Locus 5094

Sequence ID	X_DroMel_CAF1
Location	13,314,204 – 13,314,312
Length	108
Max. P	0.990920

overview

Window 6

Location	13,314,204 – 13,314,312
Length	108
Sequences	4
Columns	118
Reading direction	forward
Mean pairwise identity	88.23
Mean single sequence MFE	-32.67
Consensus MFE	-26.35
Energy contribution	-26.60
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-3.74
Structure conservation index	0.81
SVM decision value	2.24
SVM RNA-class probability	0.990920
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13314204 108 + 22224390
UCGGGCAGGAAUGGCAAA---------ACGGCAAACGACAGCGGGGAAUUUCCCUUCUGUGUUUUUCCUCGCUUU-UUGUCUUUCCCCCCCCACUUCCAUUUUCCUCUUUUUUUCCCA
..(((..((((.((((((---------(.(((((((.((((.((((.....)))).))))))))......)))))-))))).))))..)))........................... ( -31.20)
>DroSim_CAF1 19199 105 + 1
UCGGGCAGGAAUGGCAAA---------ACGGCAAACGACAGCGGGGAAUUUCCCGCCUGUGUUUUUCCUCGCUUU-UUGUCUUUCC---CCCACUUCCAUUUUCCUCUUUUUUCCCCA
..(((..((((.((((((---------(.(((((((.(((((((((....))))).))))))))......)))))-))))).))))---))).......................... ( -31.00)
>DroEre_CAF1 18501 105 + 1
UCGGGCAGGAAUGGCAAA----------GGGCAAACGACAGCGGGGAAUUUCCCUCCUGUGUUUUUCCUCGCUUU-UUGUCUUUCCC--CCCACUUCCAUUUUCUUCUUUUUCCCCAC
..(((..((((.((((((----------((((((((.((((.((((.....)))).))))))))......)))))-))))).)))).--))).......................... ( -34.30)
>DroYak_CAF1 17985 114 + 1
UCGGGCAGGAAUGGCAAAAGUGGCAAAACGGCAAACGACAGCGGGGAAUUUCCCUCCUGUGUU-UUCCUCGCUUUUUUGUCUUUCC---CCCACUUCCAUUUUCCCUUUUUUCCCCCG
..(((..((((.((((((((.(((.....((.((((.((((.((((.....)))).)))))))-).))..))))))))))).))))---))).......................... ( -34.20)
>consensus
UCGGGCAGGAAUGGCAAA_________ACGGCAAACGACAGCGGGGAAUUUCCCUCCUGUGUUUUUCCUCGCUUU_UUGUCUUUCC___CCCACUUCCAUUUUCCUCUUUUUCCCCCA
..(((..((((.(((((...........((.....))..(((((((((...(.(....).)...)))))))))...))))).))))...))).......................... (-26.35 = -26.60 +   0.25)

alignment

secondary structure

dotplot

Window 7

Location	13,314,204 – 13,314,312
Length	108
Sequences	4
Columns	118
Reading direction	reverse
Mean pairwise identity	88.23
Mean single sequence MFE	-31.16
Consensus MFE	-21.10
Energy contribution	-21.10
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.80
Structure conservation index	0.68
SVM decision value	0.12
SVM RNA-class probability	0.591083
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13314204 108 - 22224390
UGGGAAAAAAAGAGGAAAAUGGAAGUGGGGGGGGAAAGACAA-AAAGCGAGGAAAAACACAGAAGGGAAAUUCCCCGCUGUCGUUUGCCGU---------UUUGCCAUUCCUGCCCGA
...........................(((.(((((.(.(((-((.....((..((((((((..(((.....)))..)))).)))).)).)---------)))).).))))).))).. ( -30.70)
>DroSim_CAF1 19199 105 - 1
UGGGGAAAAAAGAGGAAAAUGGAAGUGGG---GGAAAGACAA-AAAGCGAGGAAAAACACAGGCGGGAAAUUCCCCGCUGUCGUUUGCCGU---------UUUGCCAUUCCUGCCCGA
..(((.......((((..((((....(.(---(.((((((..-.......(......)...((((((......))))))))).))).)).)---------....)))))))).))).. ( -29.80)
>DroEre_CAF1 18501 105 - 1
GUGGGGAAAAAGAAGAAAAUGGAAGUGGG--GGGAAAGACAA-AAAGCGAGGAAAAACACAGGAGGGAAAUUCCCCGCUGUCGUUUGCCC----------UUUGCCAUUCCUGCCCGA
...(((....((.....(((((....(((--(.(((.((((.-...(((.((((.....(....).....)))).))))))).))).)))----------)...))))).)).))).. ( -29.00)
>DroYak_CAF1 17985 114 - 1
CGGGGGAAAAAAGGGAAAAUGGAAGUGGG---GGAAAGACAAAAAAGCGAGGAA-AACACAGGAGGGAAAUUCCCCGCUGUCGUUUGCCGUUUUGCCACUUUUGCCAUUCCUGCCCGA
...(((.....(((((...(..((((((.---((((..............((.(-(((((((..(((.....)))..)))).)))).)).)))).))))))..)...))))).))).. ( -35.16)
>consensus
UGGGGAAAAAAGAGGAAAAUGGAAGUGGG___GGAAAGACAA_AAAGCGAGGAAAAACACAGGAGGGAAAUUCCCCGCUGUCGUUUGCCGU_________UUUGCCAUUCCUGCCCGA
.........................((((...((((.(.(((........((...(((((((..(((.....)))..)))).)))..))............))).).))))..)))). (-21.10 = -21.10 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:01 2006