Locus 8843

Sequence ID	3R_DroMel_CAF1
Location	23,682,065 – 23,682,224
Length	159
Max. P	0.585079

overview

Window 9

Location	23,682,065 – 23,682,156
Length	91
Sequences	5
Columns	91
Reading direction	reverse
Mean pairwise identity	94.95
Mean single sequence MFE	-22.48
Consensus MFE	-17.14
Energy contribution	-18.10
Covariance contribution	0.96
Combinations/Pair	1.10
Mean z-score	-1.91
Structure conservation index	0.76
SVM decision value	0.10
SVM RNA-class probability	0.585079
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23682065 91 - 27905053
UUCCUUUUGUCGCUCUGUCACUUGAAUAAAAGGCGUAAAUCCGUUUUUUAUCGUCCUCUGGUUCCCGUGAUUUCCAUGGCCUUGAAAGGGA
(((((((((..(((..(((((..((((...(((((((((.......)))).)).)))...))))..)))))......)))..))))))))) ( -23.10)
>DroSec_CAF1 143600 91 - 1
UUCCUUUUAUCGCUCUGUCACUUGAAUCAAAGGCGUAAAUCCGUUUUUUAUCGUCCUCUGGCUUCUGUGAUUUCCAUGGCCUUGAAAGGGA
(((((((((..(((..(((((..((((((.(((((((((.......)))).)).))).))).))).)))))......)))..))))))))) ( -25.00)
>DroSim_CAF1 143471 90 - 1
UUCCUUUUGUCGCUCUGUCACUUGAAUCAAAGGCGUAAAUCCGUUUUUUAUCGUC-UCUGGCUCCUGUGAUUUCCAUGGCCUUGAAAGCGA
.((((((((..(((..(((((..((..((.(((((((((.......)))).))))-).))..))..)))))......)))..)))))).)) ( -22.30)
>DroEre_CAF1 150588 91 - 1
UUCCUUUUGUCGCUCUGUCACUUAAAUCAAAGGCGUAAAUCCGUUUUUUAUCGUCCUCUGGCUCCUGUGAUUUCCAUGCCCUUGAAAGGGA
(((((((((..((...(((((.....(((.(((((((((.......)))).)).))).))).....)))))......))...))))))))) ( -20.00)
>DroYak_CAF1 150191 91 - 1
UUCCUUUUGUCGCUCUGUCACUUGAAUCAAAGGCGUAAAUCCGUUUUUUAUCGUCCUCCGGCUCCUGUGAUUUCCAUGCCCUUGAAAGGAA
.((((((((..((...(((((..((..(..(((((((((.......)))).)).)))..)..))..)))))......))...)))))))). ( -22.00)
>consensus
UUCCUUUUGUCGCUCUGUCACUUGAAUCAAAGGCGUAAAUCCGUUUUUUAUCGUCCUCUGGCUCCUGUGAUUUCCAUGGCCUUGAAAGGGA
(((((((((..(((..(((((..((..((.(((((((((.......)))).)).))).))..))..)))))......)))..))))))))) (-17.14 = -18.10 +   0.96)

alignment

secondary structure

dotplot

Window 0

Location	23,682,122 – 23,682,224
Length	102
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	81.56
Mean single sequence MFE	-20.97
Consensus MFE	-14.14
Energy contribution	-14.19
Covariance contribution	0.06
Combinations/Pair	1.09
Mean z-score	-1.34
Structure conservation index	0.67
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23682122 102 + 27905053
GCCUUUUAUU-CAAGUGACAGAGCGACA---AAAGGAA----------CAGGACU--CCGUUGAACAGAUAAUGUCAAUAUUAGUCGCCUGCAUAAUG--UACAAUAAAUGGCAAAAUAA
(((.((((((-((.(((.(((.(((((.---...(((.----------......)--))(((((.((.....)))))))....)))))))))))..))--...)))))).)))....... ( -26.90)
>DroPse_CAF1 152899 112 + 1
GCCUUUGAUU-UAAGUGACAGGGCGACA---AAAGAAACAAAAAGAAACAAGGCA--GCGGGACACAGAUAAUGUCAAUAUUAGUCGCCUGCAUAAUG--UACAAUAAAUGGCAAAAUAA
(((.(((((.-...(((...(((((((.---.......(.....)......((((--.(........)....)))).......))))))).)))...)--).))).....)))....... ( -20.40)
>DroSec_CAF1 143657 102 + 1
GCCUUUGAUU-CAAGUGACAGAGCGAUA---AAAGGAA----------CCGGACU--CCGUUGAACAGAUAAUGUCAAUAUUAGUCGCCUGCAUAAUG--UACAAUAAAUGGCAAAAUAA
(((.(((((.-...(((.(((.(((((.---...(((.----------......)--))(((((.((.....)))))))....)))))))))))...)--).))).....)))....... ( -22.50)
>DroWil_CAF1 159528 112 + 1
GCCUUUGCUU-UAAGUGACAGCGCGACGGGGAAAUGUAUAAAAAGAA---AGUGA--ACAGAAAACAGAUAAUGUCAAUAUUAGUCGCCUGCAUAAUG--UACAAUAAAUGGCAAAAUAA
(((.(((...-...(((.(((.(((((....................---.(...--.).....(((.....)))........)))))))))))....--..))).....)))....... ( -18.60)
>DroAna_CAF1 149324 107 + 1
GCUUUUGAUUUUAAGUGACAGAGCGACA---AAAGGAA----------CAGGACUGGCGAACGAAAAGAUAAUGUCAAUAUUAGUCGCCUGCAUAAUGUGUACAAUAAAUGGCAAAAUAA
(((.(((((.....(((.(((.(((((.---..((...----------.....))((((.............)))).......))))))))))).....)).))).....)))....... ( -17.02)
>DroPer_CAF1 149124 112 + 1
GCCUUUGAUU-UAAGUGACAGGGCGACA---AAAGAAACAAAAAGAAACAAGGCA--GCGGGACACAGAUAAUGUCAAUAUUAGUCGCCUGCAUAAUG--UACAAUAAAUGGCAAAAUAA
(((.(((((.-...(((...(((((((.---.......(.....)......((((--.(........)....)))).......))))))).)))...)--).))).....)))....... ( -20.40)
>consensus
GCCUUUGAUU_UAAGUGACAGAGCGACA___AAAGGAA__________CAAGACA__CCGGGAAACAGAUAAUGUCAAUAUUAGUCGCCUGCAUAAUG__UACAAUAAAUGGCAAAAUAA
(((.(((.......(((.(((.(((((........................(......)..........(((((....))))))))))))))))........))).....)))....... (-14.14 = -14.19 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:05 2006