Locus 7340

Sequence ID 2L_DroMel_CAF1
Location 20,481,251 – 20,481,370
Length 119
Max. P 0.865723
window11775 window11776

overview

Window 5

Location 20,481,251 – 20,481,370
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 93.45
Mean single sequence MFE -32.38
Consensus MFE -26.64
Energy contribution -26.80
Covariance contribution 0.16
Combinations/Pair 1.12
Mean z-score -1.68
Structure conservation index 0.82
SVM decision value 0.85
SVM RNA-class probability 0.865723
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20481251 119 + 22407834
GUGCAUGUGUGCAUUUCAGUUUGAAAGUUUGUUACCCC-UUUCGGUAAUGAAUGCGUUUUAAUGAGCUUCAAGUUAUGACAGCAAAUAAGCUGGCAAUCGUAACAUGAGCCUCGCACUUU
((((......((.((((.....))))(((..(((((..-....)))))..)))))........(((.((((.(((((((((((......))))....))))))).)))).)))))))... ( -36.30)
>DroSec_CAF1 34144 115 + 1
----AUGUGUGCGUUUCAGUUUGAAAGUUUGUUACCCC-UUUCGGUAAUGAAUGCGUUUUAAUGAGCUUCAAGUUAUGACAGCAAAUAAGCUGGCAAUCGUAACAUGAGCCCCGCACUUU
----....(((((..(((....(((.(((..(((((..-....)))))..)))...)))...)))(((.((.(((((((((((......))))....))))))).)))))..)))))... ( -33.90)
>DroSim_CAF1 37965 115 + 1
----AUGUGUGCGUUUCAGUUUGAAAGUUUGUUACCCC-UUUCGGUAAUGAAUGCGUUUUAAUGAGCUUCAAGUUAUGACAGCAAAUAAGCUGGCAAUCGUAACAUGAGCCCCGCACUUU
----....(((((..(((....(((.(((..(((((..-....)))))..)))...)))...)))(((.((.(((((((((((......))))....))))))).)))))..)))))... ( -33.90)
>DroEre_CAF1 36227 119 + 1
GUGCAUGUGUGCAGUUCGGUUUGAAAGUUUGUUACCCC-UUUCGGUAAUGAAUGCGUUUUAAUGAGGUUCAAGUUGUGACAGCAAAUAAGCUGGCAAUCGUAACAUAAGCCCCGCUCUUU
(..(....)..)(((..((((((...(((..(((((..-....)))))..))).............(((...(((((..((((......)))))))))...))).))))))..))).... ( -26.60)
>DroYak_CAF1 33734 120 + 1
AUGCAUGUGUGCAUUUCAGUUUGAAAGUUUGUUACCCCGCUUCGGUAAUGAAUGCGUUUUAAUGAGCUUCAAGUUAUGACAGCAAAUAAGCUGGCAAUUGUAAUAUGAGCCCCGCUCUUU
.((((....(((...(((.((((((.(((..(((...(((((((....)))).)))...)))..)))))))))...)))((((......)))))))..))))....((((...))))... ( -31.20)
>consensus
_UGCAUGUGUGCAUUUCAGUUUGAAAGUUUGUUACCCC_UUUCGGUAAUGAAUGCGUUUUAAUGAGCUUCAAGUUAUGACAGCAAAUAAGCUGGCAAUCGUAACAUGAGCCCCGCACUUU
........((((...(((....(((.(((..(((((.......)))))..)))...)))...)))(((.((.(((((((((((......))))....))))))).)))))...))))... (-26.64 = -26.80 +   0.16)

alignment

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secondary structure

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dotplot

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Window 6

Location 20,481,251 – 20,481,370
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.45
Mean single sequence MFE -28.60
Consensus MFE -22.02
Energy contribution -22.82
Covariance contribution 0.80
Combinations/Pair 1.07
Mean z-score -1.90
Structure conservation index 0.77
SVM decision value 0.48
SVM RNA-class probability 0.753221
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20481251 119 - 22407834
AAAGUGCGAGGCUCAUGUUACGAUUGCCAGCUUAUUUGCUGUCAUAACUUGAAGCUCAUUAAAACGCAUUCAUUACCGAAA-GGGGUAACAAACUUUCAAACUGAAAUGCACACAUGCAC
...(((((.......((((((((.(((((((......))))(((.....))).............))).))....((....-)).))))))...((((.....)))))))))........ ( -29.50)
>DroSec_CAF1 34144 115 - 1
AAAGUGCGGGGCUCAUGUUACGAUUGCCAGCUUAUUUGCUGUCAUAACUUGAAGCUCAUUAAAACGCAUUCAUUACCGAAA-GGGGUAACAAACUUUCAAACUGAAACGCACACAU----
...(((((.......((((((((.(((((((......))))(((.....))).............))).))....((....-)).))))))...((((.....)))))))))....---- ( -31.60)
>DroSim_CAF1 37965 115 - 1
AAAGUGCGGGGCUCAUGUUACGAUUGCCAGCUUAUUUGCUGUCAUAACUUGAAGCUCAUUAAAACGCAUUCAUUACCGAAA-GGGGUAACAAACUUUCAAACUGAAACGCACACAU----
...(((((.......((((((((.(((((((......))))(((.....))).............))).))....((....-)).))))))...((((.....)))))))))....---- ( -31.60)
>DroEre_CAF1 36227 119 - 1
AAAGAGCGGGGCUUAUGUUACGAUUGCCAGCUUAUUUGCUGUCACAACUUGAACCUCAUUAAAACGCAUUCAUUACCGAAA-GGGGUAACAAACUUUCAAACCGAACUGCACACAUGCAC
.....((((......((((((((.(((((((......))))(((.....))).............))).))....((....-)).))))))....(((.....))))))).......... ( -26.40)
>DroYak_CAF1 33734 120 - 1
AAAGAGCGGGGCUCAUAUUACAAUUGCCAGCUUAUUUGCUGUCAUAACUUGAAGCUCAUUAAAACGCAUUCAUUACCGAAGCGGGGUAACAAACUUUCAAACUGAAAUGCACACAUGCAU
.....((((((((((..(((....((.((((......)))).)))))..)).)))))........(((((..(((((.......))))).......((.....))))))).....))).. ( -23.90)
>consensus
AAAGUGCGGGGCUCAUGUUACGAUUGCCAGCUUAUUUGCUGUCAUAACUUGAAGCUCAUUAAAACGCAUUCAUUACCGAAA_GGGGUAACAAACUUUCAAACUGAAAUGCACACAUGCA_
...((((((((((((.((((....((.((((......)))).)))))).)).)))))...............(((((.......)))))..................)))))........ (-22.02 = -22.82 +   0.80)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:08 2006