Locus 2035

Sequence ID 3L_DroMel_CAF1
Location 5,602,195 – 5,602,289
Length 94
Max. P 0.921003
window3179 window3180

overview

Window 9

Location 5,602,195 – 5,602,289
Length 94
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 81.31
Mean single sequence MFE -26.29
Consensus MFE -19.11
Energy contribution -20.62
Covariance contribution 1.50
Combinations/Pair 1.19
Mean z-score -1.96
Structure conservation index 0.73
SVM decision value 0.71
SVM RNA-class probability 0.830224
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5602195 94 + 23771897
CAACAAGCCAGCUGU---AGAUGCCGGCUUUUUGGGCCUACGCAUA--------UACCCGUAUGUCUCUCACAUUAACUUUGUGAGGGUAAACC--C-CGUACGUAUU
(((.(((((.((...---....)).))))).))).((.((((((((--------(....))))))((((((((.......))))))))......--.-.))).))... ( -27.70)
>DroSec_CAF1 21421 95 + 1
CAACAAGCCAGCUGU---AGAUGCCGGCUUUUUGGGCCUACGCAUA--------UACCCGUAUGUCUCUCACAUUAACUAUGUGAGGGUAAACC--CUCGUACGUAUU
(((.(((((.((...---....)).))))).))).((.((((((((--------(....))))))(((((((((.....)))))))))......--...))).))... ( -28.80)
>DroSim_CAF1 20653 95 + 1
CAACAAGCCAGCUGU---AGAUGCCGGCUUUUUGGGCCUACGCAUA--------UACCCGUAUGUCUCUCACAUUAACUAUGUGAGGGUAAACC--CUCGUACGUAUU
(((.(((((.((...---....)).))))).))).((.((((((((--------(....))))))(((((((((.....)))))))))......--...))).))... ( -28.80)
>DroEre_CAF1 22628 97 + 1
CAACAAGCCAGCUGU---AGAUGCCGGCUUUUUGGGCCUACGCAUA--------UACCCGUAUAUCUCUCACAUUAACUAUGUGAGGGUAAUCCCCCCUGUACGUAUU
(((.(((((.((...---....)).))))).))).((....))...--------....((((((.(((((((((.....)))))))))..........)))))).... ( -26.20)
>DroYak_CAF1 21001 102 + 1
CAACAAGCCAGCUGU---AGAUGCCGGCUUUUUGGGCCUACGCAUAUACGUUUAUACCCGUAUAUUUCUCACAUUAACUAUGUGAGGGUAGC---CCCCGUACGUCUU
..(((((((.((...---....)).)))))...((((.(((..(((((((........))))))).((((((((.....)))))))))))))---))..))....... ( -32.40)
>DroAna_CAF1 26677 90 + 1
------GCCAGCUGUAGUAGAUGCCGGCUU-UUGGGCCUACGCAUA--------CGCCCGUAUAUCUUUCGCUCUCUCUCCCAAAAAAAAAACC--A-UCUAUAUGUU
------(((.((..........)).)))((-(((((.....(((((--------(....)))).......)).......)))))))........--.-.......... ( -13.81)
>consensus
CAACAAGCCAGCUGU___AGAUGCCGGCUUUUUGGGCCUACGCAUA________UACCCGUAUAUCUCUCACAUUAACUAUGUGAGGGUAAACC__C_CGUACGUAUU
(((.(((((.((..........)).))))).))).((....))...............((((((.(((((((((.....)))))))))..........)))))).... (-19.11 = -20.62 +   1.50)

alignment

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secondary structure

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dotplot

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Window 0

Location 5,602,195 – 5,602,289
Length 94
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 81.31
Mean single sequence MFE -32.62
Consensus MFE -21.87
Energy contribution -22.49
Covariance contribution 0.61
Combinations/Pair 1.16
Mean z-score -2.82
Structure conservation index 0.67
SVM decision value 1.14
SVM RNA-class probability 0.921003
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 5602195 94 - 23771897
AAUACGUACG-G--GGUUUACCCUCACAAAGUUAAUGUGAGAGACAUACGGGUA--------UAUGCGUAGGCCCAAAAAGCCGGCAUCU---ACAGCUGGCUUGUUG
..........-(--(((((((.((((((.......)))))).(.((((......--------)))))))))))))...((((((((....---...)))))))).... ( -32.00)
>DroSec_CAF1 21421 95 - 1
AAUACGUACGAG--GGUUUACCCUCACAUAGUUAAUGUGAGAGACAUACGGGUA--------UAUGCGUAGGCCCAAAAAGCCGGCAUCU---ACAGCUGGCUUGUUG
...........(--(((((((.(((((((.....))))))).(.((((......--------)))))))))))))...((((((((....---...)))))))).... ( -33.80)
>DroSim_CAF1 20653 95 - 1
AAUACGUACGAG--GGUUUACCCUCACAUAGUUAAUGUGAGAGACAUACGGGUA--------UAUGCGUAGGCCCAAAAAGCCGGCAUCU---ACAGCUGGCUUGUUG
...........(--(((((((.(((((((.....))))))).(.((((......--------)))))))))))))...((((((((....---...)))))))).... ( -33.80)
>DroEre_CAF1 22628 97 - 1
AAUACGUACAGGGGGGAUUACCCUCACAUAGUUAAUGUGAGAGAUAUACGGGUA--------UAUGCGUAGGCCCAAAAAGCCGGCAUCU---ACAGCUGGCUUGUUG
.....(((..(((((.....))))).((((.....)))).......)))((((.--------((....)).))))...((((((((....---...)))))))).... ( -30.10)
>DroYak_CAF1 21001 102 - 1
AAGACGUACGGGG---GCUACCCUCACAUAGUUAAUGUGAGAAAUAUACGGGUAUAAACGUAUAUGCGUAGGCCCAAAAAGCCGGCAUCU---ACAGCUGGCUUGUUG
..(((.....(((---.((((.(((((((.....)))))))..(((((((........)))))))..)))).)))...((((((((....---...))))))))))). ( -41.30)
>DroAna_CAF1 26677 90 - 1
AACAUAUAGA-U--GGUUUUUUUUUUGGGAGAGAGAGCGAAAGAUAUACGGGCG--------UAUGCGUAGGCCCAA-AAGCCGGCAUCUACUACAGCUGGC------
...((((...-(--.((((((((((...)))))))))).)...))))..((((.--------((....)).))))..-..((((((..........))))))------ ( -24.70)
>consensus
AAUACGUACG_G__GGUUUACCCUCACAUAGUUAAUGUGAGAGACAUACGGGUA________UAUGCGUAGGCCCAAAAAGCCGGCAUCU___ACAGCUGGCUUGUUG
......................(((((((.....)))))))........((((..................))))...((((((((..........)))))))).... (-21.87 = -22.49 +   0.61)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:56 2006