Locus 2241

Sequence ID	3L_DroMel_CAF1
Location	6,225,361 – 6,225,470
Length	109
Max. P	0.918255

overview

Window 6

Location	6,225,361 – 6,225,470
Length	109
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	80.05
Mean single sequence MFE	-32.71
Consensus MFE	-21.50
Energy contribution	-22.03
Covariance contribution	0.53
Combinations/Pair	1.21
Mean z-score	-2.32
Structure conservation index	0.66
SVM decision value	1.12
SVM RNA-class probability	0.918255
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6225361 109 + 23771897
GUCCACUUCUGUCCAGAACGUUGGGCAACAUUUGACGGCCCAAAAGGGCAGCUAUGAAAUAGGUGUACAGCACCAGGGUGACUACCUGAAAA------U-AAAGUUUUA---UAAUUAA
(((......(((((((....)))))))......))).((((....))))...((((((((.((((.....)))).((((....)))).....------.-...))))))---))..... ( -30.30)
>DroGri_CAF1 15742 112 + 1
UGCCAUUACGAUCCAAGAUAUUUGGCAACAUUUGGCGACCCAACAGUGCGGCUAUAAAAUACGUGUAGAGCACGAGGGUAACAACCUACAA------AU-AGUAAUUUGAAUUAAUUAA
.((((.......(((((...))))).......)))).((((....((((..(((((.......))))).))))..))))..(((..(((..------..-.)))..))).......... ( -25.04)
>DroSec_CAF1 15598 109 + 1
GUCCAUUUCUGUCCAGAACGUUGGGCAACAUUUGACGGCCCAAAAGGGCAGCGAUGAAAUAGGUGUACAGCACCAGGGUAACCACCUGAAAA------U-AAAGUUUUA---UAAUUAA
...((((.((((((......((((((..(....)...))))))..)))))).)))).....((((.....)))).((((....)))).....------.-.........---....... ( -29.30)
>DroEre_CAF1 17055 116 + 1
GUCCAUUUCUGUCCAAGACGUUGGGCAACAUUUGACGGCCCAAGAGGGCAGCUAUGAAAUAGGUGUACAGCACCAGGGUGACCACCUGGAAAUGGAAAUGGAAAUUCGA---UGAUUUA
.(((((((((((((((....))))))).(((((....((((....))))..(((.(.....((((.....)))).((....)).).)))))))))))))))).......---....... ( -39.40)
>DroYak_CAF1 15744 110 + 1
GUCCAUUUCUGUCCAAAACGUUGGGCAACAUUUGGCGGCCCAAAAGGGCAGCUAUGAAAUAGGUGUACAGCACCAGGGUGACCACCUAAAAA------UGGAAAUUUUA---UGAUUUC
.(((((((.(((((((....))))))).....((((.((((....)))).)))).......((((.....)))).((....))......)))------)))).......---....... ( -36.60)
>DroAna_CAF1 16657 112 + 1
GGCCGUUUUUGUCCAAGACAUUGGGCAGCAUCUGGCGGCCCAGAAGGGCGGCUAUAAAGUAGGUGUACAGCACCAGGGUAACCACCUGAAAA-----AU-AAUAUUUCA-CUUAAUUAA
(((((((((((((...))).((((((.((.....)).))))))))))))))))...((((.((((.....)))).((((....)))).....-----..-........)-)))...... ( -35.60)
>consensus
GUCCAUUUCUGUCCAAAACGUUGGGCAACAUUUGACGGCCCAAAAGGGCAGCUAUGAAAUAGGUGUACAGCACCAGGGUAACCACCUGAAAA______U_AAAAUUUUA___UAAUUAA
...(((..((((((......((((((..(....)...))))))..))))))..))).....((((.....)))).((((....))))................................ (-21.50 = -22.03 +   0.53)

alignment

secondary structure

dotplot

Window 7

Location	6,225,361 – 6,225,470
Length	109
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	80.05
Mean single sequence MFE	-28.40
Consensus MFE	-18.34
Energy contribution	-18.35
Covariance contribution	0.01
Combinations/Pair	1.32
Mean z-score	-1.34
Structure conservation index	0.65
SVM decision value	-0.02
SVM RNA-class probability	0.524956
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6225361 109 - 23771897
UUAAUUA---UAAAACUUU-A------UUUUCAGGUAGUCACCCUGGUGCUGUACACCUAUUUCAUAGCUGCCCUUUUGGGCCGUCAAAUGUUGCCCAACGUUCUGGACAGAAGUGGAC
.......---.........-.------........(((.(((....)))))).....(((((((......((((....)))).(((.((((((....))))))...))).))))))).. ( -25.60)
>DroGri_CAF1 15742 112 - 1
UUAAUUAAUUCAAAUUACU-AU------UUGUAGGUUGUUACCCUCGUGCUCUACACGUAUUUUAUAGCCGCACUGUUGGGUCGCCAAAUGUUGCCAAAUAUCUUGGAUCGUAAUGGCA
.......((((((..(((.-..------..)))((((((......((((.....))))......))))))......)))))).((((.(((...((((.....))))..)))..)))). ( -23.90)
>DroSec_CAF1 15598 109 - 1
UUAAUUA---UAAAACUUU-A------UUUUCAGGUGGUUACCCUGGUGCUGUACACCUAUUUCAUCGCUGCCCUUUUGGGCCGUCAAAUGUUGCCCAACGUUCUGGACAGAAAUGGAC
.......---.........-.------....((((.(....)))))(((.....)))(((((((......((((....)))).(((.((((((....))))))...))).))))))).. ( -26.80)
>DroEre_CAF1 17055 116 - 1
UAAAUCA---UCGAAUUUCCAUUUCCAUUUCCAGGUGGUCACCCUGGUGCUGUACACCUAUUUCAUAGCUGCCCUCUUGGGCCGUCAAAUGUUGCCCAACGUCUUGGACAGAAAUGGAC
.......---.......((((((((.....(((((.(....)))))).(((((...........))))).((((....)))).(((..(((((....)))))....))).)))))))). ( -32.20)
>DroYak_CAF1 15744 110 - 1
GAAAUCA---UAAAAUUUCCA------UUUUUAGGUGGUCACCCUGGUGCUGUACACCUAUUUCAUAGCUGCCCUUUUGGGCCGCCAAAUGUUGCCCAACGUUUUGGACAGAAAUGGAC
.......---.......((((------((((((((((..(((....))).....)))))..((((..((.((((....)))).)).(((((((....))))))))))).))))))))). ( -32.20)
>DroAna_CAF1 16657 112 - 1
UUAAUUAAG-UGAAAUAUU-AU-----UUUUCAGGUGGUUACCCUGGUGCUGUACACCUACUUUAUAGCCGCCCUUCUGGGCCGCCAGAUGCUGCCCAAUGUCUUGGACAAAAACGGCC
.((((((..-(((((....-..-----.)))))..))))))..(((((((((((.........)))))).((((....)))).)))))..((((.....((((...))))....)))). ( -29.70)
>consensus
UUAAUUA___UAAAAUUUU_A______UUUUCAGGUGGUCACCCUGGUGCUGUACACCUAUUUCAUAGCUGCCCUUUUGGGCCGCCAAAUGUUGCCCAACGUCUUGGACAGAAAUGGAC
...............................((((.......))))(((.....)))(((((((...((.((((....)))).))((((((((....)))))).))....))))))).. (-18.34 = -18.35 +   0.01)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:37 2006