Locus 5452

Sequence ID	3L_DroMel_CAF1
Location	14,927,746 – 14,927,843
Length	97
Max. P	0.897342

overview

Window 4

Location	14,927,746 – 14,927,843
Length	97
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.06
Mean single sequence MFE	-34.38
Consensus MFE	-19.43
Energy contribution	-21.93
Covariance contribution	2.50
Combinations/Pair	1.17
Mean z-score	-1.98
Structure conservation index	0.57
SVM decision value	0.52
SVM RNA-class probability	0.766907
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14927746 97 + 23771897
UAAGCAUACAUACUCAAGGCA-------------------UCACUAGAAAACACUU-UUUCAGUGGAACACAGAGAGGGGCGGA---AGGGGGCGAGAACCACGCCCAGACCGCCCUGGG
............(((...(..-------------------(((((.(((((....)-)))))))))..)...))).(((((((.---...(((((.......)))))...)))))))... ( -33.50)
>DroPse_CAF1 165609 118 + 1
UAAGUAUACAUGCUCAACACAUCAAAUGAUGUUUUAGGACUCACUAGAAAACACUU-UUUCAGCGGAACACAGGGAGAAGUAUAGAGAG-GAGUUUUGGCUCCGCCCUUCUAUCCCUUAG
...((.....((((....(((((....)))))(((((......)))))........-....))))....))(((((..((...((.(.(-((((....))))).).)).)).)))))... ( -25.60)
>DroSec_CAF1 108196 116 + 1
UAAGCAUACAUACUCAAGGCAUUACAAAAUGUUUUAAAACUCACUAGACAACACUU-UUUCAGUGGAACACAGAGAGGGGCGGA---AGAGGGCGAGGACCACGCCCAGACCGCCCUGGG
............(((((((((((....)))))))).....(((((.((.((....)-).)))))))......))).(((((((.---...(((((.......)))))...)))))))... ( -33.40)
>DroEre_CAF1 103453 115 + 1
UAAGUAUACAUACUCAAGGCAUCAAAUAAUGUUUGAAGACUCACUAGAAAACACUU-UUUCAGUGGAACACAGAGAGGGGCGGA---AG-GGGCGAGGACCACGCCCAGACCGCCCUGGG
............(((.((((((......))))))......(((((.(((((....)-)))))))))......))).(((((((.---..-(((((.......)))))...)))))))... ( -36.80)
>DroYak_CAF1 103639 115 + 1
UAAGUAUACAUACUCAAGGCAUCAAAUGAUGUUUUAAGACUCACUAGAAAACACUU-UUUCAGUGGAACACAGAGAGGGGCGGA---AG-GGGCGAGGACCACGCCCAGACCGCCCUGGG
............(((((((((((....)))))))).....(((((.(((((....)-)))))))))......))).(((((((.---..-(((((.......)))))...)))))))... ( -41.50)
>DroAna_CAF1 94645 115 + 1
UAAGUAU--AUACUCAGUCUAUAAAAUGAUGUUUUAGGACUCACUAGCAAACACUUUUUUCAGAGGAACACAGACAGGGGCGGA---AGAGGGCGGCGGCUCCGCCCAGACCGCCCUGGG
.......--...(((.((((.........((((((((......)))..)))))((((.....)))).....)))).(((((((.---...((((((.....))))))...)))))))))) ( -35.50)
>consensus
UAAGUAUACAUACUCAAGGCAUCAAAUGAUGUUUUAAGACUCACUAGAAAACACUU_UUUCAGUGGAACACAGAGAGGGGCGGA___AG_GGGCGAGGACCACGCCCAGACCGCCCUGGG
............(((...(((((....)))))........(((((.((((.......)))))))))......))).(((((((.......(((((.......)))))...)))))))... (-19.43 = -21.93 +   2.50)

alignment

secondary structure

dotplot

Window 5

Location	14,927,746 – 14,927,843
Length	97
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.06
Mean single sequence MFE	-35.00
Consensus MFE	-23.74
Energy contribution	-24.55
Covariance contribution	0.81
Combinations/Pair	1.19
Mean z-score	-1.90
Structure conservation index	0.68
SVM decision value	1.00
SVM RNA-class probability	0.897342
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14927746 97 - 23771897
CCCAGGGCGGUCUGGGCGUGGUUCUCGCCCCCU---UCCGCCCCUCUCUGUGUUCCACUGAAA-AAGUGUUUUCUAGUGA-------------------UGCCUUGAGUAUGUAUGCUUA
....((((((...(((((.......)))))...---.))))))(((...(.((..((((((((-(....))))).)))).-------------------.)))..)))............ ( -32.70)
>DroPse_CAF1 165609 118 - 1
CUAAGGGAUAGAAGGGCGGAGCCAAAACUC-CUCUCUAUACUUCUCCCUGUGUUCCGCUGAAA-AAGUGUUUUCUAGUGAGUCCUAAAACAUCAUUUGAUGUGUUGAGCAUGUAUACUUA
...(((((.((.((((.((((......)))-).))))...))..)))))((((((((((((((-(....))))).)))).........(((((....)))))...))))))......... ( -31.90)
>DroSec_CAF1 108196 116 - 1
CCCAGGGCGGUCUGGGCGUGGUCCUCGCCCUCU---UCCGCCCCUCUCUGUGUUCCACUGAAA-AAGUGUUGUCUAGUGAGUUUUAAAACAUUUUGUAAUGCCUUGAGUAUGUAUGCUUA
....((((((...(((((.......)))))...---.))))))(((.(((..(..((((....-.))))..)..))).)))........((((....))))...((((((....)))))) ( -35.90)
>DroEre_CAF1 103453 115 - 1
CCCAGGGCGGUCUGGGCGUGGUCCUCGCCC-CU---UCCGCCCCUCUCUGUGUUCCACUGAAA-AAGUGUUUUCUAGUGAGUCUUCAAACAUUAUUUGAUGCCUUGAGUAUGUAUACUUA
....((((((...(((((.......)))))-..---.))))))(((.(((.....((((....-.)))).....))).)))...(((((.....))))).....((((((....)))))) ( -34.60)
>DroYak_CAF1 103639 115 - 1
CCCAGGGCGGUCUGGGCGUGGUCCUCGCCC-CU---UCCGCCCCUCUCUGUGUUCCACUGAAA-AAGUGUUUUCUAGUGAGUCUUAAAACAUCAUUUGAUGCCUUGAGUAUGUAUACUUA
....((((((...(((((.......)))))-..---.))))))(((.(((.....((((....-.)))).....))).))).(((((..((((....))))..)))))............ ( -37.30)
>DroAna_CAF1 94645 115 - 1
CCCAGGGCGGUCUGGGCGGAGCCGCCGCCCUCU---UCCGCCCCUGUCUGUGUUCCUCUGAAAAAAGUGUUUGCUAGUGAGUCCUAAAACAUCAUUUUAUAGACUGAGUAU--AUACUUA
..((((((((...((((((.....))))))...---.))).)))))..................((((((.((((....((((.(((((.....)))))..)))).)))).--)))))). ( -37.60)
>consensus
CCCAGGGCGGUCUGGGCGUGGUCCUCGCCC_CU___UCCGCCCCUCUCUGUGUUCCACUGAAA_AAGUGUUUUCUAGUGAGUCUUAAAACAUCAUUUGAUGCCUUGAGUAUGUAUACUUA
....((((((...(((((.......))))).......))))))(((.(((.....((((......)))).....))).))).......................((((((....)))))) (-23.74 = -24.55 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:41 2006