Locus 7585

Sequence ID	2L_DroMel_CAF1
Location	20,983,421 – 20,983,585
Length	164
Max. P	0.907626

overview

Window 5

Location	20,983,421 – 20,983,512
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	89.23
Mean single sequence MFE	-26.64
Consensus MFE	-24.22
Energy contribution	-23.54
Covariance contribution	-0.68
Combinations/Pair	1.24
Mean z-score	-1.55
Structure conservation index	0.91
SVM decision value	1.05
SVM RNA-class probability	0.907626
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20983421 91 - 22407834
GCAGCUGCCACUGUGCAGCAUGGGCAUUGGGAUAUUUUCAAUAUCUAGUAUCGGGUAGCAUACAAAAAACGGUUUGUGCUGAGGGGAUUUA
((.((((((.(.((((.((....))....((((((.....)))))).)))).)))))))..(((((......)))))))............ ( -22.30)
>DroSec_CAF1 32268 90 - 1
GCAGCUGCCACUGGGCAGCAUGGGCAUUGGGAUAUUUUCAAUAUCUAGUAUCGGGUAGCACACAAA-AACGGGGUGUGCUGAGGGGAUUUA
...((((((....)))))).(((..((((..(...)..))))..)))..(((...((((((((...-......))))))))....)))... ( -28.80)
>DroSim_CAF1 32678 91 - 1
GCAGCUGCCACUGGGCAGCAUGGGCAUUGGGAUAUUUUCAAUAUCUAGUAUCGGGUAGCACACAAAAAACGGGGUGUGCUGAGGGGAUUUA
...((((((....)))))).(((..((((..(...)..))))..)))..(((...((((((((..........))))))))....)))... ( -28.70)
>DroEre_CAF1 38526 88 - 1
GCAGCUGCAACUGUGCAGCAU-GGCAAUGGGAUGUUUUCAAUAUCUAGUAUCUGGUGGCACA--GAAGAAGGGGUGUGCUAAGGGGAUUUA
((.((((((....))))))..-.))....((((((.....))))))....(((..(((((((--..........)))))))..)))..... ( -24.50)
>DroYak_CAF1 42931 91 - 1
GCAGCUGCAACUGUGCGGCAUUGGCACUGGGAUGUUUUCAAUAUCUAGUAUCUAGUAGCACACAAAAAAAUGGGUGUGCUAAGGGGAUUUA
((.((((((....))))))....))(((((.((((.....)))))))))((((..((((((((..........))))))))...))))... ( -28.90)
>consensus
GCAGCUGCCACUGUGCAGCAUGGGCAUUGGGAUAUUUUCAAUAUCUAGUAUCGGGUAGCACACAAAAAACGGGGUGUGCUGAGGGGAUUUA
((.((((((....))))))....))....((((((.....))))))...(((...((((((((..........))))))))....)))... (-24.22 = -23.54 +  -0.68)

alignment

secondary structure

dotplot

Window 6

Location	20,983,488 – 20,983,585
Length	97
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	91.62
Mean single sequence MFE	-29.59
Consensus MFE	-24.61
Energy contribution	-24.29
Covariance contribution	-0.32
Combinations/Pair	1.12
Mean z-score	-1.36
Structure conservation index	0.83
SVM decision value	0.21
SVM RNA-class probability	0.634705
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20983488 97 - 22407834
AUCAAGGCAACGCGAGACAAAUGCACAAAGCCCCAACCACCACGCUCCUUUGUUUGCUCAGAGUUCAGCAGUUGCAGCUGCCACUGUGCAGCAUGGG
.(((..(((((((..(((....((((((((.................))))))..)).....)))..)).))))).(((((......))))).))). ( -23.43)
>DroSec_CAF1 32334 97 - 1
AUCAAGGCAACGCGAGACAAAUGCACAAAGCCCCAGCCACCACGCUCCUUUGUUUGCUCAGAGCUCAGCAGUUGCAGCUGCCACUGGGCAGCAUGGG
.(((..((((((((((......((((((((....(((......))).))))))..))......))).)).))))).((((((....)))))).))). ( -32.00)
>DroSim_CAF1 32745 97 - 1
AUCAAGGCAACGCGAGACAAAUGCACAAAGCCCCAGCCACCACGCUCCUUUGUUUGCUCAGAGCUCAGCAGUUGCAGCUGCCACUGGGCAGCAUGGG
.(((..((((((((((......((((((((....(((......))).))))))..))......))).)).))))).((((((....)))))).))). ( -32.00)
>DroEre_CAF1 38591 93 - 1
AUCAAGGCAACGCGAGACCAGUGCACAAAGCCCCAA---CCACACUGCUUUGUUUGCUCAGAGUUCAGCAGUUGCAGCUGCAACUGUGCAGCAU-GG
......(((((((..((((((((.(((((((.....---.......))))))).))))..).)))..)).))))).((((((....))))))..-.. ( -29.40)
>DroYak_CAF1 42998 94 - 1
AUCACGGCAACGCGAGACCAAUGCACAAAGCCCCAA---CCACACUCCUUUGUUUGCUCAGAGUUCAACAGUUGCAGCUGCAACUGUGCGGCAUUGG
.((.((....)).))..(((((((.....((.....---........(((((......)))))....((((((((....)))))))))).))))))) ( -31.10)
>consensus
AUCAAGGCAACGCGAGACAAAUGCACAAAGCCCCAACCACCACGCUCCUUUGUUUGCUCAGAGUUCAGCAGUUGCAGCUGCCACUGUGCAGCAUGGG
......((((((((((......((((((((.................))))))..))......))).)).))))).((((((....))))))..... (-24.61 = -24.29 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:29 2006