Locus 3575

Sequence ID	X_DroMel_CAF1
Location	9,595,187 – 9,595,299
Length	112
Max. P	0.999476

overview

Window 0

Location	9,595,187 – 9,595,299
Length	112
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.36
Mean single sequence MFE	-41.81
Consensus MFE	-34.26
Energy contribution	-34.58
Covariance contribution	0.32
Combinations/Pair	1.03
Mean z-score	-2.93
Structure conservation index	0.82
SVM decision value	2.94
SVM RNA-class probability	0.997849
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9595187 112 + 22224390
AGAUGGCCAUAGCGGGUGGAAGAGAGAUGG-UAGAU------CGGGGUCGGGAGCUGAGGUAGAUAAAAGGUGAGGAACCUGCAGCGCCAUUUGCUGAUAGCGCCCGCUGUGAAUUCGA-
.((....(((((((((((..((..((((((-(.(((------....)))....((((((((................)))).))))))))))).)).....)))))))))))...))..- ( -39.49)
>DroSec_CAF1 53857 112 + 1
AGAUGGCCAUAGCGGGUGCAAGCGAGAUGG-UAGAU------CGGGGUCGGGAGCUGAGAUAGAUAAAAGGUGAGGAACCUGCAGCGCCAUUUGCUGAUAGCGCCCGCUGUGAAUUCGU-
.((....((((((((((((.(((.((((((-(.(((------....)))....((((...........((((.....)))).))))))))))))))....))))))))))))...))..- ( -46.10)
>DroSim_CAF1 40350 112 + 1
AGAUGGCCAUAGCGGGUGCAAGCGAGAUGG-UAGAU------CGGGGUCGGGAGCUGAGGUAGAUAAAAGGUGAGGAACCUGCAGCGCCAUUUGCUGAUAGCGCCCGCUGUGAAUUCGU-
.((....((((((((((((.(((.((((((-(.(((------....)))....((((((((................)))).))))))))))))))....))))))))))))...))..- ( -46.59)
>DroEre_CAF1 58728 111 + 1
AGAGGCCCAUAGCGGGUGGAAGAGAGAUGG-GAGAU-------CGGGUCGGGAGCUGAGGUAGAUAAAAGGUGAGGAACCUGCAGCGCCAUUUGCUGAUAGCGCCCGCUGUGAGUUCGA-
.(((.(.(((((((((((..((..((((((-..(((-------...)))....((((((((................)))).)))).)))))).)).....))))))))))).))))..- ( -37.39)
>DroYak_CAF1 57091 120 + 1
AGAGGGCCAUAGCGGGUGGAAGUGAGAUGGGGAGAUAGGAGUCGGGGUCGGGAGCUGAGGUAGAUAAAAGGUGAGGAACCUGCAGCGCCAUUUGCUGAUAGCGCCCGCUGUGAAUUCAAA
.(((...(((((((((((..(((.((((((...(((....)))..........((((((((................)))).)))).))))))))).....)))))))))))..)))... ( -39.49)
>consensus
AGAUGGCCAUAGCGGGUGGAAGAGAGAUGG_UAGAU______CGGGGUCGGGAGCUGAGGUAGAUAAAAGGUGAGGAACCUGCAGCGCCAUUUGCUGAUAGCGCCCGCUGUGAAUUCGA_
.......(((((((((((..((((((.......(((..........))).((.((((...........((((.....)))).)))).)).)))))).....)))))))))))........ (-34.26 = -34.58 +   0.32)

alignment

secondary structure

dotplot

Window 1

Location	9,595,187 – 9,595,299
Length	112
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.36
Mean single sequence MFE	-28.53
Consensus MFE	-26.07
Energy contribution	-25.91
Covariance contribution	-0.16
Combinations/Pair	1.05
Mean z-score	-2.29
Structure conservation index	0.91
SVM decision value	3.64
SVM RNA-class probability	0.999476
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9595187 112 - 22224390
-UCGAAUUCACAGCGGGCGCUAUCAGCAAAUGGCGCUGCAGGUUCCUCACCUUUUAUCUACCUCAGCUCCCGACCCCG------AUCUA-CCAUCUCUCUUCCACCCGCUAUGGCCAUCU
-......(((.((((((.(((((......)))))((((.((((................))))))))...........------.....-..............)))))).)))...... ( -26.39)
>DroSec_CAF1 53857 112 - 1
-ACGAAUUCACAGCGGGCGCUAUCAGCAAAUGGCGCUGCAGGUUCCUCACCUUUUAUCUAUCUCAGCUCCCGACCCCG------AUCUA-CCAUCUCGCUUGCACCCGCUAUGGCCAUCU
-......(((.((((((.((....(((....((.((((.((((................)))))))).))((....))------.....-.......))).)).)))))).)))...... ( -28.79)
>DroSim_CAF1 40350 112 - 1
-ACGAAUUCACAGCGGGCGCUAUCAGCAAAUGGCGCUGCAGGUUCCUCACCUUUUAUCUACCUCAGCUCCCGACCCCG------AUCUA-CCAUCUCGCUUGCACCCGCUAUGGCCAUCU
-......(((.((((((.((....(((....((.((((.((((................)))))))).))((....))------.....-.......))).)).)))))).)))...... ( -31.39)
>DroEre_CAF1 58728 111 - 1
-UCGAACUCACAGCGGGCGCUAUCAGCAAAUGGCGCUGCAGGUUCCUCACCUUUUAUCUACCUCAGCUCCCGACCCG-------AUCUC-CCAUCUCUCUUCCACCCGCUAUGGGCCUCU
-..((.((((.((((((.(((((......)))))((((.((((................))))))))..........-------.....-..............)))))).))))..)). ( -29.69)
>DroYak_CAF1 57091 120 - 1
UUUGAAUUCACAGCGGGCGCUAUCAGCAAAUGGCGCUGCAGGUUCCUCACCUUUUAUCUACCUCAGCUCCCGACCCCGACUCCUAUCUCCCCAUCUCACUUCCACCCGCUAUGGCCCUCU
.......(((.((((((.(((((......)))))((((.((((................)))))))).....................................)))))).)))...... ( -26.39)
>consensus
_UCGAAUUCACAGCGGGCGCUAUCAGCAAAUGGCGCUGCAGGUUCCUCACCUUUUAUCUACCUCAGCUCCCGACCCCG______AUCUA_CCAUCUCGCUUCCACCCGCUAUGGCCAUCU
.......(((.((((((.(((((......)))))((((.((((................)))))))).....................................)))))).)))...... (-26.07 = -25.91 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:48 2006