Locus 6671

Sequence ID	2L_DroMel_CAF1
Location	18,711,933 – 18,712,053
Length	120
Max. P	0.897550

overview

Window 9

Location	18,711,933 – 18,712,053
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	94.86
Mean single sequence MFE	-42.95
Consensus MFE	-38.53
Energy contribution	-38.16
Covariance contribution	-0.37
Combinations/Pair	1.05
Mean z-score	-2.00
Structure conservation index	0.90
SVM decision value	1.00
SVM RNA-class probability	0.897550
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18711933 120 + 22407834
AGCCCAGGUCGGCCAGCGAUGCUGCGAUAUGGUUGUUGUUCAGCUCCUUCUCCUUUUGCUGAGCCACCGCCAGUUCACUGGCGAACAUGAUCAGGUUGCUGUUCUCAUCCUCCAUGGGUC
.(((((((..(..(((((((.(((...((((...((.(((((((.............))))))).))((((((....))))))..))))..))))))))))..).......)).))))). ( -43.22)
>DroSec_CAF1 4904 120 + 1
AGCCCAGGUCAGCCAGCGAUGCUGCGAUAUGGUUGUUGUUCAGCUCCUUCUCCUUUUGCUGAGCCACCGCCAGUUCACUGGCGAACAUGAUGAGGUUGCUGUUCUCAUCCUCCAUGGGUC
.(((((((.((((((.((......))...))))))..(((((((.............)))))))...((((((....)))))).....(((((((.......)))))))..)).))))). ( -44.12)
>DroEre_CAF1 4765 120 + 1
AGCCCAGGUCAGCCAGCGAAGCUGCUAUAUGGUUGUUGUUCAGCUCCUUCUCCUUCUGCUGAGCCACUGCCAGUUCACUGGCGAACAUGAUCAGGUUGCUGUUCUCAUCCUCCAUGGGUC
.(((((((..((.((((((..(((...((((...((.(((((((.............))))))).))((((((....))))))..))))..))).))))))..))......)).))))). ( -39.22)
>DroYak_CAF1 4737 120 + 1
AGCCCAGGUCGGCCAGCGAGGCUGCUAUGUGGUUGUUGUUCAGCUCCUUCUCCUUCUGCUGAGCCACGGCCAGCUCACUGGCGAACAUGAUCAAAUUGCUGUUCUCAUCCUCCAUGGGUC
.(((((((..((((((.(((((......))((((((.(((((((.............))))))).))))))..))).)))))(((((............)))))....)..)).))))). ( -45.22)
>consensus
AGCCCAGGUCAGCCAGCGAUGCUGCGAUAUGGUUGUUGUUCAGCUCCUUCUCCUUCUGCUGAGCCACCGCCAGUUCACUGGCGAACAUGAUCAGGUUGCUGUUCUCAUCCUCCAUGGGUC
.(((((((...(((((.((.(((.......(((.((.(((((((.............))))))).)).)))))))).)))))(((((((((...)))).))))).......)).))))). (-38.53 = -38.16 +  -0.37)

alignment

secondary structure

dotplot

Window 0

Location	18,711,933 – 18,712,053
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	94.86
Mean single sequence MFE	-41.11
Consensus MFE	-37.44
Energy contribution	-37.50
Covariance contribution	0.06
Combinations/Pair	1.03
Mean z-score	-1.47
Structure conservation index	0.91
SVM decision value	0.10
SVM RNA-class probability	0.583969
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18711933 120 - 22407834
GACCCAUGGAGGAUGAGAACAGCAACCUGAUCAUGUUCGCCAGUGAACUGGCGGUGGCUCAGCAAAAGGAGAAGGAGCUGAACAACAACCAUAUCGCAGCAUCGCUGGCCGACCUGGGCU
..((((..(((.((((...(((....))).)))).)))(((((....)))))(((((((((((.............)))))...............((((...))))))).))))))).. ( -40.32)
>DroSec_CAF1 4904 120 - 1
GACCCAUGGAGGAUGAGAACAGCAACCUCAUCAUGUUCGCCAGUGAACUGGCGGUGGCUCAGCAAAAGGAGAAGGAGCUGAACAACAACCAUAUCGCAGCAUCGCUGGCUGACCUGGGCU
..(((((((..((((((.........)))))).((((((((((....)))))...(((((..(.......)...))))))))))....))))....((((.......))))....))).. ( -41.80)
>DroEre_CAF1 4765 120 - 1
GACCCAUGGAGGAUGAGAACAGCAACCUGAUCAUGUUCGCCAGUGAACUGGCAGUGGCUCAGCAGAAGGAGAAGGAGCUGAACAACAACCAUAUAGCAGCUUCGCUGGCUGACCUGGGCU
..((((..(((.((((...(((....))).)))).)))(((((....)))))...((.(((((....((....(((((((................))))))).)).))))))))))).. ( -42.09)
>DroYak_CAF1 4737 120 - 1
GACCCAUGGAGGAUGAGAACAGCAAUUUGAUCAUGUUCGCCAGUGAGCUGGCCGUGGCUCAGCAGAAGGAGAAGGAGCUGAACAACAACCACAUAGCAGCCUCGCUGGCCGACCUGGGCU
..((((.((.......(((((............)))))((((((((((((((....))(((((.............)))))...............))).)))))))))...)))))).. ( -40.22)
>consensus
GACCCAUGGAGGAUGAGAACAGCAACCUGAUCAUGUUCGCCAGUGAACUGGCGGUGGCUCAGCAAAAGGAGAAGGAGCUGAACAACAACCAUAUAGCAGCAUCGCUGGCCGACCUGGGCU
..((((.((.((.((.((.(((....))).)).((((((((((....)))))...(((((..(.......)...)))))))))).)).))......((((...)))).....)))))).. (-37.44 = -37.50 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:57 2006