Locus 3326

Sequence ID	3R_DroMel_CAF1
Location	8,929,130 – 8,929,260
Length	130
Max. P	0.989958

overview

Window 0

Location	8,929,130 – 8,929,241
Length	111
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	79.09
Mean single sequence MFE	-26.58
Consensus MFE	-19.54
Energy contribution	-19.65
Covariance contribution	0.11
Combinations/Pair	1.18
Mean z-score	-1.32
Structure conservation index	0.73
SVM decision value	0.47
SVM RNA-class probability	0.750045
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8929130 111 + 27905053
AAUUUAUUAACGAUUUAUCUUUGUCCUGCUGCCAGGCUUU-GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGCGAAAAAAGGGGGUGUUGAGCUAGAGCUUAUA
...................((((..((((.(((((.....-.))))).((((((((((......))))))))))))))..))))............(((((....))))).. ( -29.70)
>DroSec_CAF1 50752 93 + 1
AAUUUAUUAACGAUUUAUCUUUGUCCUGCUGCCAGGCUUC--CUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGAAACAAAAGGGG-----------------AUA
.................(((((.((((((.((((((...)--))))).((((((((((......)))))))))))))).))....)))))..-----------------... ( -26.50)
>DroSim_CAF1 52078 94 + 1
AAUUUAUUAACGAUUUAUCUUUGUCCUUCUGCCAGGCUUC-GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGAAACAAAAGGGG-----------------AUA
............((((...(((((..((((((..((((..-...))))((((((((((......))))))))))))))))..)))))...))-----------------)). ( -24.60)
>DroEre_CAF1 57198 108 + 1
AAUUUAUUAACGAUUUAUCUUUGUCCUGUUGCCAGGCUUC-GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGACAGAAAAAAGGUGGUAUUAAACUGGAGCUU---
...........(((((((((((...((((((((((.....-.)))))(((((((((((......)))))))))))..)))))...)))))))).)))............--- ( -28.10)
>DroYak_CAF1 57395 95 + 1
AAUUUAUUAACGAUUUAUCUUUGUCCUGCUGCCAGGCUUC-GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGAGAAA-------------AACUAGAGCUU---
...................(((.((((((.(((((.....-.))))).((((((((((......)))))))))))))).)).)))-------------...........--- ( -24.00)
>DroAna_CAF1 56303 108 + 1
AAUUUAUUAACGAUUUAUCUUUGUCCUGGUCCCAGGCUCCUUCUGGUCACAUAUGCUUGAGAUUAGGUAUAUGUGCAGUGAGAAAAUUAAGA----AGAGCUGUAGUUUCAA
........(((......(((((..((((....))))(((...(((..((((((((((((....))))))))))))))).)))........))----)))......))).... ( -26.60)
>consensus
AAUUUAUUAACGAUUUAUCUUUGUCCUGCUGCCAGGCUUC_GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGAGAAAAAAGGGG______A_CU_GAGCUUAUA
.................((((((.......(((((.......)))))(((((((((((......)))))))))))))))))............................... (-19.54 = -19.65 +   0.11)

alignment

secondary structure

dotplot

Window 1

Location	8,929,169 – 8,929,260
Length	91
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	66.74
Mean single sequence MFE	-19.42
Consensus MFE	-14.24
Energy contribution	-13.60
Covariance contribution	-0.64
Combinations/Pair	1.29
Mean z-score	-1.81
Structure conservation index	0.73
SVM decision value	2.19
SVM RNA-class probability	0.989958
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8929169 91 + 27905053
U-GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGCGAAAAAAGGGGGUGUUGAGCUAGAGCUUAUAUUCGAAAAUCCUUAAA--AAU
.-(((.(.(((((((((((......))))))))))))..))).....(((((..((.(((((....)))))....))....)))))...--... ( -25.10)
>DroSec_CAF1 50791 73 + 1
C--CUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGAAACAAAAGGGG-----------------AUAGUCGAAAAUCCUUAUA--GAU
.--(((..(((((((((((......))))))))))))))..........((((-----------------((........))))))...--... ( -18.70)
>DroSim_CAF1 52117 74 + 1
C-GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGAAACAAAAGGGG-----------------AUAGUCGAAAAUCCUUAAA--GAU
.-.(((..(((((((((((......))))))))))))))..........((((-----------------((........))))))...--... ( -18.60)
>DroEre_CAF1 57237 83 + 1
C-GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGACAGAAAAAAGGUGGUAUUAAACUGGAGCUU----------AUCCUUACAUUAAU
.-.(((..(((((((((((......)))))))))))....)))....((((.(((...........))).----------..))))........ ( -18.00)
>DroAna_CAF1 56342 77 + 1
CUUCUGGUCACAUAUGCUUGAGAUUAGGUAUAUGUGCAGUGAGAAAAUUAAGA----AGAGCUGUAGUUUCAA-----------UUAUA--UAU
(((((.(.((((((((((((....)))))))))))))(((......))).)))----))...((((((....)-----------)))))--... ( -16.70)
>consensus
C_GCUGGUCACAUGUGCUUGAGAUUGAGUAUGUGUGCAGAGAGAAAAAAGGGG______A_CU__AG_UUAUA_UCGAAAAUCCUUAAA__AAU
...(((..(((((((((((......))))))))))))))....................................................... (-14.24 = -13.60 +  -0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:28 2006