Locus 667

Sequence ID	X_DroMel_CAF1
Location	1,866,463 – 1,866,583
Length	120
Max. P	0.950640

overview

Window 1

Location	1,866,463 – 1,866,583
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	96.67
Mean single sequence MFE	-45.20
Consensus MFE	-43.39
Energy contribution	-43.33
Covariance contribution	-0.06
Combinations/Pair	1.10
Mean z-score	-2.23
Structure conservation index	0.96
SVM decision value	1.40
SVM RNA-class probability	0.950640
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1866463 120 + 22224390
GUGUGCGUGUGUGAGAGGCCAUCGUAAAAGCCUUGUUUGCGUGCGGAAUUUAACUGUUUUCUCGCCGUCUGCGAAUUGCGGGGCACUCACACACGCAUAUUCAGCCGCACAUCUGGGAAA
(((((((((((((((..(((.((((((.....((((..(((.((((((..........))).))))))..)))).))))))))).)))))))))))))))((((........)))).... ( -47.80)
>DroSec_CAF1 3704 120 + 1
GUGUGCGUGUGUGAGAGGCCAUCGUAAAAGCCUUGUUUGCGUGUGGAAUUUAACUGUUUUCUUGCCGUCUGCGAAUUGCGGGGCACUCACACACGCAUAUUCAGCCGCACAUCUGGGAAA
(((((((((((((((...((((((((((.......)))))).))))................((((..((((.....)))))))))))))))))))))))((((........)))).... ( -43.30)
>DroEre_CAF1 2293 120 + 1
GUGUGCGUGUGUGAGAGGCCAUCGUAAAAGCCUUGUUUGCGUGUGGAAUUUAACUGUUUUCUCGCCGUCUGCGAAUUGGGGGGCACUUACACACGCACAUACAGCCGCACAUCUGGGAAA
(((((((((((((((...((((((((((.......)))))).)))).................(((.(((.......))).))).)))))))))))))))....(((......))).... ( -43.00)
>DroYak_CAF1 4177 120 + 1
GUGUGCGUGUGUGAGAGGCCAUCGUAAAAGCCUUGUUUGCGUGUGGAAUUUAACUGUUUUCUCGCCGUCUGCGAAUCGGGGGGCACUCACACACGCACAUACAGCCGCACAUCUGGGAAA
(((((((((((((((...((((((((((.......)))))).)))).................(((.((((.....)))).))).)))))))))))))))....(((......))).... ( -46.70)
>consensus
GUGUGCGUGUGUGAGAGGCCAUCGUAAAAGCCUUGUUUGCGUGUGGAAUUUAACUGUUUUCUCGCCGUCUGCGAAUUGCGGGGCACUCACACACGCACAUACAGCCGCACAUCUGGGAAA
(((((((((((((((..(((.((((((.....((((..(((.((((((..........))).))))))..)))).))))))))).)))))))))))))))....(((......))).... (-43.39 = -43.33 +  -0.06)

alignment

secondary structure

dotplot

Window 2

Location	1,866,463 – 1,866,583
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	96.67
Mean single sequence MFE	-37.05
Consensus MFE	-34.51
Energy contribution	-34.83
Covariance contribution	0.31
Combinations/Pair	1.03
Mean z-score	-1.54
Structure conservation index	0.93
SVM decision value	0.05
SVM RNA-class probability	0.559403
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1866463 120 - 22224390
UUUCCCAGAUGUGCGGCUGAAUAUGCGUGUGUGAGUGCCCCGCAAUUCGCAGACGGCGAGAAAACAGUUAAAUUCCGCACGCAAACAAGGCUUUUACGAUGGCCUCUCACACACGCACAC
.........(((((.((.......))((((((((((((...((.....)).....(((.(((..........))))))..)))....(((((........))))))))))))))))))). ( -38.10)
>DroSec_CAF1 3704 120 - 1
UUUCCCAGAUGUGCGGCUGAAUAUGCGUGUGUGAGUGCCCCGCAAUUCGCAGACGGCAAGAAAACAGUUAAAUUCCACACGCAAACAAGGCUUUUACGAUGGCCUCUCACACACGCACAC
.........((((((..((....((((((((.(((((((..((.....))....)))..(....)......))))))))))))....(((((........)))))....))..)))))). ( -35.80)
>DroEre_CAF1 2293 120 - 1
UUUCCCAGAUGUGCGGCUGUAUGUGCGUGUGUAAGUGCCCCCCAAUUCGCAGACGGCGAGAAAACAGUUAAAUUCCACACGCAAACAAGGCUUUUACGAUGGCCUCUCACACACGCACAC
.........((((((..(((...((((((((.((..((.......(((((.....)))))......))....)).))))))))....(((((........)))))...)))..)))))). ( -35.22)
>DroYak_CAF1 4177 120 - 1
UUUCCCAGAUGUGCGGCUGUAUGUGCGUGUGUGAGUGCCCCCCGAUUCGCAGACGGCGAGAAAACAGUUAAAUUCCACACGCAAACAAGGCUUUUACGAUGGCCUCUCACACACGCACAC
.....(((........)))..((((((((((((((.(((...((.(((((.....)))))........((((..((............))..))))))..)))..)))))))))))))). ( -39.10)
>consensus
UUUCCCAGAUGUGCGGCUGAAUAUGCGUGUGUGAGUGCCCCCCAAUUCGCAGACGGCGAGAAAACAGUUAAAUUCCACACGCAAACAAGGCUUUUACGAUGGCCUCUCACACACGCACAC
.........((((((..((....((((((((.((((.........(((((.....)))))...........))))))))))))....(((((........)))))....))..)))))). (-34.51 = -34.83 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:39 2006