Locus 7890

Sequence ID	X_DroMel_CAF1
Location	19,665,798 – 19,665,937
Length	139
Max. P	0.997519

overview

Window 4

Location	19,665,798 – 19,665,914
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	92.62
Mean single sequence MFE	-23.82
Consensus MFE	-19.08
Energy contribution	-20.00
Covariance contribution	0.92
Combinations/Pair	1.03
Mean z-score	-2.06
Structure conservation index	0.80
SVM decision value	1.33
SVM RNA-class probability	0.943329
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19665798 116 - 22224390
UUUGCGAAUUUUGUUUUUCAGCAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCACACAUUAUUAACAACAUUCGGCUAAGCUAAAUGGCUUUUGAUUCUAUAUA
....(((((.(((((.....((((((((...(((((.(.........).)))))...))))))))..........))))).)))))...(((((....)))))............. ( -22.76)
>DroSec_CAF1 39291 115 - 1
-UUGCGAAUUUUGUUUUUCAGCAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCAUACAUUAUUAACAACUUUCGGCUAAGCUAAAUGGCGUUUGAUUCUAUAUA
-...((((..(((((.....((((((((...(((((.(.........).)))))...))))))))..........)))))..))))((((.......))))............... ( -21.36)
>DroSim_CAF1 31058 115 - 1
-UUGCGAAUUUUGUUUUUCAGCAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCAUACAUUAUGAACAACUUUCGGCUAAGCUAAAUGGCUUUUGAUUCUAUAUA
-...((((..((((((....((((((((...(((((.(.........).)))))...)))))))).........))))))..))))...(((((....)))))............. ( -23.42)
>DroEre_CAF1 51367 112 - 1
-UUGCGAAUCUUGUUUCUCAACAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGAAAA---UAUUAACAACGUUCGCCGAAGCUUAAUGGCUUUUGAUUCUAUAUA
-..((((((.(((((......(((((((...(((((.(.........).)))))...)))))))....---....))))).)))))).((((((....))))))............ ( -25.64)
>DroYak_CAF1 53262 112 - 1
-UUGCGAAUUUUGUUUCUCAACAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCAUA---UAUUAACAACGUUCGGCGAAGCUUAAUGGCUUUGGAUUCUAUAUA
-...(((((.(((((......(((((((...(((((.(.........).)))))...)))))))....---....))))).))))).(((((((....)))))))........... ( -25.94)
>consensus
_UUGCGAAUUUUGUUUUUCAGCAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCAUACAUUAUUAACAACGUUCGGCUAAGCUAAAUGGCUUUUGAUUCUAUAUA
....(((((.(((((.....((((((((...(((((.(.........).)))))...))))))))..........))))).)))))...(((((....)))))............. (-19.08 = -20.00 +   0.92)

alignment

secondary structure

dotplot

Window 5

Location	19,665,838 – 19,665,937
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	91.73
Mean single sequence MFE	-18.58
Consensus MFE	-16.34
Energy contribution	-16.58
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-2.21
Structure conservation index	0.88
SVM decision value	2.87
SVM RNA-class probability	0.997519
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19665838 99 - 22224390
UAAUAUAUUUGGCUACAUUUCGUUUUGCGAAUUUUGUUUUUCAGCAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCACACAUUAUUA
.........(((..(((.((((.....))))...)))...)))((((((((...(((((.(.........).)))))...))))))))........... ( -19.20)
>DroSec_CAF1 39331 98 - 1
UAAUAUACUUGGCAACAUUUCGU-UUGCGAAUUUUGUUUUUCAGCAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCAUACAUUAUUA
.........(((.((((.((((.-...))))...))))..)))((((((((...(((((.(.........).)))))...))))))))........... ( -19.40)
>DroSim_CAF1 31098 98 - 1
UAAUAUACUUGGCAACAUUUCGU-UUGCGAAUUUUGUUUUUCAGCAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCAUACAUUAUGA
...((((..((((((...((((.-...))))..))))......((((((((...(((((.(.........).)))))...))))))))...)).)))). ( -19.50)
>DroEre_CAF1 51407 93 - 1
UAAUA--UUUGGCUACAUUUCGU-UUGCGAAUCUUGUUUCUCAACAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGAAAA---UAUUA
(((((--(((((..(((.((((.-...))))...)))..))...(((((((...(((((.(.........).)))))...))))))).)))---))))) ( -18.10)
>DroYak_CAF1 53302 93 - 1
UAAUA--UUUGGCUACAUUUCGC-UUGCGAAUUUUGUUUCUCAACAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCAUA---UAUUA
(((((--(.(((..(((.((((.-...))))...)))..)....(((((((...(((((.(.........).)))))...))))))))).)---))))) ( -16.70)
>consensus
UAAUAUAUUUGGCUACAUUUCGU_UUGCGAAUUUUGUUUUUCAGCAUAUAAUUUUUGAAGCGUUCCUAUAGGUUCAAUUUUUAUAUGCAUACAUUAUUA
.........(((..(((.(((((...)))))...)))...)))((((((((...(((((.(.........).)))))...))))))))........... (-16.34 = -16.58 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:06 2006