Locus 1507

Sequence ID 3L_DroMel_CAF1
Location 4,341,513 – 4,341,623
Length 110
Max. P 0.954903
window2346 window2347

overview

Window 6

Location 4,341,513 – 4,341,623
Length 110
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 81.57
Mean single sequence MFE -30.77
Consensus MFE -20.20
Energy contribution -20.23
Covariance contribution 0.04
Combinations/Pair 1.18
Mean z-score -2.66
Structure conservation index 0.66
SVM decision value 1.45
SVM RNA-class probability 0.954903
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4341513 110 + 23771897
AUGAAAAAAGUGCAGACGAGCCGGUCAGUCAUCGGUUUGAGUGAUACUGCACAGAAUGCUCCAGUAGAACCAGCUGAUUAG--AUAGGCUGUGACAGAGCAGAGCACUCAAA
.........((((((.(((((((((.....)))))))))(....).)))))).((.(((((((((.......)))).....--....(((.......))).))))).))... ( -32.60)
>DroSim_CAF1 27754 96 + 1
---AAAAAAGUGCA-------------GUCAUCGGUUUGAGUGAUACUGCACAGAGUGCUCCAGUAGAACCAGCUGAUUAUAUAUAGGGUAUGACAGAGCAGAGCACUCAAA
---......(((((-------------((.((((.......))))))))))).((((((((((((.......)))).((((((.....)))))).......))))))))... ( -31.90)
>DroYak_CAF1 27445 106 + 1
----AAAAAGUGCAGACGAGCCGGUCAGUCAUCGGUAUGAAUGAUACUGCACAGAGUGCUCUAGAAAAUCCAGCUGAUUAC--AUAGGGUAUGACAGAGCACAGCACUCAAA
----....(((((......((..((((.((((....)))).))))...)).....(((((((.....((((..........--...)))).....))))))).))))).... ( -27.82)
>consensus
___AAAAAAGUGCAGACGAGCCGGUCAGUCAUCGGUUUGAGUGAUACUGCACAGAGUGCUCCAGUAGAACCAGCUGAUUAC__AUAGGGUAUGACAGAGCAGAGCACUCAAA
.........((((((((......))).(((((........)))))..))))).((((((((((((.......))))..(((.......)))..........))))))))... (-20.20 = -20.23 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 4,341,513 – 4,341,623
Length 110
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 81.57
Mean single sequence MFE -27.30
Consensus MFE -17.92
Energy contribution -17.62
Covariance contribution -0.30
Combinations/Pair 1.11
Mean z-score -2.06
Structure conservation index 0.66
SVM decision value 0.53
SVM RNA-class probability 0.771131
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4341513 110 - 23771897
UUUGAGUGCUCUGCUCUGUCACAGCCUAU--CUAAUCAGCUGGUUCUACUGGAGCAUUCUGUGCAGUAUCACUCAAACCGAUGACUGACCGGCUCGUCUGCACUUUUUUCAU
((((((((..((((.(.....((((....--.......))))((((.....)))).....).))))...))))))))..(((((((....)).))))).............. ( -28.00)
>DroSim_CAF1 27754 96 - 1
UUUGAGUGCUCUGCUCUGUCAUACCCUAUAUAUAAUCAGCUGGUUCUACUGGAGCACUCUGUGCAGUAUCACUCAAACCGAUGAC-------------UGCACUUUUUU---
...(((((((((.....((...(((................)))...)).))))))))).((((((((((.........))).))-------------)))))......--- ( -26.19)
>DroYak_CAF1 27445 106 - 1
UUUGAGUGCUGUGCUCUGUCAUACCCUAU--GUAAUCAGCUGGAUUUUCUAGAGCACUCUGUGCAGUAUCAUUCAUACCGAUGACUGACCGGCUCGUCUGCACUUUUU----
...(((((((.....(((.((((...)))--)....)))((((.....))))))))))).(((((((((.....)))).(((((((....)).)))))))))).....---- ( -27.70)
>consensus
UUUGAGUGCUCUGCUCUGUCAUACCCUAU__AUAAUCAGCUGGUUCUACUGGAGCACUCUGUGCAGUAUCACUCAAACCGAUGACUGACCGGCUCGUCUGCACUUUUUU___
...((((((((((((......................))).(((...)))))))))))).(((((...(((.((.....)))))..(((......))))))))......... (-17.92 = -17.62 +  -0.30)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:27 2006