((((((.((.((((..(..(....)..).))))--.))((((((((...))))))))......)))))))).))))....))))))))...... ( -47.90)
>consensus
GGUUGCUCCUGCUUCCCGGCCAGGUUGGCUGCCCAGUGGCUGG_GGAGAUGUGGGGCCAAACUGGGCCAGUGUUUGUCUGGGCAUGACAGCAACUAAGCUGCAGCUGAGCGGGAUUUGAU
......((((((((........(((((..(((((((........(.(((((...((((......))))..))))).))))))))...((((......)))))))))))))))))...... (-31.04 = -31.64 +   0.60)

alignment

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secondary structure

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dotplot

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Window 1

Location 20,572,842 – 20,572,961
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 81.76
Mean single sequence MFE -39.63
Consensus MFE -26.74
Energy contribution -26.70
Covariance contribution -0.04
Combinations/Pair 1.15
Mean z-score -2.67
Structure conservation index 0.67
SVM decision value 1.85
SVM RNA-class probability 0.979852
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20572842 119 - 22407834
AUCAAAUCCCGCUCAGCUGCAGCUUAGUUGCUGUCAUGCCCAGACAAACACUGGCCCACUUUGGCCCCACAUCUCC-CCAGAUACUGGACAGCCAACCUGGCCGGCAAGCAGGAGCAACC
..........((((.((((((((......)))))..((((.((.......))((((....(((((.(((.((((..-..))))..)))...)))))...)))))))))))..)))).... ( -37.00)
>DroSec_CAF1 87630 119 - 1
AUCGAAUCCUGCUCAGCUGCAGCUUAGUUGCUGUCAUGCCCAGACAAACACUGGCCCAGUUUGGCCCCACAUCUCC-CCAGCCACUGGGCAGCCAACCUGGCCGGGAAGCAGGAGCAACC
......((((((((.((((((((......)))).)).))...........((((((.((.(((((..........(-((((...)))))..))))).))))))))).)))))))...... ( -44.00)
>DroSim_CAF1 88314 119 - 1
AUCAAAUCCUGCUCAGCUGCAGCUUAGUUGCUGUCAUGCCCAGACAAACACUGGCCCAGUUUGGCCCCACAUCUCC-CCAGCCACUGGGCAGCCAACCUGGCCGGGAAGCAGGAGCAACC
......((((((((.((((((((......)))).)).))...........((((((.((.(((((..........(-((((...)))))..))))).))))))))).)))))))...... ( -44.00)
>DroEre_CAF1 79650 96 - 1
AUCAAAUCCCGCUUAGCUGCAGCUUAGUUGCUGUCAUGCCCAGGUAAACA-------------------CAUCCGCA---GCCACUGGGCAAGCAACCUGUCCUG-CAGCAGGAGUAAC-
..........((((.(((((((..((((((((....(((((((.......-------------------........---....)))))))))))).)))..)))-))))..))))...- ( -35.31)
>DroYak_CAF1 81988 118 - 1
AUCAAAUCCCGCUCAGCUGCAGUUUACUUGCUGUCAUGGCCAGUAUAACACUGGCCCAC--UGGCCCCACAUCUACAGCCGCCACUGGGCAAGCAACCUGUCCGGGAAGCAGGAGUAACC
......(((((..(((.(((.(((((((.(((.....))).)))).)))....(((((.--((((...............)))).)))))..)))..)))..)))))............. ( -37.86)
>consensus
AUCAAAUCCCGCUCAGCUGCAGCUUAGUUGCUGUCAUGCCCAGACAAACACUGGCCCACUUUGGCCCCACAUCUCC_CCAGCCACUGGGCAGCCAACCUGGCCGGGAAGCAGGAGCAACC
..........((((.((((((((......)))))..(((((((.........((((......))))......(.......)...)))))))(((.....))).....)))..)))).... (-26.74 = -26.70 +  -0.04)

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 12:35:41 2006