Locus 4635

Sequence ID	2R_DroMel_CAF1
Location	15,162,916 – 15,163,062
Length	146
Max. P	0.576022

overview

Window 5

Location	15,162,916 – 15,163,022
Length	106
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	85.09
Mean single sequence MFE	-21.74
Consensus MFE	-12.16
Energy contribution	-13.12
Covariance contribution	0.96
Combinations/Pair	1.18
Mean z-score	-2.49
Structure conservation index	0.56
SVM decision value	0.08
SVM RNA-class probability	0.576022
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15162916 106 + 20766785
ACUGCAUUCAAAUAUGGUGUGCCAAUGCACAUUUAAACUAGACUAUAUGAAGUCCAAUGUAUGUACAUAUA-UACAUAAAUAUAUAUUUCGAAUAUUUACCCGUUAC
.....(((((((((((((((((....))))))........((((......))))..((((((((....)))-))))).....))))))).))))............. ( -19.90)
>DroSec_CAF1 1327 106 + 1
ACUGCAUUCAAAUAUGGUGUGCCAAUGCACAUUUAAACUGGACGAUAUGAAGUCCAAUGUAUGUACAUAUA-UACAUAAAUAUAUAUUUCGAAUAUUUACCUGUUAC
.....(((((((((((((((((....))))))......(((((........)))))((((((((....)))-))))).....))))))).))))............. ( -24.10)
>DroSim_CAF1 1323 106 + 1
ACUGCAUUCAAAUAUGGUGUGCCAAUGCACAUUUAAACUGGACUAUAUGAAGUCCAAUGUAUGUACAUAUA-UACAUAAAUAUAUAUUUCGAAUAUUUACCUGUUAC
.....(((((((((((((((((....))))))......((((((......))))))((((((((....)))-))))).....))))))).))))............. ( -24.70)
>DroEre_CAF1 1683 102 + 1
AAUGCAUUCAAAUGUGCUGUGCCAACGCACAUUUAAGCUGUUCUAUAUGGAGUCCAAUGCAUG----UAUA-UACAUAAAUAUAUGUUUAGAAUAUUUACCCUUUAC
...((.((.((((((((.((....))))))))))))))(((((((..(((...)))..(((((----(((.-.......)))))))).)))))))............ ( -21.10)
>DroYak_CAF1 1313 93 + 1
ACUGCAUUCAAGUAUGAUGUGCCAACGCACAUUUAAGCUGGACUAUAUG----------UAUA----UAUAGUACAUGAAUAUAUGCUUAGAAUAUUUACCCUUUAC
.....(((((((((((((((((....))))))......((.(((((((.----------...)----)))))).))......))))))).))))............. ( -18.90)
>consensus
ACUGCAUUCAAAUAUGGUGUGCCAAUGCACAUUUAAACUGGACUAUAUGAAGUCCAAUGUAUGUACAUAUA_UACAUAAAUAUAUAUUUCGAAUAUUUACCCGUUAC
.....(((((((((((((((((....))))))......(((((........)))))..........................))))))).))))............. (-12.16 = -13.12 +   0.96)

alignment

secondary structure

dotplot

Window 6

Location	15,162,956 – 15,163,062
Length	106
Sequences	6
Columns	118
Reading direction	reverse
Mean pairwise identity	78.61
Mean single sequence MFE	-24.07
Consensus MFE	-14.55
Energy contribution	-13.75
Covariance contribution	-0.80
Combinations/Pair	1.39
Mean z-score	-1.44
Structure conservation index	0.60
SVM decision value	-0.01
SVM RNA-class probability	0.529398
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15162956 106 - 20766785
AGCUUGUUAGCACCUCAAAGGUGGCGUUUGUGUUUGCCUAGUAACGGGUAAAUAUUCGAAAUA----U-----AUAUUUAUGUA-UAUA-UGUACAUACAUUGGACUUCAUAUAGUC-
..........((((.....)))).((...((((((((((......)))))))))).)).....----.-----.....((((((-(...-.))))))).....((((......))))- ( -22.90)
>DroSec_CAF1 1367 106 - 1
AGCUUGUUAGCACCUCAAAGGUGGCGUUUGUGUUUGCCUAGUAACAGGUAAAUAUUCGAAAUA----U-----AUAUUUAUGUA-UAUA-UGUACAUACAUUGGACUUCAUAUCGUC-
.(((....)))(((.....)))((((...((((((((((......))))))))))..((((((----(-----((((....)))-))))-)((.((.....)).)))))....))))- ( -21.70)
>DroSim_CAF1 1363 106 - 1
AACUUGUUAGCACCUCAAAGGUGGCGUUUGUGUUUGCCUAGUAACAGGUAAAUAUUCGAAAUA----U-----AUAUUUAUGUA-UAUA-UGUACAUACAUUGGACUUCAUAUAGUC-
..........((((.....)))).((...((((((((((......)))))))))).)).....----.-----.....((((((-(...-.))))))).....((((......))))- ( -22.90)
>DroEre_CAF1 1723 102 - 1
AGCUUGUUAGCACCUCAAAGGUGGCGUUUGUGUUUGCCUAGUAAAGGGUAAAUAUUCUAAACA----U-----AUAUUUAUGUA-UAUA-----CAUGCAUUGGACUCCAUAUAGAA-
.(((....))).........((((.((((((((((((((......)))))))))).....(((----(-----(....))))).-....-----........)))).))))......- ( -21.90)
>DroYak_CAF1 1353 93 - 1
AGCUUGUUAGCACCUCAAAGGUGGCGUUUGUGUUUGCCUAGUAAAGGGUAAAUAUUCUAAGCA----U-----AUAUUCAUGUACUAUA-----UAUA----------CAUAUAGUC-
.(((((....((((.....))))......((((((((((......))))))))))..))))).----.-----..........((((((-----(...----------.))))))).- ( -23.10)
>DroAna_CAF1 1254 117 - 1
GGCUCCUUAGCACCUCAAAGGUGGCAUUCAUGCUUGCUCAGUAAAUAGUAAAUAUUAUGGACAAGUACAUGGAAUAUUUAUGUA-CAAAGUGUAUGUCUUUUGAGCCACAUAAGGGCU
(((.(((((....((((((((..((((..((((((.....((..(((((....)))))..))..(((((((((...))))))))-).)))))))))))))))))).....)))))))) ( -31.90)
>consensus
AGCUUGUUAGCACCUCAAAGGUGGCGUUUGUGUUUGCCUAGUAAAGGGUAAAUAUUCGAAACA____U_____AUAUUUAUGUA_UAUA_UGUACAUACAUUGGACUUCAUAUAGUC_
..........((((.....))))..((((((((((((((......))))))))))...))))........................................................ (-14.55 = -13.75 +  -0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:25:14 2006