Locus 735

Sequence ID	X_DroMel_CAF1
Location	1,996,776 – 1,996,933
Length	157
Max. P	0.972865

overview

Window 0

Location	1,996,776 – 1,996,893
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.41
Mean single sequence MFE	-30.64
Consensus MFE	-25.39
Energy contribution	-25.27
Covariance contribution	-0.12
Combinations/Pair	1.09
Mean z-score	-2.02
Structure conservation index	0.83
SVM decision value	1.70
SVM RNA-class probability	0.972865
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1996776 117 - 22224390
UCUUCUCCGCAGGCGGCACAAUGGUGCUAUCUCUUUUGCACCCCAUAAA-AAACCUUUUCCGGUGGUGCGCCCAUUU--UUUAUUCGCUUCGAUCUUCCGUCGGCAUUUUGUACUGCCAA
...........(((((.((((.(((((..........(((((((..(((-(....))))..)).)))))........--...........((((.....))))))))))))).))))).. ( -30.10)
>DroSec_CAF1 28793 118 - 1
UCUUCUCCGCAGGCGGCACAAUGGUGCUAUCUCUGUUGCACCCCAUAAAAAAACCUUUUCCGGUGGUGCGCCCAUUU--UUUAUUCGCUUCGAUCUUCCGUCGGCAUUUUAAACUGCCAA
.......((.(((((((((....))))..........(((((((..((((.....))))..)).)))))........--......)))))))..........((((........)))).. ( -28.90)
>DroSim_CAF1 23002 118 - 1
UCUUCUCCGCAGGCGGCACAAUGGUGCUAUCUCUGUUGCACCCCAUAAAAAAACCUUUUCCGGUGGUGCGCCCAUUU--UUUAUUCGCUUCGAUCUUCCGUCGGCAUUUUAAACUGCCAA
.......((.(((((((((....))))..........(((((((..((((.....))))..)).)))))........--......)))))))..........((((........)))).. ( -28.90)
>DroEre_CAF1 18573 119 - 1
UCUCCCUCGCAGGCGGCACCAUGGUGCUAUCUUUGUUGCACCCCAUAAA-AAACCUCUUUCGGUGGUGUGCCCAUUUUUUUUAUUCGUUUCGAUCUUCCGUCGGCAUUUUGUGCUGCCAA
...........((((((((...(((((..........((((.((((..(-((.....)))..)))).))))...................((((.....)))))))))..)))))))).. ( -33.80)
>DroYak_CAF1 29323 117 - 1
UCUCUCCC-CAGGCGGCACAAUGGUGCUGUCUCUGUUGCACUCCAUAAAAAAACCUCUUUCGGUGAUGCGCCCAUUU--UUUAUUCGUUUCGAUCUUCCGUCGGCAUUUUGUGCUGCCAA
........-..((((((((((.(((((.(((.(((.........................))).)))))))).....--..........(((((.....)))))....)))))))))).. ( -31.51)
>consensus
UCUUCUCCGCAGGCGGCACAAUGGUGCUAUCUCUGUUGCACCCCAUAAAAAAACCUUUUCCGGUGGUGCGCCCAUUU__UUUAUUCGCUUCGAUCUUCCGUCGGCAUUUUGUACUGCCAA
...........((((((((....))))).........(((((((.................)).))))))))...................(((.....)))((((........)))).. (-25.39 = -25.27 +  -0.12)

alignment

secondary structure

dotplot

Window 1

Location	1,996,816 – 1,996,933
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.30
Mean single sequence MFE	-24.49
Consensus MFE	-20.46
Energy contribution	-20.58
Covariance contribution	0.12
Combinations/Pair	1.14
Mean z-score	-1.45
Structure conservation index	0.84
SVM decision value	0.32
SVM RNA-class probability	0.686275
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1996816 117 - 22224390
CCCACUGAACCACUAAACAUUUAGCUUGUCUCUGUCCUAUUCUUCUCCGCAGGCGGCACAAUGGUGCUAUCUCUUUUGCACCCCAUAAA-AAACCUUUUCCGGUGGUGCGCCCAUUU--U
..((..((....((((....))))....))..)).................((((((((....))))).........(((((((..(((-(....))))..)).)))))))).....--. ( -23.80)
>DroSec_CAF1 28833 118 - 1
CCCACUGAACCACUAAACAUUCAGCUUGCCUCUGUCCUUUUCUUCUCCGCAGGCGGCACAAUGGUGCUAUCUCUGUUGCACCCCAUAAAAAAACCUUUUCCGGUGGUGCGCCCAUUU--U
...............((((....((((((...................))))))(((((....))))).....))))(((((((..((((.....))))..)).)))))........--. ( -25.61)
>DroSim_CAF1 23042 118 - 1
CCCACUGAACCACUAAACAUUCAGCUUGCCUUUGUCCUUUUCUUCUCCGCAGGCGGCACAAUGGUGCUAUCUCUGUUGCACCCCAUAAAAAAACCUUUUCCGGUGGUGCGCCCAUUU--U
...............((((....((((((...................))))))(((((....))))).....))))(((((((..((((.....))))..)).)))))........--. ( -25.61)
>DroEre_CAF1 18613 119 - 1
CCCACUGAACCACUAAACAGCCAGCUUGUCUCUAUCCCUUUCUCCCUCGCAGGCGGCACCAUGGUGCUAUCUUUGUUGCACCCCAUAAA-AAACCUCUUUCGGUGGUGUGCCCAUUUUUU
.((((((((..........(((.((((((...................))))))))).....(((((..........))))).......-........)))))))).............. ( -29.01)
>DroYak_CAF1 29363 117 - 1
CCCACACAACCACUAAACACCCAGCUUGUCUCUGUCCCUUUCUCUCCC-CAGGCGGCACAAUGGUGCUGUCUCUGUUGCACUCCAUAAAAAAACCUCUUUCGGUGAUGCGCCCAUUU--U
.................(((((((.......)))..............-.(((((((((....))))))))).............................))))............--. ( -18.40)
>consensus
CCCACUGAACCACUAAACAUUCAGCUUGUCUCUGUCCUUUUCUUCUCCGCAGGCGGCACAAUGGUGCUAUCUCUGUUGCACCCCAUAAAAAAACCUUUUCCGGUGGUGCGCCCAUUU__U
...............((((....((((((...................))))))(((((....))))).....))))(((((((.................)).)))))........... (-20.46 = -20.58 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:52:31 2006