Locus 4056

Sequence ID 3L_DroMel_CAF1
Location 11,832,970 – 11,833,070
Length 100
Max. P 0.943849
window6319

overview

Window 9

Location 11,832,970 – 11,833,070
Length 100
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 77.72
Mean single sequence MFE -31.37
Consensus MFE -18.70
Energy contribution -20.20
Covariance contribution 1.50
Combinations/Pair 1.18
Mean z-score -2.21
Structure conservation index 0.60
SVM decision value 1.34
SVM RNA-class probability 0.943849
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11832970 100 - 23771897
AAAUGCGAGGACCUACCACAGCCAUUGUGGCUAACGCCAAAGGCCAACAGUCUGCUGUCCUUCG---GGCCAAUCUCCUGGGCCAGCACUGAACGA-AAAA----------ACC
...(((((((..........(((....((((....))))..)))..((((....)))).))))(---(.(((......))).)).)))........-....----------... ( -29.50)
>DroSec_CAF1 10365 101 - 1
AAAUGCGAGGCCCUAACAUAGCCAUUGUGGCUAACGCCAACGGCCAACAGUCUGCUGUCCUUCG---GGCCAACCUCCUGGGUCAGCACUGCAAAAAAAUA----------AUC
...((((.((((...(((.......)))(((....)))...)))).......(((((.(((..(---((....)))...))).))))).))))........----------... ( -31.70)
>DroSim_CAF1 9724 101 - 1
AAAUGCGAGGCCCUAACAUAGCCAUUGUGGCUAACGCCAACGGCCAACAGUCUGCUGUCCUUCG---GGCCAAUCUCCUGGGCCAGCACUGCAAAAAAAUA----------AUC
...(((..(((((..............((((....))))..((((.((((....))))......---))))........))))).))).............----------... ( -32.50)
>DroEre_CAF1 9414 111 - 1
AAAUGCUUGGUCCUAACACAGCCAUUGUGGCUAACGCCAACGGCCAACAGUCUGCAGUCCUUCG---GGCCAAUCUCCUGGGCCAGCACUAGAAAAAUAAACUCGAAAGCUGAA
...((((.(((((.......(((....((((....))))..)))............(.((....---)).)........)))))))))...............(....)..... ( -29.20)
>DroYak_CAF1 10066 104 - 1
AAAUGCGAGGCCCUAACACAGCCAUUGUGGCUAACGCC-------AACAGUCUGCUGUCCUUCG---GGCCAAUCUCCUGGGCCAGCACUGGAAAAAAAACCACGGCAAUUGUA
...((((((((((....(((((.((((((((....)))-------.)))))..)))))((....---))..........))))).((..(((........)))..))..))))) ( -37.10)
>DroAna_CAF1 9139 101 - 1
AAAUGCGAAACACUAACACAGCCAUUGUGGCUAACGCCGAGGGCCAAAAGUCUG---UCAUUCGAAAGACCAAUCGGCAGGGCUUGCACUGAGAGAAAUUU----------CUU
...(((((..(.((.....((((.....))))...(((((((((.....)))).---....((....))....))))))))..)))))..((((....)))----------).. ( -28.20)
>consensus
AAAUGCGAGGCCCUAACACAGCCAUUGUGGCUAACGCCAACGGCCAACAGUCUGCUGUCCUUCG___GGCCAAUCUCCUGGGCCAGCACUGAAAAAAAAAA__________AUC
...(((((((..........(((....((((....))))..)))..((((....)))).))))....((((.........)))).))).......................... (-18.70 = -20.20 +   1.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:13:30 2006