Locus 394

Sequence ID 3R_DroMel_CAF1
Location 1,471,873 – 1,471,968
Length 95
Max. P 0.944702
window650

overview

Window 0

Location 1,471,873 – 1,471,968
Length 95
Sequences 5
Columns 106
Reading direction reverse
Mean pairwise identity 76.70
Mean single sequence MFE -19.91
Consensus MFE -14.26
Energy contribution -14.26
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.72
SVM decision value 1.35
SVM RNA-class probability 0.944702
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1471873 95 - 27905053
-----CGGCUGUAGGUAGACUACAGUAGUAGUCUGUCUACCUCUGA-----AAAGCUGCCACACAUACCCAUGCCCAACCCAACCCCAAAC-CCACUGACACUGCU
-----.(((.((((..(((((((....)))))))..))))..((..-----..))..)))...............................-.............. ( -22.00)
>DroSec_CAF1 5714 81 - 1
-----CGGCUGUAGGUAGACU---------GGCUGUCUACCUCUGA-----AAAGCUGCCACACAUACCCAUAC-----CCAACCCCAAAC-CCACUGACACUGCU
-----.(((.((((((((((.---------....))))))))....-----...)).)))..............-----............-.............. ( -17.21)
>DroSim_CAF1 5931 81 - 1
-----CGGCUGUAGGUAGACU---------GGCUGUCUACCUCUGA-----AAAGCUGCCACACAUACCCAUAC-----CCAACCCCAAAC-CCACUGACACUGCU
-----.(((.((((((((((.---------....))))))))....-----...)).)))..............-----............-.............. ( -17.21)
>DroEre_CAF1 6646 75 - 1
-----CGGCUGUAGGUAGACU---------GGCUGUCUACCUCUGA-----AAAGCUGCCACACAUACCCAACCC-----------CAAAC-CCACUGACACUGCU
-----.(((.((((((((((.---------....))))))))....-----...)).)))...............-----------.....-.............. ( -17.21)
>DroAna_CAF1 5010 91 - 1
GGUCUCGGCUGUAGGUAGACU---------UGCUGUCUACCUCUGGCUGCUAAAGCUGGCCCACACACAUACACA-----CAUAGCUACGCUCUACUG-UACUGCU
((((..((((..((((((((.---------....))))))))..))))((....)).))))..............-----...(((...((......)-)...))) ( -25.90)
>consensus
_____CGGCUGUAGGUAGACU_________GGCUGUCUACCUCUGA_____AAAGCUGCCACACAUACCCAUAC_____CCAACCCCAAAC_CCACUGACACUGCU
.....(((((..((((((((..............))))))))...........)))))................................................ (-14.26 = -14.26 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:10 2006