Locus 2430

Sequence ID	2R_DroMel_CAF1
Location	8,732,023 – 8,732,124
Length	101
Max. P	0.820318

overview

Window 0

Location	8,732,023 – 8,732,124
Length	101
Sequences	6
Columns	108
Reading direction	forward
Mean pairwise identity	81.96
Mean single sequence MFE	-32.28
Consensus MFE	-20.14
Energy contribution	-20.83
Covariance contribution	0.69
Combinations/Pair	1.06
Mean z-score	-2.59
Structure conservation index	0.62
SVM decision value	0.68
SVM RNA-class probability	0.820318
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8732023 101 + 20766785
AAUGGAAACUAACCUGCUGAUCUGAG-----UAAAUGAGUU--AUGUACCGUGGGCAUCAUUUCCGCUGUGAACGUGUAGAUGACUGCAAAGGAGGAGGUGAUGCCCA
.((((.((((....((((......))-----))....))))--.....))))(((((((((((((.((.......(((((....)))))..)).))))))))))))). ( -34.30)
>DroPse_CAF1 891 107 + 1
CAUGUGAACUAGUCUAUCAAAUU-AGUCAAUUUGAAGGUCUUCACAAACCGUUGGCAUCAUUUCCGCGGUGUACGUAUAGAUGACGGCAAACGAGGACGUGAUGCCCA
..(((((...((.((.(((((((-....))))))).)).))))))).......((((((((.(((.((.(((.(((.......))))))..)).))).)))))))).. ( -33.60)
>DroSec_CAF1 1144 101 + 1
AAUGGAAACUAAUCUGCUAAACUGAG-----UAAAUAAGUU--AUGUACCGUGGGCAUCAUUUCCGCAGUGAACGUGUAGAUGACUGCAAAGGAGGAUGUGAUGCCGA
.((((.((((.((.((((......))-----)).)).))))--.....)))).((((((((.((((((((.(.(.....).).)))))......))).)))))))).. ( -28.40)
>DroSim_CAF1 2080 101 + 1
AAUGGAAACUAAUCUGCUAAACUGAG-----UAAAUAAGUU--AUGUACCGUGGGCAUCAUUUCCGCAGUGAACGUGUAGAUGACUGCAAAGGAGGAUGUGAUGCCCA
.((((.((((.((.((((......))-----)).)).))))--.....))))(((((((((.((((((((.(.(.....).).)))))......))).))))))))). ( -31.70)
>DroEre_CAF1 1177 106 + 1
AAUAUAAACUAAUCUGCUGAGUUGAGCCAACUAAAUGAGUU--UUGUACCGUGGGCAUCAUUUCCGCAGUGAAUGUGUAGAUGACUGCAAAGGAGGAGGUGAUGCCCA
..((((((....((.....(((((...)))))....))..)--)))))...(((((((((((((((((.....)))((((....))))......)))))))))))))) ( -33.10)
>DroYak_CAF1 2077 106 + 1
AAUCAAAACUAAUCUGCUGAGUUGGGCCAACUAAAUGAGCU--AUGUACCGUGGGCAUCAUUUCCGCAGUGAAUGUGUAGAUAACAGCGAAGGAGGAGGUGAUGCCCA
...............(((.(.((((.....)))).).))).--........((((((((((((((.(......(((.......)))......).)))))))))))))) ( -32.60)
>consensus
AAUGGAAACUAAUCUGCUAAACUGAG_____UAAAUGAGUU__AUGUACCGUGGGCAUCAUUUCCGCAGUGAACGUGUAGAUGACUGCAAAGGAGGAGGUGAUGCCCA
...................................................(((((((((..(((.(........(((((....)))))...).)))..))))))))) (-20.14 = -20.83 +   0.69)

alignment

secondary structure

dotplot

Window 1

Location	8,732,023 – 8,732,124
Length	101
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	81.96
Mean single sequence MFE	-25.72
Consensus MFE	-15.19
Energy contribution	-15.52
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-2.05
Structure conservation index	0.59
SVM decision value	0.10
SVM RNA-class probability	0.581506
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8732023 101 - 20766785
UGGGCAUCACCUCCUCCUUUGCAGUCAUCUACACGUUCACAGCGGAAAUGAUGCCCACGGUACAU--AACUCAUUUA-----CUCAGAUCAGCAGGUUAGUUUCCAUU
(((((((((..(((..((.((..((.......))...)).)).)))..))))))))).((.....--((((.((((.-----((......)).)))).)))).))... ( -22.60)
>DroPse_CAF1 891 107 - 1
UGGGCAUCACGUCCUCGUUUGCCGUCAUCUAUACGUACACCGCGGAAAUGAUGCCAACGGUUUGUGAAGACCUUCAAAUUGACU-AAUUUGAUAGACUAGUUCACAUG
..(((((((..(((.((.....(((.......))).....)).)))..))))))).......(((((((.(..(((((((....-)))))))..).))...))))).. ( -27.40)
>DroSec_CAF1 1144 101 - 1
UCGGCAUCACAUCCUCCUUUGCAGUCAUCUACACGUUCACUGCGGAAAUGAUGCCCACGGUACAU--AACUUAUUUA-----CUCAGUUUAGCAGAUUAGUUUCCAUU
..(((((((..(((......(((((...(.....)...))))))))..)))))))...((.....--((((.((((.-----((......)).)))).)))).))... ( -21.90)
>DroSim_CAF1 2080 101 - 1
UGGGCAUCACAUCCUCCUUUGCAGUCAUCUACACGUUCACUGCGGAAAUGAUGCCCACGGUACAU--AACUUAUUUA-----CUCAGUUUAGCAGAUUAGUUUCCAUU
(((((((((..(((......(((((...(.....)...))))))))..))))))))).((.....--((((.((((.-----((......)).)))).)))).))... ( -26.20)
>DroEre_CAF1 1177 106 - 1
UGGGCAUCACCUCCUCCUUUGCAGUCAUCUACACAUUCACUGCGGAAAUGAUGCCCACGGUACAA--AACUCAUUUAGUUGGCUCAACUCAGCAGAUUAGUUUAUAUU
(((((((((..(((......(((((.............))))))))..))))))))).......(--((((.((((.(((((......))))))))).)))))..... ( -29.52)
>DroYak_CAF1 2077 106 - 1
UGGGCAUCACCUCCUCCUUCGCUGUUAUCUACACAUUCACUGCGGAAAUGAUGCCCACGGUACAU--AGCUCAUUUAGUUGGCCCAACUCAGCAGAUUAGUUUUGAUU
(((((((((..(((.(......(((.......)))......).)))..))))))))).....((.--((((.((((.(((((......))))))))).)))).))... ( -26.70)
>consensus
UGGGCAUCACCUCCUCCUUUGCAGUCAUCUACACGUUCACUGCGGAAAUGAUGCCCACGGUACAU__AACUCAUUUA_____CUCAAUUCAGCAGAUUAGUUUCCAUU
(((((((((..(((.(.......((.......)).......).)))..)))))))))................................................... (-15.19 = -15.52 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:56 2006