Locus 8434

Sequence ID 3R_DroMel_CAF1
Location 22,486,700 – 22,486,817
Length 117
Max. P 0.780074
window13580 window13581

overview

Window 0

Location 22,486,700 – 22,486,817
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 82.78
Mean single sequence MFE -22.57
Consensus MFE -16.33
Energy contribution -16.05
Covariance contribution -0.28
Combinations/Pair 1.07
Mean z-score -1.72
Structure conservation index 0.72
SVM decision value 0.21
SVM RNA-class probability 0.633748
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22486700 117 + 27905053
UCCUCCAAAAGUUAAGGGGCCAAAAGUUGUUAUAUUGGAAAAGUUUCUUCCCUUGAUUUUUAAUAUCACAGGUGAACGUAAAUAAUUUAUUGCAUUCAUUUACGUUUCACAUCCAAU
......(((((((((((((..(((..((...........))..)))..)))))))))))))..........(((((((((((((((.......))).))))))).)))))....... ( -23.50)
>DroPse_CAF1 143836 106 + 1
ACUUGCA-----------ACGAAAAGUUGUUAUAUUGGAAAAGUUUCUGUGCUUGAUUUUUAAUAUCACAGGUGAACGUAAAUAAUUUAUUGCGUUCAUUUACGUUUCACAUCCAAU
....(((-----------((.....)))))...((((((.......(((((.((((...))))...)))))((((((((((........))))))))))............)))))) ( -23.60)
>DroGri_CAF1 164082 114 + 1
--CUUUGAAACUU-GAGCUGAAAAAGUUAGUAUAUUGGAAAAGUUUUUCUUCUUGAUUUUUAAUAUCACAGGUGAGCGUAAAUAAUUUAUUACAUUCAUUUACGUUUCACUUCCAAU
--..((((((.(.-.((..((((((.((............)).))))))..))..).))))))......(((((((((((((((((.......))).))))))).)))))))..... ( -20.50)
>DroWil_CAF1 129210 107 + 1
A----------CUUGGCUCCAAAAAGUUGGUAUAUUGGAAAAGUUUCUCUGCUUGAUUUUUAAUAUCACAGGUAAGCGUAAAUAAUUUAUUGCAUUCAUUUACGUUUCACUUCCAAU
.----------.(..(((......)))..)...(((((((........(((..((((.......)))))))(((((((((((((((.......))).)))))))))).))))))))) ( -18.90)
>DroAna_CAF1 130597 115 + 1
UCC--CAACAACUUGGAGAAAAAAAGUUGUUAUAUUGGAAAAGUUUCUCUGCUUGAUUUUUAAUAUCACAGGUGAACGUAAAUAAUUUAUUGCAUUCAUUUACGUUUCACAUCCAAU
...--.((((((((.........))))))))..((((((.........(((..((((.......)))))))(((((((((((((((.......))).))))))).))))).)))))) ( -25.30)
>DroPer_CAF1 144473 106 + 1
ACUUGCA-----------ACGAAAAGUUGUUAUAUUGGAAAAGUUUCUGUGCUUGAUUUUUAAUAUCACAGGUGAACGUAAAUAAUUUAUUGCGUUCAUUUACGUUUCACAUCCAAU
....(((-----------((.....)))))...((((((.......(((((.((((...))))...)))))((((((((((........))))))))))............)))))) ( -23.60)
>consensus
ACCU_CA_____U_GG__ACAAAAAGUUGUUAUAUUGGAAAAGUUUCUCUGCUUGAUUUUUAAUAUCACAGGUGAACGUAAAUAAUUUAUUGCAUUCAUUUACGUUUCACAUCCAAU
.................................((((((............((((((.......)))).))(((((((((((((((.......))).))))))).))))).)))))) (-16.33 = -16.05 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 22,486,700 – 22,486,817
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 82.78
Mean single sequence MFE -22.80
Consensus MFE -16.64
Energy contribution -16.83
Covariance contribution 0.19
Combinations/Pair 1.04
Mean z-score -2.20
Structure conservation index 0.73
SVM decision value 0.55
SVM RNA-class probability 0.780074
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22486700 117 - 27905053
AUUGGAUGUGAAACGUAAAUGAAUGCAAUAAAUUAUUUACGUUCACCUGUGAUAUUAAAAAUCAAGGGAAGAAACUUUUCCAAUAUAACAACUUUUGGCCCCUUAACUUUUGGAGGA
((((((..((((.(((((((((.(......).)))))))))))))(((.((((.......)))).)))..........))))))................((((........)))). ( -23.70)
>DroPse_CAF1 143836 106 - 1
AUUGGAUGUGAAACGUAAAUGAACGCAAUAAAUUAUUUACGUUCACCUGUGAUAUUAAAAAUCAAGCACAGAAACUUUUCCAAUAUAACAACUUUUCGU-----------UGCAAGU
((((((.(((((.(((((((((..........))))))))))))))(((((...............))))).......))))))....((((.....))-----------))..... ( -23.56)
>DroGri_CAF1 164082 114 - 1
AUUGGAAGUGAAACGUAAAUGAAUGUAAUAAAUUAUUUACGCUCACCUGUGAUAUUAAAAAUCAAGAAGAAAAACUUUUCCAAUAUACUAACUUUUUCAGCUC-AAGUUUCAAAG--
(((((((((((..(((((((((.(......).))))))))).))))((.((((.......))))...))........)))))))...................-...........-- ( -18.60)
>DroWil_CAF1 129210 107 - 1
AUUGGAAGUGAAACGUAAAUGAAUGCAAUAAAUUAUUUACGCUUACCUGUGAUAUUAAAAAUCAAGCAGAGAAACUUUUCCAAUAUACCAACUUUUUGGAGCCAAG----------U
(((((((((((..(((((((((.(......).))))))))).))))(((((((.......)))..))))........)))))))...((((....)))).......----------. ( -20.00)
>DroAna_CAF1 130597 115 - 1
AUUGGAUGUGAAACGUAAAUGAAUGCAAUAAAUUAUUUACGUUCACCUGUGAUAUUAAAAAUCAAGCAGAGAAACUUUUCCAAUAUAACAACUUUUUUUCUCCAAGUUGUUG--GGA
((((((.(((((.(((((((((.(......).))))))))))))))(((((((.......)))..)))).........)))))).(((((((((.........)))))))))--... ( -27.40)
>DroPer_CAF1 144473 106 - 1
AUUGGAUGUGAAACGUAAAUGAACGCAAUAAAUUAUUUACGUUCACCUGUGAUAUUAAAAAUCAAGCACAGAAACUUUUCCAAUAUAACAACUUUUCGU-----------UGCAAGU
((((((.(((((.(((((((((..........))))))))))))))(((((...............))))).......))))))....((((.....))-----------))..... ( -23.56)
>consensus
AUUGGAUGUGAAACGUAAAUGAAUGCAAUAAAUUAUUUACGUUCACCUGUGAUAUUAAAAAUCAAGCAGAGAAACUUUUCCAAUAUAACAACUUUUUGU__CC_A_____UG_AGGU
((((((.(((((.(((((((((..........))))))))))))))...((((.......))))..............))))))................................. (-16.64 = -16.83 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:11:24 2006