Locus 1671

Sequence ID	2R_DroMel_CAF1
Location	6,332,220 – 6,332,344
Length	124
Max. P	0.895632

overview

Window 9

Location	6,332,220 – 6,332,314
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	92.13
Mean single sequence MFE	-37.30
Consensus MFE	-29.56
Energy contribution	-30.76
Covariance contribution	1.20
Combinations/Pair	1.14
Mean z-score	-1.93
Structure conservation index	0.79
SVM decision value	0.99
SVM RNA-class probability	0.895632
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6332220 94 + 20766785
GGCACAAUGGCCUGAAAGGUGGGGGACUGCAGAGGCCUAUAGGCUACCGCAUCCACGUAGUCCACUUGUCUUGGUGGAGCAUUUGGAUGUGGAA
(((.....(((((.....(..(....)..)..))))).....))).(((((((((.((..((((((......))))))..)).))))))))).. ( -42.90)
>DroSec_CAF1 2233 94 + 1
GGCACAAUGGCCUGAAAGGUGGGGGACUGCAGAGGCCUGUAGGCUACCGCAUCCACAUAGUCCCCUUGUCUCGGUGGAGCAUUUGGAUGUGGAA
(((.....(((((.....(..(....)..)..))))).....))).(((((((((.((..(((((.......)).)))..)).))))))))).. ( -39.10)
>DroSim_CAF1 2251 94 + 1
GGCACAAUGGCCUGAAAGGUGGGGGACUGCAGAGGCCUGUAGGCUACCGCAUCCACGUAGUCCCCUUGUCUCGGUGGAGCAUUUGGAUGUGGAA
(((.....(((((.....(..(....)..)..))))).....))).(((((((((.((..(((((.......)).)))..)).))))))))).. ( -39.40)
>DroEre_CAF1 2269 94 + 1
GGCACAAUGGCGUGAAAGGUGGGGGACUGUAGUGGCCUGUAGGCUGCGGCAUCCACGUAGUCCCCUGGUCUCGGAGGAGCAUUUGGUUGUGAAA
..((((((.(.(((......(((((((((..(..(((....)))..)((...))...)))))))))...(((....)))))).).))))))... ( -34.40)
>DroYak_CAF1 2283 94 + 1
GGCACAAUGGCCUGAAAGGUGGGGGACUGAAGCGGCCUGUAGGUUACCGCAUCCACGUAGUCCCCUUGUCUCGGAGGAGCGUUUGGUUGUGGUA
..((((((.(((.....)))((((((((((.((((((....))...)))).)).....)))))))).(.(((....)))).....))))))... ( -30.70)
>consensus
GGCACAAUGGCCUGAAAGGUGGGGGACUGCAGAGGCCUGUAGGCUACCGCAUCCACGUAGUCCCCUUGUCUCGGUGGAGCAUUUGGAUGUGGAA
(((.....(((((.....((((....))))..))))).....))).(((((((((.((..(((((.......)).)))..)).))))))))).. (-29.56 = -30.76 +   1.20)

alignment

secondary structure

dotplot

Window 0

Location	6,332,254 – 6,332,344
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	92.89
Mean single sequence MFE	-28.30
Consensus MFE	-22.10
Energy contribution	-22.86
Covariance contribution	0.76
Combinations/Pair	1.14
Mean z-score	-1.49
Structure conservation index	0.78
SVM decision value	-0.03
SVM RNA-class probability	0.520354
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6332254 90 + 20766785
GCCUAUAGGCUACCGCAUCCACGUAGUCCACUUGUCUUGGUGGAGCAUUUGGAUGUGGAAUCCUUCCCACGUAAAGAUCUUCACUGCGAU
(((....)))..(((((((((.((..((((((......))))))..)).)))))))))...........((((..(.....)..)))).. ( -31.00)
>DroSec_CAF1 2267 90 + 1
GCCUGUAGGCUACCGCAUCCACAUAGUCCCCUUGUCUCGGUGGAGCAUUUGGAUGUGGAAUCCUUCCCACGUAUAGAUCUUCACUGCGAU
(((....))).......................(((.((((((((.(((((.((((((........)))))).))))))))))))).))) ( -27.40)
>DroSim_CAF1 2285 90 + 1
GCCUGUAGGCUACCGCAUCCACGUAGUCCCCUUGUCUCGGUGGAGCAUUUGGAUGUGGAAUCCUUCCCACGUAUAGAUCUUCACUGCGAU
....(..((((((.........))))))..)..(((.((((((((.(((((.((((((........)))))).))))))))))))).))) ( -28.70)
>DroEre_CAF1 2303 90 + 1
GCCUGUAGGCUGCGGCAUCCACGUAGUCCCCUGGUCUCGGAGGAGCAUUUGGUUGUGAAAUCCUUCCCACGUAUAGAUCUUCACUGCGAU
(((.(..(((((((.......)))))))..).))).(((.(((((.(((((..((((..........))))..))))).))).)).))). ( -24.90)
>DroYak_CAF1 2317 90 + 1
GCCUGUAGGUUACCGCAUCCACGUAGUCCCCUUGUCUCGGAGGAGCGUUUGGUUGUGGUAUCCUACCCACGUAUAGAUCUUCACUGCGAU
....(((((.(((((((.((((((..(((((.......)).)))))))..)).))))))).)))))...((((..(.....)..)))).. ( -29.50)
>consensus
GCCUGUAGGCUACCGCAUCCACGUAGUCCCCUUGUCUCGGUGGAGCAUUUGGAUGUGGAAUCCUUCCCACGUAUAGAUCUUCACUGCGAU
.......((((((.........)))))).....(((.((((((((.(((((.((((((........)))))).))))))))))))).))) (-22.10 = -22.86 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:10:17 2006