Locus 2733

Sequence ID	3R_DroMel_CAF1
Location	7,326,420 – 7,326,578
Length	158
Max. P	0.998343

overview

Window 4

Location	7,326,420 – 7,326,538
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.12
Mean single sequence MFE	-32.66
Consensus MFE	-32.46
Energy contribution	-32.38
Covariance contribution	-0.08
Combinations/Pair	1.09
Mean z-score	-1.77
Structure conservation index	0.99
SVM decision value	3.07
SVM RNA-class probability	0.998343
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7326420 118 + 27905053
--CCCCCCAUCCCCCUGCCAAACACUCGCAAGGACAUCUUCAUCUCGUUCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUG
--..............((((.((.((((((.(((((....(.....)....))))))))))).))..))))((((((..((..((((((...))))))..))..)))))).......... ( -34.50)
>DroSec_CAF1 2753 120 + 1
ACCUCCCCUCUCCCCUGCCAAACACUCGGAAGGACAUCUUCAUCUCGUUCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUUUUGUCAUCAGUUUAAAUGAAUG
.....(((.((((..((.....))...)))((((((....(.....)....))))))).)))..((((...((((((..((..((((((...))))))..))..))))))...))))... ( -29.70)
>DroSim_CAF1 6511 120 + 1
ACCCCCCCUCUCCCCUGCCAAACACUCGCAAGGACAUCUUCAUCUCGUUUUUAUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUG
................((((.((.((((((.(((......(.....)......))))))))).))..))))((((((..((..((((((...))))))..))..)))))).......... ( -29.10)
>DroEre_CAF1 6462 116 + 1
---UCCCCA-CCCCCUGCCAAACACUCGCAAGGACAUCUUCAUCUCGUGCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUG
---..((((-(....(((.........)))((((((....(((...)))..)))))))))))..((((...((((((..((..((((((...))))))..))..))))))...))))... ( -34.80)
>DroYak_CAF1 6655 116 + 1
---UCCCCC-CUCACUACCAAACACUCACAAGGACAUCUUCAUCUCGUUCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUG
---......-.(((..((((.((.((((((.(((((....(.....)....))))))))))).))..))))((((((..((..((((((...))))))..))..))))))....)))... ( -35.20)
>consensus
__CUCCCCA_CCCCCUGCCAAACACUCGCAAGGACAUCUUCAUCUCGUUCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUG
................((((.((.((((((.(((((....(.....)....))))))))))).))..))))((((((..((..((((((...))))))..))..)))))).......... (-32.46 = -32.38 +  -0.08)

alignment

secondary structure

dotplot

Window 5

Location	7,326,458 – 7,326,578
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.83
Mean single sequence MFE	-42.50
Consensus MFE	-42.24
Energy contribution	-42.28
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.63
Structure conservation index	0.99
SVM decision value	2.02
SVM RNA-class probability	0.985744
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 7326458 120 + 27905053
CAUCUCGUUCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUGUGCUGCGGUUUCCGGAGCACCGAUAAGACGGAGCCCAGAG
...............((.(((((.((((...((((((..((..((((((...))))))..))..))))))...))))..(((((.(((...))).)))))............))))).)) ( -43.50)
>DroSec_CAF1 2793 120 + 1
CAUCUCGUUCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUUUUGUCAUCAGUUUAAAUGAAUGAGCUGCGGUUUCCGGAGCACCGAUAAGACGAAGCCCAGAG
...............((.(((((.((((...((((((..((..((((((...))))))..))..))))))...))))....(((.(((...))).)))..............))))).)) ( -38.50)
>DroSim_CAF1 6551 120 + 1
CAUCUCGUUUUUAUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUGUGCUGCGGUUUCCGGAGCACCGAUAAGACGAAGCCCAGAG
...............((.(((((.((((...((((((..((..((((((...))))))..))..))))))...))))..(((((.(((...))).)))))............))))).)) ( -43.50)
>DroEre_CAF1 6498 120 + 1
CAUCUCGUGCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUGUGCUGCGGUUUCCGGAGCACCGAUAAGACGGAGCCCAGAG
...............((.(((((.((((...((((((..((..((((((...))))))..))..))))))...))))..(((((.(((...))).)))))............))))).)) ( -43.50)
>DroYak_CAF1 6691 120 + 1
CAUCUCGUUCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUGUGCUGCGGUUUCCGGAGCACCGAUAAGACGGAGCCCAGAG
...............((.(((((.((((...((((((..((..((((((...))))))..))..))))))...))))..(((((.(((...))).)))))............))))).)) ( -43.50)
>consensus
CAUCUCGUUCUUGUCCUGUGGGCGUCAUGGUGAUUGAAAACUCGACCGCACUGCGGUCUUGUCAUCAGUUUAAAUGAAUGUGCUGCGGUUUCCGGAGCACCGAUAAGACGGAGCCCAGAG
...............((.(((((.((((...((((((..((..((((((...))))))..))..))))))...))))..(((((.(((...))).)))))............))))).)) (-42.24 = -42.28 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:43:35 2006