Locus 532

Sequence ID	X_DroMel_CAF1
Location	1,520,630 – 1,520,865
Length	235
Max. P	0.973351

overview

Window 7

Location	1,520,630 – 1,520,748
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.74
Mean single sequence MFE	-24.96
Consensus MFE	-21.86
Energy contribution	-22.10
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.89
Structure conservation index	0.88
SVM decision value	1.71
SVM RNA-class probability	0.973351
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1520630 118 - 22224390
CAUUAGGGUUAGUAAUAGAAAAUGUACAAUUAGUUUGUAUACAUGUAUGUUUGUAUGCAUGAAAUGAGUUUCUU--GUUAUUUGUGCCUUUUUUUUAUUUACUAACGUGUAAUUCUUUGC
.((((.((((((((((((((((.((((((.(((..((((((((........)))))))).((((....))))..--.))).))))))...))))))).)))))))).).))))....... ( -26.90)
>DroSec_CAF1 10050 114 - 1
CAAUAGGGUUAGUAAUAGAAAAUGUACAAUUAGUUUGUAUACAUGUAUGUUUGUAUGCAUGAAAUGAGUUUCUU--GUUAUCUGUGCCUU----UUAUUUACUAACGUGUAAUUCUUUGC
.......((((((((...((((.(((((..(((..((((((((........)))))))).((((....))))..--.)))..))))).))----))..)))))))).............. ( -24.70)
>DroSim_CAF1 11323 114 - 1
CAAUAGGGUUAGUAAUAGAAAAUGUACAAUUAGUUUGUAUACAUGUAUGUUUGUAUGCAUGAAAUGAGUUUCUU--GUUAUCUGUGCCUU----UUAUUUACUAACGUGUAAUUCUUUGC
.......((((((((...((((.(((((..(((..((((((((........)))))))).((((....))))..--.)))..))))).))----))..)))))))).............. ( -24.70)
>DroEre_CAF1 10156 114 - 1
CAAUAGGGUUAGUAAUAGAAAAUGUACAAUUAGUUUGUAUACAUGUAUGUUUGUAUGCAUGAAAUGAGUUUCUU--GUUAUUUGUGCCUU----UUAUUUACUAACGUGUAAUUCUUUGC
.......((((((((...((((.((((((.(((..((((((((........)))))))).((((....))))..--.))).)))))).))----))..)))))))).............. ( -25.90)
>DroYak_CAF1 11646 116 - 1
CAAUAGGGUUAAUAAUAGAAAAUGUACAAUUAGUUUGUAUACAUGUAUGUUUGUAUGCAUGAAAUGAGUUUCUUGUGUUAUUUGUGCCUU----UUAUUUACUAACGUGUAAUUCUUUGC
....(((((.(((((((.((..(((((((.....)))))))((((((((....))))))))...........)).)))))))...)))))----.....(((....)))........... ( -22.60)
>consensus
CAAUAGGGUUAGUAAUAGAAAAUGUACAAUUAGUUUGUAUACAUGUAUGUUUGUAUGCAUGAAAUGAGUUUCUU__GUUAUUUGUGCCUU____UUAUUUACUAACGUGUAAUUCUUUGC
....(((((.(((((((((((.(((((((.....)))))))((((((((....)))))))).......)))))...))))))...))))).........(((....)))........... (-21.86 = -22.10 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	1,520,708 – 1,520,826
Length	118
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.79
Mean single sequence MFE	-18.77
Consensus MFE	-16.02
Energy contribution	-16.30
Covariance contribution	0.28
Combinations/Pair	1.08
Mean z-score	-1.51
Structure conservation index	0.85
SVM decision value	0.71
SVM RNA-class probability	0.830041
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1520708 118 + 22224390
AUACAAACUAAUUGUACAUUUUCUAUUACUAACCCUAAUGAAAAUCAAACCUCAUCCCCUGUCAGCAUUAUUCACGCA-ACGCAAAACGGGGAUGCAGUGAAGAUCGAA-AACGCAUAAA
.(((((.....))))).....(((.(((((........((.....)).....((((((((((..((.........)).-..)))....))))))).)))))))).....-.......... ( -17.10)
>DroSec_CAF1 10124 117 + 1
AUACAAACUAAUUGUACAUUUUCUAUUACUAACCCUAUUGAAAAUCAAACCACAUCCCCUGUCAGCAUUAUUCACGCA-ACGCAAAACGGGGAUGC-GUGUAGAUCGAA-AACGCAUAAA
.(((((.....)))))..(((((.(((..........(((.....)))(((.((((((((((..((.........)).-..)))....))))))).-).)).))).)))-))........ ( -18.30)
>DroSim_CAF1 11397 117 + 1
AUACAAACUAAUUGUACAUUUUCUAUUACUAACCCUAUUGAAAAUCAAACCACAUCCCCUGUCAGCAUUAUUCACGCA-ACGCAAAACGGGGAUGC-GUGAAGAUCGAA-AACGCAUAAA
.(((((.....))))).((((((................))))))...........((((((..((............-..))...))))))((((-((..........-.))))))... ( -17.93)
>DroEre_CAF1 10230 119 + 1
AUACAAACUAAUUGUACAUUUUCUAUUACUAACCCUAUUGAAAAUCAAACAACAUCCCCUGUCAGCAUUAUUCACGCA-AGGCAAAACGGGGAUGCAGUAAAGAUCGAAAAACACAUAAA
.(((((.....))))).....(((.(((((.......(((.....)))....(((((((((((.((.........)).-.))))....))))))).))))))))................ ( -20.40)
>DroYak_CAF1 11722 120 + 1
AUACAAACUAAUUGUACAUUUUCUAUUAUUAACCCUAUUGAAAAUCAAACAACAUCCCCUGUCAGCAUUAUUCACGCAAAGGCAAAUCGGGGAUGCAGAGAAGAUCGAAAAACACAUAAA
.(((((.....))))).(((((((.............(((.....)))....(((((((((((.((.........))...))))....)))))))...)))))))............... ( -20.10)
>consensus
AUACAAACUAAUUGUACAUUUUCUAUUACUAACCCUAUUGAAAAUCAAACCACAUCCCCUGUCAGCAUUAUUCACGCA_ACGCAAAACGGGGAUGCAGUGAAGAUCGAA_AACGCAUAAA
.(((((.....))))).....(((.((((........(((.....)))....(((((((((....))........((....)).....)))))))..)))))))................ (-16.02 = -16.30 +   0.28)

