Locus 987

Sequence ID	2R_DroMel_CAF1
Location	4,142,166 – 4,142,256
Length	90
Max. P	0.635946

overview

Window 3

Location	4,142,166 – 4,142,256
Length	90
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	83.55
Mean single sequence MFE	-37.33
Consensus MFE	-26.21
Energy contribution	-26.29
Covariance contribution	0.09
Combinations/Pair	1.19
Mean z-score	-2.10
Structure conservation index	0.70
SVM decision value	0.21
SVM RNA-class probability	0.635946
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4142166 90 + 20766785
CAGAUCAACAAAGAGAUCCUUGUUGAUGGGGGCAGCAUCGUUGGCGGGUGCAGACGACGAUGGGCCAUC---CUCGUC---GGCCGCUGCGUCCUC
...((((((((.(....).))))))))(((.(((((.(((((.((....)).)))))(((((((.....---))))))---)...))))).))).. ( -37.60)
>DroPse_CAF1 1582 93 + 1
CAAGUCAACAAAGAGAUCUUUGUUGAAGGGUGCAGCAUCGUUGGCGGGGGCAGACGAUGAUGGGUUCUC---AUCAUCAGAAGCCGCUCCAUCCUC
....(((((((((....)))))))))((((((.(((.(((....))).(((....((((((((....))---))))))....)))))).)))))). ( -38.10)
>DroSim_CAF1 7400 90 + 1
CAGAUCAACAAAGAGAUCCUUGUUGAUGGGAGCAGCAUCGUUGGCGGGUGCAGACGACGAUGAGCCAUC---CUCGUC---GGCCGCUGCGUCCUC
...((((((((.(....).))))))))(((((((((.(((((.((....)).)))))(((((((.....---))))))---)...))))).)))). ( -37.40)
>DroYak_CAF1 7324 90 + 1
CAGAUCAACAAAGAGAUCCUUGUUGAUGGGGGCAGCAUCGUUGGCGGGUGCAGACGACGAUGGUCCAUC---CUCGUC---GGCCGCUGCGUCCUC
...((((((((.(....).))))))))(((.(((((..((....))(((...(((((.((((...))))---.)))))---.)))))))).))).. ( -36.90)
>DroAna_CAF1 9891 93 + 1
CAAAUCGACGAACAGAUCCUUGUUGAUGGGGGCGGCAUCGUUGGCAGGUGCAGACGACGAGGGGCCGUCGUCCUCGGG---GGCCGCAGCUUCUUC
...((((((((........))))))))((((((.((.(((((.((....)).))))).....((((.(((....))).---)))))).)))))).. ( -35.90)
>DroPer_CAF1 3958 93 + 1
CAAGUCAACAAAGAGAUCUUUGUUGAAGGGUGCAGCAUCGUUGGCGGGGGCAGACGAUGAUGGGUUCUC---AUCAUCAGAAGCCGCUCCAUCCUC
....(((((((((....)))))))))((((((.(((.(((....))).(((....((((((((....))---))))))....)))))).)))))). ( -38.10)
>consensus
CAAAUCAACAAAGAGAUCCUUGUUGAUGGGGGCAGCAUCGUUGGCGGGUGCAGACGACGAUGGGCCAUC___CUCGUC___GGCCGCUGCGUCCUC
...((((((((........))))))))(((.(((((.(((((.((....)).))))).....((((...............))))))))).))).. (-26.21 = -26.29 +   0.09)

alignment

secondary structure

dotplot

Window 4

Location	4,142,166 – 4,142,256
Length	90
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	83.55
Mean single sequence MFE	-34.47
Consensus MFE	-22.82
Energy contribution	-23.46
Covariance contribution	0.64
Combinations/Pair	1.15
Mean z-score	-2.24
Structure conservation index	0.66
SVM decision value	0.13
SVM RNA-class probability	0.597214
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4142166 90 - 20766785
GAGGACGCAGCGGCC---GACGAG---GAUGGCCCAUCGUCGUCUGCACCCGCCAACGAUGCUGCCCCCAUCAACAAGGAUCUCUUUGUUGAUCUG
..((..((((((((.---(((((.---((((...)))).))))).))...((....)).))))))..))((((((((((....))))))))))... ( -36.80)
>DroPse_CAF1 1582 93 - 1
GAGGAUGGAGCGGCUUCUGAUGAU---GAGAACCCAUCAUCGUCUGCCCCCGCCAACGAUGCUGCACCCUUCAACAAAGAUCUCUUUGUUGACUUG
.(((.((.((((((...(((((((---(......))))))))...)))..((....))..))).)).)))(((((((((....))))))))).... ( -34.10)
>DroSim_CAF1 7400 90 - 1
GAGGACGCAGCGGCC---GACGAG---GAUGGCUCAUCGUCGUCUGCACCCGCCAACGAUGCUGCUCCCAUCAACAAGGAUCUCUUUGUUGAUCUG
(.(((.((((((((.---(((((.---((((...)))).))))).))...((....)).))))))))))((((((((((....))))))))))... ( -38.70)
>DroYak_CAF1 7324 90 - 1
GAGGACGCAGCGGCC---GACGAG---GAUGGACCAUCGUCGUCUGCACCCGCCAACGAUGCUGCCCCCAUCAACAAGGAUCUCUUUGUUGAUCUG
..((..((((((((.---(((((.---((((...)))).))))).))...((....)).))))))..))((((((((((....))))))))))... ( -36.80)
>DroAna_CAF1 9891 93 - 1
GAAGAAGCUGCGGCC---CCCGAGGACGACGGCCCCUCGUCGUCUGCACCUGCCAACGAUGCCGCCCCCAUCAACAAGGAUCUGUUCGUCGAUUUG
((.(((...(((((.---..((.(((((((((....)))))))))((....))...))..)))))..((........)).....))).))...... ( -26.30)
>DroPer_CAF1 3958 93 - 1
GAGGAUGGAGCGGCUUCUGAUGAU---GAGAACCCAUCAUCGUCUGCCCCCGCCAACGAUGCUGCACCCUUCAACAAAGAUCUCUUUGUUGACUUG
.(((.((.((((((...(((((((---(......))))))))...)))..((....))..))).)).)))(((((((((....))))))))).... ( -34.10)
>consensus
GAGGACGCAGCGGCC___GACGAG___GAUGGCCCAUCGUCGUCUGCACCCGCCAACGAUGCUGCCCCCAUCAACAAGGAUCUCUUUGUUGAUCUG
..((..(((((((((...............))))....(((((..((....))..))))))))))..)).(((((((((....))))))))).... (-22.82 = -23.46 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:28 2006