Locus 4313

Sequence ID	X_DroMel_CAF1
Location	11,369,404 – 11,369,540
Length	136
Max. P	0.961354

overview

Window 0

Location	11,369,404 – 11,369,500
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	93.49
Mean single sequence MFE	-23.18
Consensus MFE	-18.74
Energy contribution	-18.62
Covariance contribution	-0.12
Combinations/Pair	1.14
Mean z-score	-1.60
Structure conservation index	0.81
SVM decision value	0.48
SVM RNA-class probability	0.752339
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11369404 96 - 22224390
ACUCCAUUUAGGUGGUAUGGCAAAGAUUGAGGAAACACACAUUUGUGGUUUAUUUAGCUGUACAUGUUUUCGAUUCUCUGAAUUGCCAAUCUUCAA
...((((....))))..((((((.....(((((.....((((.((..(((.....)))..)).))))......)))))....))))))........ ( -20.90)
>DroSec_CAF1 30084 95 - 1
ACUCCAUUUAGGUGGUAUGGCAAAGAAUGUGGAAAUA-ACAUUUGUGGUUUAUUUAGCUGUACAUGUUUCCGAUUCUCUGAAUUGCCAAUCUUCAA
...((((....))))..(((((((((((.(((((...-((((.((..(((.....)))..)).)))))))))))))).....))))))........ ( -23.80)
>DroSim_CAF1 11330 95 - 1
ACUCCAUUUAGGUGGCAUGGCAAAGAAUGAGGAAAUA-ACAUUUGUGGUUUAUUUAGCUGUACAUGUUUCCGAUUCUCUGAAUUGCCAAUCUUCAA
.........((((((((...((.(((((..((((...-((((.((..(((.....)))..)).)))))))).))))).))...)))).)))).... ( -24.80)
>DroEre_CAF1 33850 94 - 1
ACUCCAUUUAGGUUGUAUGGCAAAGAAUGAGGAAAC--ACAUUUGUGGUUUAUUUGGCUGUACAUGUUUCCGAUUCUCUGAGUUGCCAAUCUUCGA
((.((.....))..)).(((((((((((..((((((--(....((..(((.....)))..))..))))))).))))).....))))))........ ( -22.40)
>DroYak_CAF1 35346 94 - 1
ACUCCAUUUAGGUGGUAUGGCCAAGAAUGAGGAAAC--ACAUUUGUGGUUUAUUUGGCCGUACAUGUUUCCGAUUCUCUGAAUUACCAAUCUUCAA
..........(((((((((((((((((((.(....)--.))))).........))))))))))....(((.(.....).))).))))......... ( -24.00)
>consensus
ACUCCAUUUAGGUGGUAUGGCAAAGAAUGAGGAAACA_ACAUUUGUGGUUUAUUUAGCUGUACAUGUUUCCGAUUCUCUGAAUUGCCAAUCUUCAA
.........((((((((...((.(((((..((((....((((.((..(((.....)))..)).)))))))).))))).))...)))).)))).... (-18.74 = -18.62 +  -0.12)

alignment

secondary structure

dotplot

Window 1

Location	11,369,420 – 11,369,540
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.09
Mean single sequence MFE	-25.91
Consensus MFE	-19.77
Energy contribution	-19.77
Covariance contribution	-0.00
Combinations/Pair	1.07
Mean z-score	-2.82
Structure conservation index	0.76
SVM decision value	1.53
SVM RNA-class probability	0.961354
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 11369420 120 + 22224390
CAGAGAAUCGAAAACAUGUACAGCUAAAUAAACCACAAAUGUGUGUUUCCUCAAUCUUUGCCAUACCACCUAAAUGGAGUUUCUUUUUGAUUCUUCUUUUGGGCUUUCGUUUCUUUCUCU
.((((((.(((((....(((.((......(((((((....))).)))).......)).))).......((((((.((((..((.....))..)))).)))))).))))).....)))))) ( -25.22)
>DroSec_CAF1 30100 118 + 1
CAGAGAAUCGGAAACAUGUACAGCUAAAUAAACCACAAAUGU-UAUUUCCACAUUCUUUGCCAUACCACCUAAAUGGAGUUUCUUUUUGAUUCUUCUU-UGGGCUUUCGUUUCUUUCUCU
.((((((..((((((..(((..((.............(((((-.......)))))....))..)))..((((((.((((..((.....))..))))))-)))).....)))))))))))) ( -23.33)
>DroSim_CAF1 11346 118 + 1
CAGAGAAUCGGAAACAUGUACAGCUAAAUAAACCACAAAUGU-UAUUUCCUCAUUCUUUGCCAUGCCACCUAAAUGGAGUUUCUUUUUGAUUCUUCUU-UGGGCUUUCGUUUCUUUCUCU
.((((((..((((((..(((..((..................-................))..)))..((((((.((((..((.....))..))))))-)))).....)))))))))))) ( -23.08)
>DroEre_CAF1 33866 117 + 1
CAGAGAAUCGGAAACAUGUACAGCCAAAUAAACCACAAAUGU--GUUUCCUCAUUCUUUGCCAUACAACCUAAAUGGAGUUUCUUUUCGAUUCUUCUG-UAGGUAUUCGUUUCUUUCUCU
((((((((.((((((((((...................))))--))))))..)))))))).......(((((...((((..((.....))..))))..-)))))................ ( -27.11)
>DroYak_CAF1 35362 117 + 1
CAGAGAAUCGGAAACAUGUACGGCCAAAUAAACCACAAAUGU--GUUUCCUCAUUCUUGGCCAUACCACCUAAAUGGAGUUUCUUUUUGAUUCUUCUU-UAGAUUUUCGUUUCUUUCUCU
.((((((..((((((..(((.((((((......(((....))--)...........)))))).)))...(((((.((((..((.....))..))))))-)))......)))))))))))) ( -30.83)
>consensus
CAGAGAAUCGGAAACAUGUACAGCUAAAUAAACCACAAAUGU_UGUUUCCUCAUUCUUUGCCAUACCACCUAAAUGGAGUUUCUUUUUGAUUCUUCUU_UGGGCUUUCGUUUCUUUCUCU
.((((((..((((((..(((..((...................................))..)))..((((...((((..((.....))..))))...)))).....)))))))))))) (-19.77 = -19.77 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:21:55 2006