Locus 7480

Sequence ID	3R_DroMel_CAF1
Location	19,982,951 – 19,983,068
Length	117
Max. P	0.977087

overview

Window 0

Location	19,982,951 – 19,983,043
Length	92
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	75.30
Mean single sequence MFE	-28.22
Consensus MFE	-24.16
Energy contribution	-22.88
Covariance contribution	-1.27
Combinations/Pair	1.38
Mean z-score	-1.85
Structure conservation index	0.86
SVM decision value	1.78
SVM RNA-class probability	0.977087
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19982951 92 - 27905053
---------AUAGGAAUGCCGAUUUGGCAUUCCCUUCACUGGUCGUAGGCAUUUGUGGAGUUUAUAUCGUGUCGUAAGCAU--UGCAUGAUUUAC---CUAAUUUA--------------
---------...((((((((.....))))))))((((((..((.....))....))))))..((.((((((((....)...--.))))))).)).---........-------------- ( -25.90)
>DroVir_CAF1 1281 108 - 1
---------GUAGGAGUGCCGUUUCGGCAUUCCCUUCACGGGCCGUAGGCAUUUGUGGAGUUUAUAUCGUGUCGUAAGCAU--UGCAUGUUCUUAC-UCCCACUCAUACCCCACCCAGAU
---------((((((((((((...)))))))))......(((..(((((.((.((..(.((((((........)))))).)--..)).)).)))))-.))).....)))........... ( -32.00)
>DroGri_CAF1 1183 103 - 1
---------GUAGGAGUGCCGUUUCGGCAUUCCCUUCACGGGCCGUAGGCAUUUGUGGAGUUUAUAUCGUGCCGUAAGCAU--UGCAUGUUGUUCU-UCUUAUUUAAACAC-----UCUU
---------...(((((((((...)))))))))(((((((.(((...)))...)))))))...(((.((((((....)...--.))))).)))...-..............-----.... ( -28.90)
>DroWil_CAF1 7388 107 - 1
UAUCUGUCUAUAGGAAUGCCGUUUUGGUAUUCCUUUCACGGGUCGUAGACAUCUGUGGAGUUUAUAUCGUGUUGUAAGCAUGUUGCAUGUUGCUUCUUUUAAUUU-------------UG
.((((((....(((((((((.....)))))))))...)))))).((((.((..((..(.(((((((......)))))))...)..))))))))............-------------.. ( -26.80)
>DroMoj_CAF1 1266 97 - 1
---------AUAGGAGUGCCGUUUUGGCAUUCCCUUCACGGGCCGUAGGCAUUUGUGGAGUUUAUAUCGCGUUGUAAGCAU--UGCAUGUUCUUAU-UCCCACUC-----------UCAU
---------...((((((((.....))))))))......(((..(((((.((.((..(.(((((((......))))))).)--..)).)).)))))-.)))....-----------.... ( -30.90)
>DroAna_CAF1 1192 94 - 1
----------UAGGAGUGCCGAUUCGGUAUUCCCUUUACAGGCCGUAGGCACUUGUGGAGUUUAUAUCGUGUUGUAAGCAU--UGCACAUUUUUUUCUCUAAUUUA--------------
----------..(((((((((...)))))))))(((((((((((...))).).)))))))........((((((....)).--.))))..................-------------- ( -24.80)
>consensus
_________AUAGGAGUGCCGUUUCGGCAUUCCCUUCACGGGCCGUAGGCAUUUGUGGAGUUUAUAUCGUGUCGUAAGCAU__UGCAUGUUCUUAU_UCUAAUUUA_____________U
............(((((((((...)))))))))(((((((.(((...)))...))))))).................((.....)).................................. (-24.16 = -22.88 +  -1.27)

alignment

secondary structure

dotplot

Window 1

Location	19,982,972 – 19,983,068
Length	96
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	85.56
Mean single sequence MFE	-27.27
Consensus MFE	-22.93
Energy contribution	-22.22
Covariance contribution	-0.72
Combinations/Pair	1.27
Mean z-score	-2.12
Structure conservation index	0.84
SVM decision value	0.74
SVM RNA-class probability	0.837364
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19982972 96 - 27905053
UGUAUUACUCUCAUUUUCUGCAUGU--------------AUAGGAAUGCCGAUUUGGCAUUCCCUUCACUGGUCGUAGGCAUUUGUGGAGUUUAUAUCGUGUCGUAAGCA
...................((((((--------------(((((((((((.....))))))))((((((..((.....))....))))))..)))).)))))........ ( -25.70)
>DroSec_CAF1 1253 96 - 1
UGUAUUUCUCUCAUUUUCUGCAUGU--------------AUAGGAAUGCCGAUUUGGCAUUCCCUUCACUGGUCGUAGGCAUUUGUGGAGUUUAUAUCGUGUCGUAAGCA
...................((((((--------------(((((((((((.....))))))))((((((..((.....))....))))))..)))).)))))........ ( -25.70)
>DroEre_CAF1 1251 96 - 1
UGCAUUCCUUUCAUUUUCUGCAUGU--------------AUAGGAAUGCCGAUUUGGCAUUCCGUUCACUGGUCGUAGGCAUUUGUGGAGUUUAUAUCGUGUCGUAAGCA
................((..((...--------------...((((((((.....))))))))((..((.....))..))...))..))((((((........)))))). ( -24.80)
>DroWil_CAF1 7415 110 - 1
UCUCUUAUUUCUAAUUUCUGCAUGUUGACUUAUCUGUCUAUAGGAAUGCCGUUUUGGUAUUCCUUUCACGGGUCGUAGACAUCUGUGGAGUUUAUAUCGUGUUGUAAGCA
................((..((((((.((..((((((....(((((((((.....)))))))))...)))))).)).))))..))..))(((((((......))))))). ( -31.30)
>DroYak_CAF1 1257 96 - 1
UGCAUUACUUUCAUUUUCUGCAUGU--------------AUAGGAAUGCCGAUUUGGCAUUCCCUUCACUGGUCGUAGGCAUUUGUGGAGUUUAUAUCGUGUCGUAAGCA
.((.((((...........((((((--------------(((((((((((.....))))))))((((((..((.....))....))))))..)))).))))).)))))). ( -27.30)
>DroAna_CAF1 1216 95 - 1
UACUUUACUUUCGUUUUCUGCAUGU---------------UAGGAGUGCCGAUUCGGUAUUCCCUUUACAGGCCGUAGGCACUUGUGGAGUUUAUAUCGUGUUGUAAGCA
............((((...(((((.---------------(((((((((((...)))))))))(((((((((((...))).).)))))))....)).)))))...)))). ( -28.80)
>consensus
UGCAUUACUUUCAUUUUCUGCAUGU______________AUAGGAAUGCCGAUUUGGCAUUCCCUUCACUGGUCGUAGGCAUUUGUGGAGUUUAUAUCGUGUCGUAAGCA
...................(((((..................((((((((.....))))))))((((((..(((...)))....)))))).......)))))........ (-22.93 = -22.22 +  -0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:04 2006