Locus 4192

Sequence ID	2L_DroMel_CAF1
Location	12,006,503 – 12,006,654
Length	151
Max. P	0.973895

overview

Window 7

Location	12,006,503 – 12,006,616
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	94.15
Mean single sequence MFE	-39.23
Consensus MFE	-35.14
Energy contribution	-35.06
Covariance contribution	-0.08
Combinations/Pair	1.17
Mean z-score	-1.66
Structure conservation index	0.90
SVM decision value	1.72
SVM RNA-class probability	0.973895
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12006503 113 - 22407834
GCAGGGUACUGCGGGAGCGAGACCCCUGCUGACACAUAGCCGUCGUCCCGCUCUGGCACAUUCUCAUUCUCGUUCUCGUUGGCCUCGCCCGCUAACAUUAACCUUCGGCUGGU
((.((((..(((.((((((.(((..(.((((.....)))).)..))).)))))).)))...................((((((.......))))))....))))...)).... ( -35.70)
>DroSec_CAF1 7226 113 - 1
GCAGGUCACUGCGGGAGCGAGACCCCUGCUGACACAUAGCCGCCAUCCCGCUCUGGCACAUUCUCAUUCUCGUUCUCACUGGCCUCGCCCGCUAACAUUAACCUUCGGCUGGU
((((....))))((((((((((.....((((.....)))).((((........))))..........))))))))))((..(((......................)))..)) ( -36.05)
>DroSim_CAF1 6439 113 - 1
GCAGGGCACUGCGGGAGCGAGACCCCUGCUGACACAUAGCCGCCAUCCCGCUCUGGCACAUUCUCAUUCUCGUUCUCGCUGGCCUCGCCCGCUAACAUUAACCUUCGGCUGGU
((..(((...((((((((((((.....((((.....)))).((((........))))..........))))))))))))..)))..))(((((.............))).)). ( -40.12)
>DroEre_CAF1 6482 109 - 1
GCAGGGCAUUGCGUGAGCGAGACCCCUGCUGACA--CAGCCGCCAUCCCGCUCUGGC--AUUCUCAUUCUCGUUCUCGCUGGCCUCGCCCGCUAGCAUUAACCUUCGGCUGGU
((((((..((((....))))...)))))).....--(((((((((........))))--..................((((((.......))))))..........))))).. ( -43.80)
>DroYak_CAF1 6580 111 - 1
GCAGGGCAUUGCGUGAGCGAGACCCCUGCUGACACACAGCCGCCAUCCCGCUCUGGC--AUUCUCAUUCUCGUUCUCGCUGGCCUCGCCCGCUAACAUUAACCUUCGGCUGGU
((((((..((((....))))...)))))).......(((((((((........))))--............(((...((.(((...))).)).)))..........))))).. ( -40.50)
>consensus
GCAGGGCACUGCGGGAGCGAGACCCCUGCUGACACAUAGCCGCCAUCCCGCUCUGGCACAUUCUCAUUCUCGUUCUCGCUGGCCUCGCCCGCUAACAUUAACCUUCGGCUGGU
((..(((...((((((((((((.....((((.....)))).((((........))))..........))))))))))))..)))..))(((((.............))).)). (-35.14 = -35.06 +  -0.08)

alignment

secondary structure

dotplot

Window 8

Location	12,006,536 – 12,006,654
Length	118
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	86.61
Mean single sequence MFE	-33.10
Consensus MFE	-27.46
Energy contribution	-27.26
Covariance contribution	-0.20
Combinations/Pair	1.29
Mean z-score	-1.94
Structure conservation index	0.83
SVM decision value	1.14
SVM RNA-class probability	0.921078
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12006536 118 - 22407834
CC-UUCCUUAAUACCGUUUAAGCCAAUAUGCUCGAAAGUGCAGGGUACUGCGGGAGCGAGACCCCUGCUGACACAUAGCCGUCGUCCCGCUCUGGCACAUUCUCAUUCUCGUUCUCGUU
..-...(((((......)))))......(((.(....).)))(((...(((.((((((.(((..(.((((.....)))).)..))).)))))).)))....)))............... ( -33.60)
>DroSec_CAF1 7259 119 - 1
CCAUUCCCUCAUACCGUUAAAACCAAUAUGCCGGCAAGCGCAGGUCACUGCGGGAGCGAGACCCCUGCUGACACAUAGCCGCCAUCCCGCUCUGGCACAUUCUCAUUCUCGUUCUCACU
.....((..((((..((....))...))))..)).....((((....))))((((((((((.....((((.....)))).((((........))))..........))))))))))... ( -30.20)
>DroSim_CAF1 6472 118 - 1
UC-UUCCUUAAUACCGUUUAAACCAAUAUGCCCGAGAGUGCAGGGCACUGCGGGAGCGAGACCCCUGCUGACACAUAGCCGCCAUCCCGCUCUGGCACAUUCUCAUUCUCGUUCUCGCU
..-.........................(((((.........)))))..((((((((((((.....((((.....)))).((((........))))..........)))))))))))). ( -36.20)
>DroEre_CAF1 6515 111 - 1
---UCCCUUAAUAUCGUUAUA-CUAAUACGCCUCAAAUUGCAGGGCAUUGCGUGAGCGAGACCCCUGCUGACA--CAGCCGCCAUCCCGCUCUGGC--AUUCUCAUUCUCGUUCUCGCU
---..................-.......((((.........))))...(((.((((((((.....((((...--)))).((((........))))--........)))))))).))). ( -30.50)
>DroYak_CAF1 6613 114 - 1
---UUCCUUAAUACCGUUAAAGCCAAUAUGCCUCCAAGUGCAGGGCAUUGCGUGAGCGAGACCCCUGCUGACACACAGCCGCCAUCCCGCUCUGGC--AUUCUCAUUCUCGUUCUCGCU
---..................(((....((((.....).))).)))...(((.((((((((.....((((.....)))).((((........))))--........)))))))).))). ( -35.00)
>consensus
_C_UUCCUUAAUACCGUUAAAACCAAUAUGCCCGAAAGUGCAGGGCACUGCGGGAGCGAGACCCCUGCUGACACAUAGCCGCCAUCCCGCUCUGGCACAUUCUCAUUCUCGUUCUCGCU
.............................((((.........))))...((((((((((((.....((((.....)))).((((........))))..........)))))))))))). (-27.46 = -27.26 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:05 2006