Locus 10073

Sequence ID 3R_DroMel_CAF1
Location 26,983,085 – 26,983,237
Length 152
Max. P 0.990821
window16041 window16042

overview

Window 1

Location 26,983,085 – 26,983,198
Length 113
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 90.88
Mean single sequence MFE -28.46
Consensus MFE -22.18
Energy contribution -22.22
Covariance contribution 0.04
Combinations/Pair 1.11
Mean z-score -2.93
Structure conservation index 0.78
SVM decision value 2.23
SVM RNA-class probability 0.990821
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26983085 113 - 27905053
UUUCCAAUUAGAGAAGCAA-ACUUUUUGCCAGAAAAUGCUAAAGGACAUUAC----GUACUGUCCAUUCUAGUUCGAAACUAUUUUCUGGAAAAUUGCUGGUUUAUUUUUAGCCAUCA
............(((((((-...((((.((((((((((.....(((((....----....))))).(((......)))..)))))))))))))))))))((((.......)))).)). ( -26.10)
>DroSec_CAF1 30718 113 - 1
UUUCCAAUUAGAGAAGGAA-ACUUCUUGCCAGAAAAUGCUAAAGGACAUUAC----GGAUUGUCUAUUCUAGUUCGAAACUAUUUUCUGGAAAAUUGCUGGUUUAUUUUUAGCCAUCA
....(((((.((((((...-.)))))).((((((((((.....(((((....----....))))).(((......)))..))))))))))..))))).(((((.......)))))... ( -30.50)
>DroSim_CAF1 30717 113 - 1
UUUCCAAUUAGAGAAGGAA-ACUUCUUGCCAGAAAAUGCUAAAGGACAUUAC----GGAUUGUCCAUUCUAGUUCGGAACUAUUUUCUGGAAAAUUGCUGGUUUAUUUUUAGCCAUCA
....(((((.((((((...-.)))))).((((((((((.....(((((....----....))))).((((.....)))).))))))))))..))))).(((((.......)))))... ( -33.60)
>DroEre_CAF1 32787 117 - 1
UUUCCAAUUAGAGAAGGAA-ACUUCUUGCCAGAAAAUUCUAAAGGACAUUACAUACAGAUUGUCCAGCCAAGUUCAAAACUAUUUUCUGGAAAAUUGCUGAUUUAUUUUUAGCCAACA
..........((((((...-.)))))).(((((((((......(((((............))))).....(((.....))))))))))))......(((((.......)))))..... ( -28.90)
>DroYak_CAF1 31166 118 - 1
UUUCCAAUUAGAGUAGGAAAAGUUCUUGCCAGAAAAUGCUAAAGGACAUUACAUACAGAUUGUCCAUUCAAGUUCAAAACAAUUUUCUGGAAAAUUGCUGAUUUAUUUUUAGCCAACA
(((((.....(.((((((.....)))))))(((((((......(((((............)))))......((.....)).))))))))))))...(((((.......)))))..... ( -23.20)
>consensus
UUUCCAAUUAGAGAAGGAA_ACUUCUUGCCAGAAAAUGCUAAAGGACAUUAC____GGAUUGUCCAUUCUAGUUCGAAACUAUUUUCUGGAAAAUUGCUGGUUUAUUUUUAGCCAUCA
..........((((((.....)))))).(((((((((......(((((............))))).....(((.....))))))))))))......(((((.......)))))..... (-22.18 = -22.22 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 26,983,125 – 26,983,237
Length 112
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 79.76
Mean single sequence MFE -21.88
Consensus MFE -11.40
Energy contribution -11.48
Covariance contribution 0.08
Combinations/Pair 1.11
Mean z-score -2.19
Structure conservation index 0.52
SVM decision value 0.71
SVM RNA-class probability 0.829380
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26983125 112 - 27905053
ACGUAAUAUGGAAAACAAAAACAGUUUUCUUC-ACAAUUUUUUCCAAUUAGAGAAGCAA-ACUUUUUGCCAGAAAAUGCUAAAGGACAUUAC----GUACUGUCCAUUCUAGUUCGAA
.........(((((((.......)))))))..-........(((.((((((((.((((.-..(((((....)))))))))...(((((....----....))))).)))))))).))) ( -21.70)
>DroSec_CAF1 30758 111 - 1
ACAUAAUUCGGGAAACAAAAACAGUUUU-UUC-GCAAUUUUUUCCAAUUAGAGAAGGAA-ACUUCUUGCCAGAAAAUGCUAAAGGACAUUAC----GGAUUGUCUAUUCUAGUUCGAA
..(((((((((....).......(((((-((.-(((...(((((......((((((...-.))))))....)))))))).)))))))....)----)))))))............... ( -27.30)
>DroSim_CAF1 30757 111 - 1
ACAUAAUUCAGGAAACAAAAACAGUUUU-UUC-GCAAUUUUUUCCAAUUAGAGAAGGAA-ACUUCUUGCCAGAAAAUGCUAAAGGACAUUAC----GGAUUGUCCAUUCUAGUUCGGA
..(((((((.(....).......(((((-((.-(((...(((((......((((((...-.))))))....)))))))).))))))).....----)))))))............... ( -25.30)
>DroEre_CAF1 32827 105 - 1
------------CAACAACAACAGAUUUCUUCAACAUUUUUUUCCAAUUAGAGAAGGAA-ACUUCUUGCCAGAAAAUUCUAAAGGACAUUACAUACAGAUUGUCCAGCCAAGUUCAAA
------------...........((...(((........(((((......((((((...-.))))))....))))).......(((((............)))))....))).))... ( -17.80)
>DroYak_CAF1 31206 106 - 1
------------AAACAAACACUGAUUUCUACAAACAAUUUUUCCAAUUAGAGUAGGAAAAGUUCUUGCCAGAAAAUGCUAAAGGACAUUACAUACAGAUUGUCCAUUCAAGUUCAAA
------------..........((((((((...((.(((((((((.((....)).))))))))).))...)))))........(((((............)))))..)))........ ( -17.30)
>consensus
AC_UAAU___G_AAACAAAAACAGUUUUCUUC_ACAAUUUUUUCCAAUUAGAGAAGGAA_ACUUCUUGCCAGAAAAUGCUAAAGGACAUUAC____GGAUUGUCCAUUCUAGUUCGAA
.............(((.......................(((((......((((((.....))))))....))))).......(((((............)))))......))).... (-11.40 = -11.48 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:48:18 2006