Locus 7083

Sequence ID	3L_DroMel_CAF1
Location	19,143,870 – 19,143,967
Length	97
Max. P	0.802464

overview

Window 0

Location	19,143,870 – 19,143,967
Length	97
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.18
Mean single sequence MFE	-34.40
Consensus MFE	-13.83
Energy contribution	-17.33
Covariance contribution	3.50
Combinations/Pair	1.22
Mean z-score	-2.22
Structure conservation index	0.40
SVM decision value	0.62
SVM RNA-class probability	0.802464
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19143870 97 + 23771897
UCCAGCUGAAUGGAUUUGGCCACGGUUAUCCCGGUGAACAGAUGGAUG-GAUUGAUGCCGGGAUAAAUCUAUGGGUUA-AU------GU--------GAA-------UGGUAGGUGCUUG
((((......)))).((((((.((.(((((((((((....(((.....-.)))..))))))))))).....)))))))-).------..--------...-------............. ( -24.40)
>DroSec_CAF1 6754 106 + 1
UCCAGCUGAAUGGAUUUGGCCACGGUUAUCCCGGUGAACAGAUGGAUGGGAUUGAUGCCGGGCUAAAUCUAUGGGUUA-AU------GUGGCCCAGUGAA-------UGGUAGGUGCUUG
.((.(((..((((((((((((.((((.((((((.............))))))....))))))))))))))))(((((.-..------..)))))......-------.))).))...... ( -39.32)
>DroAna_CAF1 177 87 + 1
UCGAGCUGAAUGGAUUUGGCUCGGAUUGU-----UGGUUAGAUGGAUG-GCUGUCUAAUGGA---GUCCUUCGGAUUA-AU------GUGGAGCA----------------AGGUGUUU-
((((((..((....))..)))))).((((-----(.(((((((((...-.)))))))))..(---((((...))))).-..------....))))----------------).......- ( -24.10)
>DroSim_CAF1 6345 105 + 1
UCCAGCUGAAUGGAUUUGGCCACGGUUAUCCCGGUGAACAGAUGGAUG-GAUUGAUGCCGGGAUAAAUCUAUGGGUUA-AU------GUGGCCCAGUGAA-------UGGUAGGUGCUUG
..((.(((.((..(((.(((((((..((((((((((....(((.....-.)))..))))))))))((((....)))).-.)------)))))).)))..)-------)..))).)).... ( -32.30)
>DroEre_CAF1 7245 118 + 1
UCCAGCUGAAUGGAUUUGGCCAUGGUUAUCCCGGUGAACAGAUGAAUG-GAUUGGUGUCGGGAUAGAUCUAUG-GUUAAAUCUUUGGCUGGCCCAGCGAUAGGUUCUUGGUAGAUGCUUG
.(((((..(..((((((((((((((((((((((..(....(((.....-.)))..)..))))))))..)))))-))))))))))..))))).((((.((.....)))))).......... ( -44.00)
>DroYak_CAF1 7250 112 + 1
UCCAGCUGAAUGGAUUUGGCCAUGGUUAUCCCGGUGAACAUAUGGAUG-GAUUGGUGCCGGGAUAAAUCUAUGGGUUAAAUCUAUGUGUGGCCUACGGAA-------UGGUAGGUGCUUG
...(((...(((((((((((((((((((((((((((..(((....)))-......)))))))))))..)))).)))))))))))).....((((((....-------..))))))))).. ( -42.30)
>consensus
UCCAGCUGAAUGGAUUUGGCCACGGUUAUCCCGGUGAACAGAUGGAUG_GAUUGAUGCCGGGAUAAAUCUAUGGGUUA_AU______GUGGCCCAG_GAA_______UGGUAGGUGCUUG
((((......))))...((((((...(((((((((.....................)))))))))((((....))))..........))))))........................... (-13.83 = -17.33 +   3.50)

alignment

secondary structure

dotplot

Window 1

Location	19,143,870 – 19,143,967
Length	97
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.18
Mean single sequence MFE	-21.09
Consensus MFE	-7.38
Energy contribution	-9.55
Covariance contribution	2.17
Combinations/Pair	1.07
Mean z-score	-2.16
Structure conservation index	0.35
SVM decision value	0.03
SVM RNA-class probability	0.549680
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19143870 97 - 23771897
CAAGCACCUACCA-------UUC--------AC------AU-UAACCCAUAGAUUUAUCCCGGCAUCAAUC-CAUCCAUCUGUUCACCGGGAUAACCGUGGCCAAAUCCAUUCAGCUGGA
.............-------...--------..------..-....(((..(..(((((((((...((...-........))....))))))))))..))).....((((......)))) ( -17.80)
>DroSec_CAF1 6754 106 - 1
CAAGCACCUACCA-------UUCACUGGGCCAC------AU-UAACCCAUAGAUUUAGCCCGGCAUCAAUCCCAUCCAUCUGUUCACCGGGAUAACCGUGGCCAAAUCCAUUCAGCUGGA
..(((........-------.....((((....------..-...))))..(((((.((((((.....(((((...............)))))..))).))).)))))......)))... ( -24.26)
>DroAna_CAF1 177 87 - 1
-AAACACCU----------------UGCUCCAC------AU-UAAUCCGAAGGAC---UCCAUUAGACAGC-CAUCCAUCUAACCA-----ACAAUCCGAGCCAAAUCCAUUCAGCUCGA
-.....(((----------------(.......------..-.......))))..---....(((((....-......)))))...-----......(((((............))))). (  -8.19)
>DroSim_CAF1 6345 105 - 1
CAAGCACCUACCA-------UUCACUGGGCCAC------AU-UAACCCAUAGAUUUAUCCCGGCAUCAAUC-CAUCCAUCUGUUCACCGGGAUAACCGUGGCCAAAUCCAUUCAGCUGGA
.............-------.......((((((------.(-((.....)))..(((((((((...((...-........))....)))))))))..))))))...((((......)))) ( -25.30)
>DroEre_CAF1 7245 118 - 1
CAAGCAUCUACCAAGAACCUAUCGCUGGGCCAGCCAAAGAUUUAAC-CAUAGAUCUAUCCCGACACCAAUC-CAUUCAUCUGUUCACCGGGAUAACCAUGGCCAAAUCCAUUCAGCUGGA
..........(((.((.....))(((((((((......((((((..-..))))))(((((((.........-...............)))))))....))))).........))))))). ( -25.26)
>DroYak_CAF1 7250 112 - 1
CAAGCACCUACCA-------UUCCGUAGGCCACACAUAGAUUUAACCCAUAGAUUUAUCCCGGCACCAAUC-CAUCCAUAUGUUCACCGGGAUAACCAUGGCCAAAUCCAUUCAGCUGGA
..(((.(((((..-------....))))).........(((((...((((.(..(((((((((........-..............)))))))))).))))..)))))......)))... ( -25.75)
>consensus
CAAGCACCUACCA_______UUC_CUGGGCCAC______AU_UAACCCAUAGAUUUAUCCCGGCAUCAAUC_CAUCCAUCUGUUCACCGGGAUAACCGUGGCCAAAUCCAUUCAGCUGGA
..(((..................................................((((((((.......................))))))))...((((......))))...)))... ( -7.38 =  -9.55 +   2.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:23 2006