Locus 6083

Sequence ID	2L_DroMel_CAF1
Location	17,079,672 – 17,079,786
Length	114
Max. P	0.999723

overview

Window 7

Location	17,079,672 – 17,079,762
Length	90
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	97.39
Mean single sequence MFE	-20.42
Consensus MFE	-17.30
Energy contribution	-17.30
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.04
Structure conservation index	0.85
SVM decision value	1.37
SVM RNA-class probability	0.947140
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17079672 90 + 22407834
GCUUCGC-----AUCCAUUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUA
(..(((.-----..((....))..)))..)........(((((((((.((((((................))))))))).......))))))... ( -20.50)
>DroSec_CAF1 43637 90 + 1
GCUUCGC-----AUCCAUUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUA
(..(((.-----..((....))..)))..)........(((((((((.((((((................))))))))).......))))))... ( -20.50)
>DroSim_CAF1 39138 90 + 1
GCUUCGC-----AUCCAUUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUA
(..(((.-----..((....))..)))..)........(((((((((.((((((................))))))))).......))))))... ( -20.50)
>DroEre_CAF1 44923 95 + 1
GCUUCGCCUCGCAUCCAUUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUA
(..(((..(((........)))..)))..)........(((((((((.((((((................))))))))).......))))))... ( -20.10)
>DroYak_CAF1 43949 90 + 1
GCUUCGC-----UUCCAUUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUA
(..(((.-----..((....))..)))..)........(((((((((.((((((................))))))))).......))))))... ( -20.50)
>consensus
GCUUCGC_____AUCCAUUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUA
(..(((........((....))..)))..)........(((((((((.((((((................))))))))).......))))))... (-17.30 = -17.30 +   0.00)

alignment

secondary structure

dotplot

Window 8

Location	17,079,684 – 17,079,786
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	98.63
Mean single sequence MFE	-21.38
Consensus MFE	-20.90
Energy contribution	-20.94
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.65
Structure conservation index	0.98
SVM decision value	3.95
SVM RNA-class probability	0.999723
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17079684 102 + 22407834
UUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUAUCUUCCUCAGUCCCCUGACAACCC
...((((.(............(((((((((.((((((................))))))))).......)))))).........((((....))))))))). ( -22.10)
>DroSec_CAF1 43649 102 + 1
UUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUAUCUUCCUCAGUCCCCUGACAACCC
...((((.(............(((((((((.((((((................))))))))).......)))))).........((((....))))))))). ( -22.10)
>DroSim_CAF1 39150 102 + 1
UUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUAUCUUCCUCAGUCCCCUGACAACCC
...((((.(............(((((((((.((((((................))))))))).......)))))).........((((....))))))))). ( -22.10)
>DroEre_CAF1 44940 102 + 1
UUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUAUCUUCCUCGGCCCCCUGACAACCC
...((..(((...........(((((((((.((((((................))))))))).......)))))).........)))..))........... ( -21.55)
>DroYak_CAF1 43961 102 + 1
UUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUAUCUUCCUCAGCCCCCUCACAACCC
...((((.((...........(((((((((.((((((................))))))))).......)))))).........))))))............ ( -19.05)
>consensus
UUCGGUUCGAUUCAAUUUCCCCCUGGCAGUUGCAUGUCACAAACGCUAAAACAACAUGCACUUAAAAAAGCCAGGAUAUCUUCCUCAGUCCCCUGACAACCC
...((((.(............(((((((((.((((((................))))))))).......)))))).........((((....))))))))). (-20.90 = -20.94 +   0.04)

alignment

secondary structure

dotplot

Window 9

Location	17,079,684 – 17,079,786
Length	102
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	98.63
Mean single sequence MFE	-30.67
Consensus MFE	-28.77
Energy contribution	-29.17
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.70
Structure conservation index	0.94
SVM decision value	1.49
SVM RNA-class probability	0.958825
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17079684 102 - 22407834
GGGUUGUCAGGGGACUGAGGAAGAUAUCCUGGCUUUUUUAAGUGCAUGUUGUUUUAGCGUUUGUGACAUGCAACUGCCAGGGGGAAAUUGAAUCGAACCGAA
.((((.((((....))))........(((((((.......(((((((((..(..........)..)))))).)))))))))).............))))... ( -32.51)
>DroSec_CAF1 43649 102 - 1
GGGUUGUCAGGGGACUGAGGAAGAUAUCCUGGCUUUUUUAAGUGCAUGUUGUUUUAGCGUUUGUGACAUGCAACUGCCAGGGGGAAAUUGAAUCGAACCGAA
.((((.((((....))))........(((((((.......(((((((((..(..........)..)))))).)))))))))).............))))... ( -32.51)
>DroSim_CAF1 39150 102 - 1
GGGUUGUCAGGGGACUGAGGAAGAUAUCCUGGCUUUUUUAAGUGCAUGUUGUUUUAGCGUUUGUGACAUGCAACUGCCAGGGGGAAAUUGAAUCGAACCGAA
.((((.((((....))))........(((((((.......(((((((((..(..........)..)))))).)))))))))).............))))... ( -32.51)
>DroEre_CAF1 44940 102 - 1
GGGUUGUCAGGGGGCCGAGGAAGAUAUCCUGGCUUUUUUAAGUGCAUGUUGUUUUAGCGUUUGUGACAUGCAACUGCCAGGGGGAAAUUGAAUCGAACCGAA
.(((((((....)))(((....(((.(((((((.......(((((((((..(..........)..)))))).))))))))))....)))...)))))))... ( -28.71)
>DroYak_CAF1 43961 102 - 1
GGGUUGUGAGGGGGCUGAGGAAGAUAUCCUGGCUUUUUUAAGUGCAUGUUGUUUUAGCGUUUGUGACAUGCAACUGCCAGGGGGAAAUUGAAUCGAACCGAA
.((((.((((((((((.((((.....))))))))))))))(((((((((..(..........)..)))))).)))....................))))... ( -27.10)
>consensus
GGGUUGUCAGGGGACUGAGGAAGAUAUCCUGGCUUUUUUAAGUGCAUGUUGUUUUAGCGUUUGUGACAUGCAACUGCCAGGGGGAAAUUGAAUCGAACCGAA
.((((.((((....))))........(((((((.......(((((((((..(..........)..)))))).)))))))))).............))))... (-28.77 = -29.17 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:57 2006