Locus 7204

Sequence ID 3R_DroMel_CAF1
Location 18,969,555 – 18,969,656
Length 101
Max. P 0.838207
window11655 window11656

overview

Window 5

Location 18,969,555 – 18,969,656
Length 101
Sequences 3
Columns 114
Reading direction forward
Mean pairwise identity 87.84
Mean single sequence MFE -22.78
Consensus MFE -18.75
Energy contribution -18.87
Covariance contribution 0.11
Combinations/Pair 1.05
Mean z-score -2.20
Structure conservation index 0.82
SVM decision value 0.54
SVM RNA-class probability 0.775337
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18969555 101 + 27905053
AGCAAGCGAGACGGCCAGCGGUCCUCAUAAUCACGAUCAUAUAGAUCGCGCUCU-------UAGCCGAAACGGCUCACAAA---AAAUACAGAAAAGAGUUAAAAC---AAAAA
.....(((((((.(....).)).)))........((((.....))))))(((((-------((((((...)))))......---..........))))))......---..... ( -20.99)
>DroEre_CAF1 81114 100 + 1
AGCAAGCGAGACGGCCAGCGGGCCUCAUAAUCACGAUCAUAUAGAUCGCGCUCU-------UAGCCGAAACUGCUCACAAA---AAAUUCAGAAAAGAGCUAAAAA----AAAA
.....((..((.((((....))))))........((((.....))))))(((((-------(..(.(((............---...))).)..))))))......----.... ( -22.86)
>DroYak_CAF1 83637 114 + 1
AGCAAGCGAGACGGCCAGCGGGCCUCAUAAUCACGAUCAUAUAGAUCGCGCUCUUAGCUCUUAGCCGAAACUGCUCACAAAAAAAAAUACAGAAAACAGCUAAAAAGCAAAAAA
....((((.((.((((....)))))).......(((((.....)))))))))....(((.(((((.(...(((................)))....).)))))..)))...... ( -24.49)
>consensus
AGCAAGCGAGACGGCCAGCGGGCCUCAUAAUCACGAUCAUAUAGAUCGCGCUCU_______UAGCCGAAACUGCUCACAAA___AAAUACAGAAAAGAGCUAAAAA___AAAAA
(((.((((.((.((((....)))))).......(((((.....)))))))))..........(((.......))).......................)))............. (-18.75 = -18.87 +   0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 18,969,555 – 18,969,656
Length 101
Sequences 3
Columns 114
Reading direction reverse
Mean pairwise identity 87.84
Mean single sequence MFE -30.08
Consensus MFE -25.28
Energy contribution -25.28
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.28
Structure conservation index 0.84
SVM decision value 0.74
SVM RNA-class probability 0.838207
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18969555 101 - 27905053
UUUUU---GUUUUAACUCUUUUCUGUAUUU---UUUGUGAGCCGUUUCGGCUA-------AGAGCGCGAUCUAUAUGAUCGUGAUUAUGAGGACCGCUGGCCGUCUCGCUUGCU
.....---......................---...(..(((.(...(((((.-------..((((.(.(((.((((((....)))))).)))))))))))))...))))..). ( -25.30)
>DroEre_CAF1 81114 100 - 1
UUUU----UUUUUAGCUCUUUUCUGAAUUU---UUUGUGAGCAGUUUCGGCUA-------AGAGCGCGAUCUAUAUGAUCGUGAUUAUGAGGCCCGCUGGCCGUCUCGCUUGCU
....----......((((((..(((((...---.(((....))).)))))..)-------)))))((((((.....))))((((....((((((....)))).))))))..)). ( -30.40)
>DroYak_CAF1 83637 114 - 1
UUUUUUGCUUUUUAGCUGUUUUCUGUAUUUUUUUUUGUGAGCAGUUUCGGCUAAGAGCUAAGAGCGCGAUCUAUAUGAUCGUGAUUAUGAGGCCCGCUGGCCGUCUCGCUUGCU
......((((((.(((((....((((..............))))...)))))))))))...((((((((((.....))))))........((((....)))).....))))... ( -34.54)
>consensus
UUUUU___UUUUUAGCUCUUUUCUGUAUUU___UUUGUGAGCAGUUUCGGCUA_______AGAGCGCGAUCUAUAUGAUCGUGAUUAUGAGGCCCGCUGGCCGUCUCGCUUGCU
....................................(..(((.(...((((((...........(((((((.....)))))))..............))))))...))))..). (-25.28 = -25.28 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:03 2006