Locus 3602

Sequence ID	2L_DroMel_CAF1
Location	10,481,537 – 10,481,775
Length	238
Max. P	0.824337

overview

Window 9

Location	10,481,537 – 10,481,657
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.00
Mean single sequence MFE	-29.20
Consensus MFE	-27.20
Energy contribution	-27.24
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.29
Structure conservation index	0.93
SVM decision value	0.55
SVM RNA-class probability	0.778601
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10481537 120 + 22407834
GCACAAUGAUCUGCUGGCCAAUGUGGUGCAUAGGUAAGCAUCAGCAGGAAAUCUCAUUUGAAUAUGCACACAUUUGCAUUCUAGACACGAAGUCCCUGUUACUUCACAGCCCAUCAAGAU
......((((..((((((.((((((.((((((..(((((....))..((....))..)))..)))))))))))).))...........(((((.......))))).))))..)))).... ( -31.10)
>DroSec_CAF1 9615 120 + 1
GCACAAUGAUCUGCUGGCCAAUGUGGUGCAUAGGUAAGCAUCAGUAGGAAAUCUCAUUUGAAUAUGCACACAUUUGCAUUCUAGACACGAAGUCCCUGUUACUUCACAGCCCAUCAAGAU
......((((..((((((.((((((.((((((.(....).((((...((....))..)))).)))))))))))).))...........(((((.......))))).))))..)))).... ( -29.50)
>DroSim_CAF1 9951 120 + 1
GCACAAUGAUCUGCUGGCCAAUGUGGUGCAUAGGUAAGCAUCAGUAGGAAAUCUCAUUUGAAUAUGCACACAUUUGCAUUCUAGACACGAAGUCCCUGUUACUUCACAGCCCAUCAAGAU
......((((..((((((.((((((.((((((.(....).((((...((....))..)))).)))))))))))).))...........(((((.......))))).))))..)))).... ( -29.50)
>DroEre_CAF1 13762 120 + 1
ACAUAACGAUCUGCUGGCCAAUGUGGUUCAUAGGUAAGCAUCAGUAGGAAACCUCAUUUGAAUAUGCACACAUUUGCAUUCUAGACACGAAGUCCCUGUUACUUCACAGCCCAUCAAGAU
.......(((..((((((.((((((...((((..((((.....(..(....)..).))))..))))..)))))).))...........(((((.......))))).))))..)))..... ( -25.10)
>DroYak_CAF1 10375 120 + 1
ACAUAACGAUCUGCUGGCCAAUGUGGUGCAUAGGUAAGCAUCAGUAGGAAACAUCAUUUGAAUAUGCACACAUUUGCAUUCUAGACACGAAGUCCCUGUUACUUCACAGCCCAUCAAGAU
.......(((..((((((.((((((.((((((..(((((....)).(....).....)))..)))))))))))).))...........(((((.......))))).))))..)))..... ( -30.80)
>consensus
GCACAAUGAUCUGCUGGCCAAUGUGGUGCAUAGGUAAGCAUCAGUAGGAAAUCUCAUUUGAAUAUGCACACAUUUGCAUUCUAGACACGAAGUCCCUGUUACUUCACAGCCCAUCAAGAU
.......(((..((((((.((((((.((((((..(((((....))..((....))..)))..)))))))))))).))...........(((((.......))))).))))..)))..... (-27.20 = -27.24 +   0.04)

alignment

secondary structure

dotplot

Window 0

Location	10,481,657 – 10,481,775
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	84.74
Mean single sequence MFE	-24.55
Consensus MFE	-15.70
Energy contribution	-15.30
Covariance contribution	-0.40
Combinations/Pair	1.12
Mean z-score	-2.42
Structure conservation index	0.64
SVM decision value	0.69
SVM RNA-class probability	0.824337
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10481657 118 - 22407834
CACAAGGAUGUACCUACA--ACAUACGAUUGUUAUUAAAUCAAAUUCCUUCCAAAUUAGUAUACCUACCGGUAUCGAUGCCGGCUUAUUCACAACCACAAUAUCCUUGUCCAUGUACACA
.((((((((((.......--..((((((((.......)))).((((.......)))).)))).....((((((....))))))................))))))))))........... ( -22.40)
>DroSec_CAF1 9735 118 - 1
CACAAGGAUGUACCUACA--ACAUACGAUUGUUAUUGAACAAAAUUCCUUCUGAAUUAGUAUACCUACGGGUAUCGAUGCCGGCUUAUUCACAACCACAAUAUCCUUGUCCAUGUAUACA
.((((((((((.......--........(((((....))))).........(((((.((((((((....)))))((....))))).)))))........))))))))))........... ( -25.50)
>DroSim_CAF1 10071 120 - 1
CACAAGGAUGUACCUACAAAACAUACGAUUGUUAUUAUAUAAAAUUCCAUGUAAAUUAGUAUACCUACCGGUAUCGAUGCCGGCUUAUUAACAACCACAAUAUCCUUGUCCAUGAAAACA
.((((((((((...(((..((((......)))).((((((........))))))....)))......((((((....))))))................))))))))))........... ( -23.80)
>DroEre_CAF1 13882 119 - 1
CACAAGGGUGUACCUGAA-AAGAUACGAUUGUUAUUAUAUUCGCUAGCACUCAAAUUACUAUACCCACUGGUAUCGAUGCUGGCUUAUUCACAACCACAAUAUCCUUGUCCAUGUACACU
.(((((((((((.((...-.)).))).(((((......((..(((((((.((....(((((.......)))))..)))))))))..))........)))))))))))))........... ( -26.74)
>DroYak_CAF1 10495 119 - 1
CACAAGGGUGUACCUGAA-AUAGUACGAUUAUUAUUAUAUUCUUUGGCGUUUAAAUGAGUAUACUUACAGGUAUCGAUGCUGGCUUAUUCACAACCACAAUAUCCUUGUCCAUGUACACA
.(((((((((((((((.(-((((((....)))))))((((((.((........)).)))))).....))))).....((.(((...........)))))))))))))))........... ( -24.30)
>consensus
CACAAGGAUGUACCUACA_AACAUACGAUUGUUAUUAUAUAAAAUUCCAUCUAAAUUAGUAUACCUACCGGUAUCGAUGCCGGCUUAUUCACAACCACAAUAUCCUUGUCCAUGUACACA
.((((((((((.................................................(((((....))))).......((...........))...))))))))))........... (-15.70 = -15.30 +  -0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:40 2006