Locus 7001

Sequence ID 3L_DroMel_CAF1
Location 18,919,480 – 18,919,624
Length 144
Max. P 0.889875
window11359 window11360

overview

Window 9

Location 18,919,480 – 18,919,584
Length 104
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 77.93
Mean single sequence MFE -31.47
Consensus MFE -17.99
Energy contribution -18.02
Covariance contribution 0.03
Combinations/Pair 1.14
Mean z-score -2.08
Structure conservation index 0.57
SVM decision value 0.96
SVM RNA-class probability 0.889875
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18919480 104 - 23771897
CGAAGAUGCUGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAGAUGGCCAGGCUGAGGAAGGCGGUCAUGUCUGUAAGUGAGUUCCCAG---AAA-------UCCAAUUAGUU-
.......((((((.....((((..((..(((.((((((((....)))))))).)))..)).((.(.((((........)))).).))...---..)-------))).)))))).- ( -31.70)
>DroVir_CAF1 58145 113 - 1
GGUAUAUGGAAAUGUUGAGUAUGGUCAGCAAUGCGGCUAUGAAGAUGGCCAGCGAGAGAAAGGCCGUCAUGUCUGUGAGAGA--UAAAAAAAUAAACAGGUUAUUCAAUUAGCUU
.((((.......((((((......))))))))))((((((((((((((((..(....)...))))))).(((((.....)))--)).................))))..))))). ( -28.71)
>DroPse_CAF1 58506 102 - 1
AGUAGAUGCAGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAAAUGGCCAGGCUAAGGAAGGCAGUCAUAUCUGA--GGGAUGUGCACA---CAA-------CCGUAUUAGUA-
....(((((...((((((......))))))((((((((((....))))))))(((......))).((((((((...--..)))))).)).---...-------)))))))....- ( -33.10)
>DroEre_CAF1 54985 104 - 1
CGAAGAUGCUGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAGAUGGCCAGGCUGAGGAAGGCCGUCAUGUCUGUAAGUGAGUUCCCGA---GAA-------UCCAAUUAGUA-
......(((((((......(((((((..(((.((((((((....)))))))).))).....)))))))...........((..(((....---)))-------..)))))))))- ( -34.70)
>DroYak_CAF1 53501 104 - 1
CAAAGAUGCUGAUGUUGAGGAUGGUCAGCAGGGUGGCUAUGAAGAUGGCCAGGCUGAGGAAGGCAGUCAUGUCUGUAAGUGAGUUCCCAA---CAG-------UCCAAUAAGUA-
......((((..(((((.(((.(.((((((((.(((((((....)))))))(((((.......)))))...)))))...))).)))))))---)).-------.......))))- ( -28.90)
>DroPer_CAF1 59361 102 - 1
AGUAGAUGCAGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAAAUGGCCAGGCUAAGGAACGCAGUCAUAUCUGA--GGGAUGUGCACA---CAA-------CCGUAUUAGUA-
....(((((...((((((......))))))((((((((((....))))))))((........)).((((((((...--..)))))).)).---...-------)))))))....- ( -31.70)
>consensus
CGAAGAUGCAGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAGAUGGCCAGGCUGAGGAAGGCAGUCAUGUCUGUAAGUGAGUUCCAAA___CAA_______UCCAAUUAGUA_
....(((((...((((((......))))))((((((((((....)))))).)))).......)).)))............................................... (-17.99 = -18.02 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 18,919,504 – 18,919,624
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.06
Mean single sequence MFE -41.52
Consensus MFE -20.52
Energy contribution -19.63
Covariance contribution -0.89
Combinations/Pair 1.43
Mean z-score -1.89
Structure conservation index 0.49
SVM decision value 0.17
SVM RNA-class probability 0.614951
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18919504 120 - 23771897
GGCUUGUCCAGGUGACGACGCAGCCGAGAGACUGUCGUUGCGAAGAUGCUGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAGAUGGCCAGGCUGAGGAAGGCGGUCAUGUCUGUAAGU
((((((((..(....))))).))))((.((((((((.((.(......((((((..........))))))((.((((((((....)))))))).))..).))))))))).).))....... ( -45.00)
>DroVir_CAF1 58178 120 - 1
GGUUUGUUCAAAUGACGACGCAGCCGCGAUACGGUCGUCAGGUAUAUGGAAAUGUUGAGUAUGGUCAGCAAUGCGGCUAUGAAGAUGGCCAGCGAGAGAAAGGCCGUCAUGUCUGUGAGA
......((((...((((.((.(((((((((((.........)))).......((((((......)))))).))))))).))..(((((((..(....)...))))))).))))..)))). ( -39.70)
>DroPse_CAF1 58530 118 - 1
GGCUUGUUCAGGUGGCGCCUCAGACGCGACACUGUGGUCGAGUAGAUGCAGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAAAUGGCCAGGCUAAGGAAGGCAGUCAUAUCUGA--GG
......((((((((((((((((..(.((((((((((.((.....))))))).))))).)..)).((...((.((((((((....)))))))).))...)))))).)))))..))))--). ( -45.60)
>DroMoj_CAF1 61566 119 - 1
GGCUUGUUGAGAUGCCGACGCAGCCGCGACACAGUGGUCAGAUAUAUGGAAAUGUUUAGUAUGGUCAGCAUUGCGGCCACGAAGAUGGCCAGCGAGACAAAGGCCGUCAUAUCUGA-AGA
(((((((((......))))).))))............((((((((((((...(((((.((.((((((...((.((....))))..)))))))).)))))....)))).))))))))-... ( -37.80)
>DroAna_CAF1 52606 120 - 1
GGUUUGCUCAAGUGGCGGCACAUCCUCGAGACGGUGGUGGAGAAGAUGCAGAUGUUCAGGAUGGUCAGCAAACUGGCCACAAAAAUGGCCAAGCUGACAAAGGCAGUCAUGUCUGAUGAU
.......(((.(((((.((.((((((.(((.((...(((.......)))...)))))))))))((((((....((((((......)))))).))))))....)).)))))...))).... ( -39.00)
>DroPer_CAF1 59385 118 - 1
GGCUUGUUAAGGUGGCGCCUCAGACGCGACACAGUGGUCGAGUAGAUGCAGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAAAUGGCCAGGCUAAGGAACGCAGUCAUAUCUGA--GG
.((((....))))....((((((((.((((......)))).)).(((((....(((((......)))))((.((((((((....)))))))).)).......))).))....))))--)) ( -42.00)
>consensus
GGCUUGUUCAGGUGGCGACGCAGCCGCGACACAGUGGUCGAGUAGAUGCAGAUGUUGAGGAUGGUCAGCAGGCUGGCUAUGAAAAUGGCCAGGCUGAGAAAGGCAGUCAUAUCUGA_AGA
...........(((((....................................((((((......))))))((((((((((....)))))).))))..........))))).......... (-20.52 = -19.63 +  -0.89)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:17 2006