Locus 712

Sequence ID	2L_DroMel_CAF1
Location	2,072,843 – 2,072,934
Length	91
Max. P	0.964390

overview

Window 6

Location	2,072,843 – 2,072,934
Length	91
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	80.57
Mean single sequence MFE	-42.08
Consensus MFE	-31.41
Energy contribution	-32.50
Covariance contribution	1.09
Combinations/Pair	1.14
Mean z-score	-3.39
Structure conservation index	0.75
SVM decision value	1.57
SVM RNA-class probability	0.964390
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2072843 91 + 22407834
AAGGCAGGACUAAAACCAGGACCUGCAACCUGGCAGCUCCUGGCU-------CCUGCCAGCGCUGCAGGCCGGGAUUAGGUUCAGGGCGGGUCCUUGC--
...(((((.......))(((((((((..(((((((((..(((((.-------...))))).))))).((((.......))))))))))))))))))))-- ( -44.00)
>DroSec_CAF1 89857 91 + 1
AAGGCAGGACUAAAACCAGGACCUGCAACCUGGCAGCUCCUGGCU-------CCUGCCAGCGCUGCAGGCCGGGAUUAGGUUCAGGGCGGGUCCUUGC--
...(((((.......))(((((((((..(((((((((..(((((.-------...))))).))))).((((.......))))))))))))))))))))-- ( -44.00)
>DroSim_CAF1 89178 91 + 1
AAGGCAGGACUAAAACCAGGACCUGCAACCUGGCAGCUCCUGGCU-------CCUGCCAGCGCUGCAGGCCGGGAUUAGGUUCAGGGCGGGUCCUUGC--
...(((((.......))(((((((((..(((((((((..(((((.-------...))))).))))).((((.......))))))))))))))))))))-- ( -44.00)
>DroEre_CAF1 92255 98 + 1
AAGCCAGUGCUAAGAGCAGGACCUGCAACCUAUCAGCUCCUGGCUCCUUGCUCCUGCCAGAGCUGCAGGCCAGGAUUAGGUUCAGGGCGGGUCCUUGC--
.(((....)))....(((((((((((((((((.....((((((((....((((......))))....)))))))).))))))....)))))))).)))-- ( -44.20)
>DroYak_CAF1 93614 91 + 1
AAGGCAGGACUAAAACCAGGACCUGCAACCUGGCAGCUCCUGGCU-------GCUGCCAGAGCUGCAGGCCAGGAUUAGGUUCAGGGCAGGUCCUUGC--
...(((((.......))(((((((((..(((((((((((.((((.-------...))))))))))).((((.......))))))))))))))))))))-- ( -46.60)
>DroAna_CAF1 89066 80 + 1
---CCAGGAGCAUCGCCAGGACAUGCAACCUGGCAGCUCC--------------AACGAUUGCUGCAAGCUAAGAUUAGCUGCAU---AUGUCCUUCUCC
---...(((((...((((((........)))))).)))))--------------...(((...((((.((((....)))))))).---..)))....... ( -29.70)
>consensus
AAGGCAGGACUAAAACCAGGACCUGCAACCUGGCAGCUCCUGGCU_______CCUGCCAGCGCUGCAGGCCAGGAUUAGGUUCAGGGCGGGUCCUUGC__
......((.......))(((((((((..(((((((((..(((((...........))))).)))))..(((.......))).)))))))))))))..... (-31.41 = -32.50 +   1.09)

alignment

secondary structure

dotplot

Window 7

Location	2,072,843 – 2,072,934
Length	91
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	80.57
Mean single sequence MFE	-40.28
Consensus MFE	-27.48
Energy contribution	-27.93
Covariance contribution	0.45
Combinations/Pair	1.23
Mean z-score	-2.71
Structure conservation index	0.68
SVM decision value	1.30
SVM RNA-class probability	0.939208
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2072843 91 - 22407834
--GCAAGGACCCGCCCUGAACCUAAUCCCGGCCUGCAGCGCUGGCAGG-------AGCCAGGAGCUGCCAGGUUGCAGGUCCUGGUUUUAGUCCUGCCUU
--(((.((((.......(((((.......((((((((((.(((((((.-------.........)))))))))))))))))..)))))..)))))))... ( -40.70)
>DroSec_CAF1 89857 91 - 1
--GCAAGGACCCGCCCUGAACCUAAUCCCGGCCUGCAGCGCUGGCAGG-------AGCCAGGAGCUGCCAGGUUGCAGGUCCUGGUUUUAGUCCUGCCUU
--(((.((((.......(((((.......((((((((((.(((((((.-------.........)))))))))))))))))..)))))..)))))))... ( -40.70)
>DroSim_CAF1 89178 91 - 1
--GCAAGGACCCGCCCUGAACCUAAUCCCGGCCUGCAGCGCUGGCAGG-------AGCCAGGAGCUGCCAGGUUGCAGGUCCUGGUUUUAGUCCUGCCUU
--(((.((((.......(((((.......((((((((((.(((((((.-------.........)))))))))))))))))..)))))..)))))))... ( -40.70)
>DroEre_CAF1 92255 98 - 1
--GCAAGGACCCGCCCUGAACCUAAUCCUGGCCUGCAGCUCUGGCAGGAGCAAGGAGCCAGGAGCUGAUAGGUUGCAGGUCCUGCUCUUAGCACUGGCUU
--(((.(((((.((....((((((.(((((((((...(((((....)))))..)).))))))).....)))))))).))))))))....(((....))). ( -43.20)
>DroYak_CAF1 93614 91 - 1
--GCAAGGACCUGCCCUGAACCUAAUCCUGGCCUGCAGCUCUGGCAGC-------AGCCAGGAGCUGCCAGGUUGCAGGUCCUGGUUUUAGUCCUGCCUU
--(((.((((.......(((((.......((((((((((.((((((((-------........))))))))))))))))))..)))))..)))))))... ( -45.10)
>DroAna_CAF1 89066 80 - 1
GGAGAAGGACAU---AUGCAGCUAAUCUUAGCUUGCAGCAAUCGUU--------------GGAGCUGCCAGGUUGCAUGUCCUGGCGAUGCUCCUGG---
((((.(((((((---.((((((((....)))).))))((((((..(--------------((.....)))))))))))))))).......))))...--- ( -31.30)
>consensus
__GCAAGGACCCGCCCUGAACCUAAUCCCGGCCUGCAGCGCUGGCAGG_______AGCCAGGAGCUGCCAGGUUGCAGGUCCUGGUUUUAGUCCUGCCUU
.....((((((.((...............((((((((((.(((((...........)))))..)))).)))))))).))))))(((.........))).. (-27.48 = -27.93 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:36 2006