Locus 5292

Sequence ID	3L_DroMel_CAF1
Location	14,627,763 – 14,627,885
Length	122
Max. P	0.663096

overview

Window 6

Location	14,627,763 – 14,627,866
Length	103
Sequences	6
Columns	103
Reading direction	forward
Mean pairwise identity	82.67
Mean single sequence MFE	-25.00
Consensus MFE	-15.27
Energy contribution	-16.18
Covariance contribution	0.92
Combinations/Pair	1.13
Mean z-score	-2.41
Structure conservation index	0.61
SVM decision value	0.27
SVM RNA-class probability	0.663096
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14627763 103 + 23771897
CAUUUUCCAUUUCCCAUUGUUGUCUGCCUGCGAAAUUAUGCAGCAAUUCAUAAAAAUGGCUGGCAGAAAAACCAUUGGCGUUACUUUAAUGCCGAUAUGUUUU
......................((((((.((.(..(((((.(....).)))))...).)).))))))(((((.((((((((((...))))))))))..))))) ( -26.40)
>DroPse_CAF1 30822 93 + 1
CUGG-UAC---ACCCAUUGUUGUCUGCUGGCCAAAUUAUGCAUCAAUUCAUAAAAAUGGCUGGCAA------CAGUCCCGUUACUUUAAUGCCGUUACAGUGU
..((-...---.))(((((((((.(((..((((..(((((........)))))...))))..))))------))....(((((...))))).....)))))). ( -21.40)
>DroSec_CAF1 26645 103 + 1
CAUUUUCCAUUUCCCAUUGUUGUCUGCCUGCAAAAUUAUGCAGCAAUUCAUAAAAAUGGCUGGCAGAAAAACCAUUGGCGUUACUUUAAUGCCGAUAUAUUUU
..................(((.((((((.((....(((((.(....).))))).....)).))))))..))).((((((((((...))))))))))....... ( -25.60)
>DroSim_CAF1 22555 102 + 1
CAUUUUCCAUUUCCCAUUGUUGUUUGCCUGCAAAAUUAUGCAGCAAUUCAUAAAAAUGGAUGGCAGAAAACCCAUUGGCGUUACUUUAAUGCCGA-AUAUNNN
..((((((((...(((((..((.((((.((((......))))))))..))....))))))))).))))......(((((((((...)))))))))-....... ( -25.70)
>DroEre_CAF1 29969 103 + 1
CAUUUUCCAUUUGCCAUUGUUGUCUGCCGGCAAAAUUAUGCAGCAAUUCAUAAAAAUGGCUGGCAGAAAAACCAUUGGCGUUACUUUAAUGCCGAUAUGUUAU
..................(((.(((((((((....(((((.(....).))))).....)))))))))..))).((((((((((...))))))))))....... ( -29.50)
>DroPer_CAF1 30822 93 + 1
CUGG-UAC---ACCCAUUGUUGUCUGCUGGCCAAAUUAUGCAUCAAUUCAUAAAAAUGGCUGGCAA------CAGUCCCGUUACUUUAAUGCCGUUACAGUGU
..((-...---.))(((((((((.(((..((((..(((((........)))))...))))..))))------))....(((((...))))).....)))))). ( -21.40)
>consensus
CAUUUUCCAUUUCCCAUUGUUGUCUGCCGGCAAAAUUAUGCAGCAAUUCAUAAAAAUGGCUGGCAGAAAAACCAUUGGCGUUACUUUAAUGCCGAUAUAUUGU
......................((((((.((....(((((........))))).....)).))))))......((((((((((...))))))))))....... (-15.27 = -16.18 +   0.92)

alignment

secondary structure

dotplot

Window 7

Location	14,627,787 – 14,627,885
Length	98
Sequences	6
Columns	99
Reading direction	forward
Mean pairwise identity	79.85
Mean single sequence MFE	-23.28
Consensus MFE	-10.75
Energy contribution	-11.58
Covariance contribution	0.84
Combinations/Pair	1.14
Mean z-score	-2.31
Structure conservation index	0.46
SVM decision value	0.06
SVM RNA-class probability	0.565001
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14627787 98 + 23771897
UGCCUGCGAAAUUAUGCAGCAAUUCAUAAAA-AUGGCUGGCAGAAAAACCAUUGGCGUUACUUUAAUGCCGAUAUGUUUUUCUAACAUUGAUUUUAGCU
.(((.((.(..(((((.(....).)))))..-.).)).)))((((((((.((((((((((...))))))))))..))))))))................ ( -27.10)
>DroGri_CAF1 34867 97 + 1
UGU-GGAGAAAUUAUGCAGCAAUUCAUAAAAAAUGGCAACCAAU-GGCCCAGCGAUAUUACUUUAAGACCCUAAUGUUAUUUUCACAUAGAUUUCAGCA
(((-(((((..(((((.(....).))))).....(((.......-.)))....(((((((...........))))))).))))))))............ ( -13.10)
>DroSec_CAF1 26669 98 + 1
UGCCUGCAAAAUUAUGCAGCAAUUCAUAAAA-AUGGCUGGCAGAAAAACCAUUGGCGUUACUUUAAUGCCGAUAUAUUUUUCUAACAUCGAUUUUAGCU
(((.((((......))))))).......(((-((.(.((..(((((((..((((((((((...))))))))))...)))))))..)).).))))).... ( -26.50)
>DroEre_CAF1 29993 98 + 1
UGCCGGCAAAAUUAUGCAGCAAUUCAUAAAA-AUGGCUGGCAGAAAAACCAUUGGCGUUACUUUAAUGCCGAUAUGUUAUUCAAACAUAGAUUUCAGCU
(((((((....(((((.(....).)))))..-...)))))))((((.....(((((((((...)))))))))((((((.....))))))..)))).... ( -28.60)
>DroYak_CAF1 30482 98 + 1
UGCCUGCAAAAUUAUGCAGCAAUUCAUAAAA-AUGGCUGGCAGAAAAUCCAUUGGCGUUACUUUAAUGCCUAUAUGUUAGUCUAACAUAGAUUUUAGCU
((((.((....(((((.(....).)))))..-...)).)))).((((((....(((((((...)))))))..(((((((...))))))))))))).... ( -24.10)
>DroPer_CAF1 30842 88 + 1
UGCUGGCCAAAUUAUGCAUCAAUUCAUAAAA-AUGGCUGGCAA------CAGUCCCGUUACUUUAAUGCCGUUACAGUGUUU----AUCGAUUGCAGCC
(((..((((..(((((........)))))..-.))))..))).------(((((....((((.((((...)))).))))...----...)))))..... ( -20.30)
>consensus
UGCCGGCAAAAUUAUGCAGCAAUUCAUAAAA_AUGGCUGGCAGAAAAACCAUUGGCGUUACUUUAAUGCCGAUAUGUUAUUCUAACAUAGAUUUCAGCU
((((.((....(((((........)))))......)).))))........((((((((((...)))))))))).......................... (-10.75 = -11.58 +   0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:46:31 2006