alignment

secondary structure

dotplot

Window 9

Location	1,520,748 – 1,520,865
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.29
Mean single sequence MFE	-27.80
Consensus MFE	-20.74
Energy contribution	-20.94
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.24
Structure conservation index	0.75
SVM decision value	0.35
SVM RNA-class probability	0.701028
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1520748 117 - 22224390
AUAAACAUCUUUUACACCU-CUCUGACUCGAUUUAUAUAUUUUAUGCGUU-UUCGAUCUUCACUGCAUCCCCGUUUUGCGU-UGCGUGAAUAAUGCUGACAGGGGAUGAGGUUUGAUUUU
...........(((.((((-(...((.((((..((((.....))))....-.))))))........(((((((((..((((-((......)))))).))).))))))))))).))).... ( -26.90)
>DroSec_CAF1 10164 117 - 1
AUAAACAUCUUUUACACCUCCUCUGACUCGAUUUAUAUAUUUUAUGCGUU-UUCGAUCUACAC-GCAUCCCCGUUUUGCGU-UGCGUGAAUAAUGCUGACAGGGGAUGUGGUUUGAUUUU
.(((((..................((.((((..((((.....))))....-.))))))....(-(((((((((((..((((-((......)))))).))).))))))))))))))..... ( -29.40)
>DroSim_CAF1 11437 117 - 1
AUAAACAUCAUUUACACCUCCUCUGACUCGAUUUAUAUAUUUUAUGCGUU-UUCGAUCUUCAC-GCAUCCCCGUUUUGCGU-UGCGUGAAUAAUGCUGACAGGGGAUGUGGUUUGAUUUU
......((((....(((.(((((((..((((..((((.....))))....-.))))..(((((-(((....((.....)).-)))))))).........))))))).)))...))))... ( -30.90)
>DroEre_CAF1 10270 119 - 1
AUAAACAUCUUUUACACUUCCUCUGACUCGAUUUAUAUAUUUUAUGUGUUUUUCGAUCUUUACUGCAUCCCCGUUUUGCCU-UGCGUGAAUAAUGCUGACAGGGGAUGUUGUUUGAUUUU
.((((((.................((.((((...((((((...))))))...))))))......(((((((((((......-.((((.....)))).))).))))))))))))))..... ( -26.50)
>DroYak_CAF1 11762 120 - 1
AUAAACAUCUUUUACACUUCCUCUGACUCGAUUUAUAUAUUUUAUGUGUUUUUCGAUCUUCUCUGCAUCCCCGAUUUGCCUUUGCGUGAAUAAUGCUGACAGGGGAUGUUGUUUGAUUUU
.((((((.................((.((((...((((((...))))))...))))))......((((((((....((.(...((((.....)))).).))))))))))))))))..... ( -25.30)
>consensus
AUAAACAUCUUUUACACCUCCUCUGACUCGAUUUAUAUAUUUUAUGCGUU_UUCGAUCUUCACUGCAUCCCCGUUUUGCGU_UGCGUGAAUAAUGCUGACAGGGGAUGUGGUUUGAUUUU
.(((((..................((.((((..((((.....))))......))))))......(((((((((.....)....((((.....)))).....)))))))).)))))..... (-20.74 = -20.94 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:05 2006