Locus 581

Sequence ID	2R_DroMel_CAF1
Location	2,979,676 – 2,979,775
Length	99
Max. P	0.977941

overview

Window 8

Location	2,979,676 – 2,979,775
Length	99
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	78.72
Mean single sequence MFE	-22.50
Consensus MFE	-12.67
Energy contribution	-12.67
Covariance contribution	-0.00
Combinations/Pair	1.18
Mean z-score	-2.50
Structure conservation index	0.56
SVM decision value	1.80
SVM RNA-class probability	0.977941
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2979676 99 + 20766785
CACCAGGAAUAUAUUGUUAUUUGCAA-A--UGGUUAGU-AGUUAAGAAAAAACAACUUGCGGGUUUUGCAAAUAACAAGCAUUCUCAUUCGAUUUGAUAGAAU
.....(((((...(((((((((((((-(--(.((.(((-.(((.......))).))).)).)..))))))))))))))..))))).................. ( -22.40)
>DroSec_CAF1 4320 94 + 1
CACCAGGAAUAUAUUGUUAUUUGCAA-G--UGGUUAGU-AGUUG--GCAACACAACCUUCGGGUUUUGCAAAUAACAAGCAUUCUCGUUUGAUUA---AAAAA
.....(((((...(((((((((((((-(--(((((((.-..)))--))..)))((((....)))))))))))))))))..)))))..........---..... ( -25.80)
>DroSim_CAF1 4297 94 + 1
CACCAGGAAUAUAUUGUUAUUUGCAA-G--UGGUUAGU-AGUUG--GCAACACAACCCUCGGGUUUUGCAAAUAACAAGCAUUCUCGUUUGAUUA---AAAAA
.....(((((...(((((((((((((-(--(((((((.-..)))--))..)))((((....)))))))))))))))))..)))))..........---..... ( -23.90)
>DroEre_CAF1 4727 96 + 1
CACCAAGAAUAAUUUGUUAUUUGCAAAA--UGGUUAAUGAGUUA--GCAAAAACAGCUUUCAGUUUUGCAAAUAACAAGCAAACUCAUUUGAUUG---UAAAA
.............(((((((((((((((--(......((((..(--((.......)))))))))))))))))))))))((((.(......).)))---).... ( -21.00)
>DroYak_CAF1 4362 97 + 1
CACCGAGAAUAUUUUGUUAUUUGCAAAAUAUGGUUAAUGAGUUA--GCACA-AGAUCAUUCACUUUUGCAAAUAACAAGCCAACCCGUUUGAUUG---UAAAA
............(((((((((((((((....(((.(((((....--.....-...))))).))))))))))))))))))................---..... ( -19.40)
>consensus
CACCAGGAAUAUAUUGUUAUUUGCAA_A__UGGUUAGU_AGUUA__GCAAAACAACCUUCGGGUUUUGCAAAUAACAAGCAUUCUCGUUUGAUUA___AAAAA
.............(((((((((((((.....((((..................))))........)))))))))))))......................... (-12.67 = -12.67 +  -0.00)

alignment

secondary structure

dotplot

Window 9

Location	2,979,676 – 2,979,775
Length	99
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	78.72
Mean single sequence MFE	-21.21
Consensus MFE	-12.00
Energy contribution	-11.00
Covariance contribution	-1.00
Combinations/Pair	1.25
Mean z-score	-2.31
Structure conservation index	0.57
SVM decision value	1.37
SVM RNA-class probability	0.947431
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2979676 99 - 20766785
AUUCUAUCAAAUCGAAUGAGAAUGCUUGUUAUUUGCAAAACCCGCAAGUUGUUUUUUCUUAACU-ACUAACCA--U-UUGCAAAUAACAAUAUAUUCCUGGUG
...................(((((.((((((((((((((.......(((((........)))))-........--)-)))))))))))))..)))))...... ( -18.96)
>DroSec_CAF1 4320 94 - 1
UUUUU---UAAUCAAACGAGAAUGCUUGUUAUUUGCAAAACCCGAAGGUUGUGUUGC--CAACU-ACUAACCA--C-UUGCAAAUAACAAUAUAUUCCUGGUG
.....---........((.(((((.(((((((((((((((((....))))((((((.--.....-..))).))--)-)))))))))))))..))))).))... ( -20.80)
>DroSim_CAF1 4297 94 - 1
UUUUU---UAAUCAAACGAGAAUGCUUGUUAUUUGCAAAACCCGAGGGUUGUGUUGC--CAACU-ACUAACCA--C-UUGCAAAUAACAAUAUAUUCCUGGUG
.....---........((.(((((.(((((((((((((((((....))))((((((.--.....-..))).))--)-)))))))))))))..))))).))... ( -22.70)
>DroEre_CAF1 4727 96 - 1
UUUUA---CAAUCAAAUGAGUUUGCUUGUUAUUUGCAAAACUGAAAGCUGUUUUUGC--UAACUCAUUAACCA--UUUUGCAAAUAACAAAUUAUUCUUGGUG
.....---..(((((..((((....(((((((((((((((.(((.(((.......))--)...))).......--)))))))))))))))...))))))))). ( -20.00)
>DroYak_CAF1 4362 97 - 1
UUUUA---CAAUCAAACGGGUUGGCUUGUUAUUUGCAAAAGUGAAUGAUCU-UGUGC--UAACUCAUUAACCAUAUUUUGCAAAUAACAAAAUAUUCUCGGUG
.....---........((((.((..((((((((((((((((((..((((..-.((..--..))..))))..))).)))))))))))))))..))..))))... ( -23.60)
>consensus
UUUUU___CAAUCAAACGAGAAUGCUUGUUAUUUGCAAAACCCGAAGGUUGUUUUGC__UAACU_ACUAACCA__U_UUGCAAAUAACAAUAUAUUCCUGGUG
...............((.((.....(((((((((((((........(((................))).........))))))))))))).......)).)). (-12.00 = -11.00 +  -1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:06 2006