Locus 2401

Sequence ID	2L_DroMel_CAF1
Location	6,546,548 – 6,546,641
Length	93
Max. P	0.849176

overview

Window 6

Location	6,546,548 – 6,546,641
Length	93
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	80.42
Mean single sequence MFE	-33.25
Consensus MFE	-24.13
Energy contribution	-25.60
Covariance contribution	1.47
Combinations/Pair	1.16
Mean z-score	-1.82
Structure conservation index	0.73
SVM decision value	0.78
SVM RNA-class probability	0.849176
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6546548 93 + 22407834
AUGCC-UGGAACGGCGUCUCCUGGCACAGUGGAAAUGUCAAAUGGCCCACUGGAAGGGAUGCUCUUCCAUGGCAGAUGGGCUUUAAG-------UGGACUU
.((((-(((((.((((((.(((....((((((....(((....)))))))))..))))))))).))))).)))).............-------....... ( -37.20)
>DroSec_CAF1 18497 93 + 1
AUGCC-UGGAACGGCGUGUCCUGGCACAGUGGAAAUGUCAAAUGGCCCACUGGAAGGUAUGCUCUUCCAUGGCAGAUGUGCUUUAAG-------UGGACUU
.((((-(((((.((((((.(((....((((((....(((....)))))))))..))))))))).))))).))))...((.(......-------.).)).. ( -35.50)
>DroSim_CAF1 20436 93 + 1
AUGCC-UGGAACGGCGUGUCCUGGCACAGUGGAAAUGUCAAAUGGCCCACUGGAAGGAAUGCUCUUCCAUGGCAGAUGGGCUUUAUG-------UGGACUU
.((((-(((((.(((((.((((....((((((....(((....)))))))))..))))))))).))))).)))).............-------....... ( -34.80)
>DroEre_CAF1 19107 92 + 1
AAGCC-UGGAACUGCGGAUCCUGGCACAGUGGAAAUGUCAAAGGGCCCACUGGAAGGGAUGCCUUUCCAUGGCAGAUACGCUUUGAG-------UGGACU-
..(((-(((((..(.(.(((((..(.((((((....(((....))))))))))..))))).)).))))).))).....(((.....)-------))....- ( -32.50)
>DroYak_CAF1 19601 93 + 1
AUGCC-UGGAACUGCGGAUCCUGGCACAGUGGAAAUGUCAAAGGGCCCACUGAAAGGGAUACUCUUCCAUGGCAAAUGGGCUUUAAG-------UGGACUU
.((((-(((((..(...(((((....((((((....(((....)))))))))...))))).)..))))).)))).............-------....... ( -27.80)
>DroAna_CAF1 20439 100 + 1
GGGCCGUGCAGCAG-GAUCCCUGGUGCAAUGGGAAUGUCAAAUGGCGAACUGGAAUAGUUUCGUUCUCAUGGCAGCUGCCUUUGGAGCUAGUUGGGGAUUU
..(((.((((.(((-(...)))).))))(((((((((((....)))((((((...)))))).)))))))))))((((.((...))))))............ ( -31.70)
>consensus
AUGCC_UGGAACGGCGUAUCCUGGCACAGUGGAAAUGUCAAAUGGCCCACUGGAAGGGAUGCUCUUCCAUGGCAGAUGGGCUUUAAG_______UGGACUU
..(((.(((((..((((.((((....((((((....(((....)))))))))..))))))))..))))).)))............................ (-24.13 = -25.60 +   1.47)

alignment

secondary structure

dotplot

Window 7

Location	6,546,548 – 6,546,641
Length	93
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	80.42
Mean single sequence MFE	-25.97
Consensus MFE	-18.81
Energy contribution	-19.15
Covariance contribution	0.34
Combinations/Pair	1.25
Mean z-score	-1.44
Structure conservation index	0.72
SVM decision value	0.38
SVM RNA-class probability	0.712275
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6546548 93 - 22407834
AAGUCCA-------CUUAAAGCCCAUCUGCCAUGGAAGAGCAUCCCUUCCAGUGGGCCAUUUGACAUUUCCACUGUGCCAGGAGACGCCGUUCCA-GGCAU
.......-------.............((((.(((((..((.(((((.((((((((............))))))).)..))).)).))..)))))-)))). ( -27.70)
>DroSec_CAF1 18497 93 - 1
AAGUCCA-------CUUAAAGCACAUCUGCCAUGGAAGAGCAUACCUUCCAGUGGGCCAUUUGACAUUUCCACUGUGCCAGGACACGCCGUUCCA-GGCAU
..((((.-------......(((((.......((((((.......))))))(((((............))))))))))..))))..(((......-))).. ( -26.80)
>DroSim_CAF1 20436 93 - 1
AAGUCCA-------CAUAAAGCCCAUCUGCCAUGGAAGAGCAUUCCUUCCAGUGGGCCAUUUGACAUUUCCACUGUGCCAGGACACGCCGUUCCA-GGCAU
..((((.-------......(((((.(((....((((.....))))...))))))))....((.(((.......))).))))))..(((......-))).. ( -29.00)
>DroEre_CAF1 19107 92 - 1
-AGUCCA-------CUCAAAGCGUAUCUGCCAUGGAAAGGCAUCCCUUCCAGUGGGCCCUUUGACAUUUCCACUGUGCCAGGAUCCGCAGUUCCA-GGCUU
-......-------..............(((.(((((..((((((...((((((((............))))))).)...))))..))..)))))-))).. ( -26.30)
>DroYak_CAF1 19601 93 - 1
AAGUCCA-------CUUAAAGCCCAUUUGCCAUGGAAGAGUAUCCCUUUCAGUGGGCCCUUUGACAUUUCCACUGUGCCAGGAUCCGCAGUUCCA-GGCAU
.......-------.............((((.(((((..((((((....(((((((............))))))).....))))..))..)))))-)))). ( -24.90)
>DroAna_CAF1 20439 100 - 1
AAAUCCCCAACUAGCUCCAAAGGCAGCUGCCAUGAGAACGAAACUAUUCCAGUUCGCCAUUUGACAUUCCCAUUGCACCAGGGAUC-CUGCUGCACGGCCC
............((((((...)).))))((((((.((((............))))..))).............((((.((((...)-))).)))).))).. ( -21.10)
>consensus
AAGUCCA_______CUUAAAGCCCAUCUGCCAUGGAAGAGCAUCCCUUCCAGUGGGCCAUUUGACAUUUCCACUGUGCCAGGACACGCCGUUCCA_GGCAU
............................(((.(((((..((...(((..(((((((............)))))))....)))....))..))))).))).. (-18.81 = -19.15 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:11 2006