Locus 5221

Sequence ID	X_DroMel_CAF1
Location	13,628,157 – 13,628,383
Length	226
Max. P	0.996645

overview

Window 5

Location	13,628,157 – 13,628,276
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.72
Mean single sequence MFE	-23.20
Consensus MFE	-20.21
Energy contribution	-20.69
Covariance contribution	0.48
Combinations/Pair	1.07
Mean z-score	-2.22
Structure conservation index	0.87
SVM decision value	2.73
SVM RNA-class probability	0.996645
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13628157 119 - 22224390
UUUCCCCUCGUCGACGUUUAUGAAUAACUUUAUAAAACCAGACCGCACACUCUGAUUGCGGUUUCCACUUCCUUUUCUGCCAUAUUAUAUAGUUUCAGCAUUCGCGUGACGCACUCCCU-
........((((.((((..(((...((((.(((((....((((((((.........)))))))).......(......).....))))).))))....)))..))))))))........- ( -23.20)
>DroSec_CAF1 21797 119 - 1
UUUCCCCUCGUCACCGUUUAUGAAUAACUUUAUAAAACCAGACCGCACACUCUGAUUGUGGUUUCCACUUCCUUUUCUGCCAUAUUUUAUAGUUUAAGCAUUCGCGUGACGCACACCCU-
........((((((((...(((..(((..((((((((.((((........))))..((((((................)))))))))))))).)))..))).)).))))))........- ( -23.29)
>DroSim_CAF1 15043 119 - 1
UUUCCCCUCGUCACCGUUUAUGAAUAACUUUAUAAAACCAGACCGCACACUCUGAUUGUGGUUUCCACUUCCUUUUCUGCCAUAUUAUAUAGUUUCAGCAUUCGCGUGACGCACUCCCU-
........((((((((...(((...((((.(((((...((((........))))..((((((................))))))))))).))))....))).)).))))))........- ( -24.59)
>DroEre_CAF1 13179 120 - 1
UUUCCCCUCGCCAUCGUUUAUGAAUAACUUUAUAAACCCAGACCGCACACUCUGAUUGUGGUUUCCACUUCCGUUUCUGCCAUAUUAUAUAGUUUCAGCAUUCGCGUGACGCAUUCCCUC
.........((...(((..(((...((((.(((((...((((........))))..((((((....((....))....))))))))))).))))....)))..)))....))........ ( -20.50)
>DroYak_CAF1 12490 118 - 1
-UUCCCCUCGUCACCGUUUAUGAAUAACUUUAUAAACCCUGGCCGCACACUCUGAUUGUGGUUUCCACUUCCGUUUCUGCCAUAUUAUAUAGUUUCAGCAUUCGCGUGACGCACUCCCU-
-.......((((((((...(((...((((.(((((....((((.(...((...((..((((...)))).)).))..).))))..))))).))))....))).)).))))))........- ( -24.40)
>consensus
UUUCCCCUCGUCACCGUUUAUGAAUAACUUUAUAAAACCAGACCGCACACUCUGAUUGUGGUUUCCACUUCCUUUUCUGCCAUAUUAUAUAGUUUCAGCAUUCGCGUGACGCACUCCCU_
........(((((.(((..(((...((((.(((((...((((........))))..((((((................))))))))))).))))....)))..))))))))......... (-20.21 = -20.69 +   0.48)

alignment

secondary structure

dotplot

Window 6

Location	13,628,276 – 13,628,383
Length	107
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.95
Mean single sequence MFE	-22.28
Consensus MFE	-14.44
Energy contribution	-14.28
Covariance contribution	-0.16
Combinations/Pair	1.06
Mean z-score	-1.81
Structure conservation index	0.65
SVM decision value	0.44
SVM RNA-class probability	0.737886
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13628276 107 - 22224390
CCACGGAAACUGCAGUUUGCCCUCU-GGGGUUUAAUUGCACUGC---ACCCGCUUCCGUCCAUUUUGCAUUUUACUCUUUACCAUCU---------ACCUACCAUCUAUUCAGCGCCUCU
..((((((..(((((((.((((...-.))))..)))))))..((---....))))))))............................---------........................ ( -20.60)
>DroSec_CAF1 21916 106 - 1
CCACGGAAACUGCAGUUUGCCCUGC-GGGGGUUAAUUGCACUGC---CCCCGCUUCCGCCCAUUUUGCAUUUUACUCUUUACCUCCU---------AACUACCAUCUAUGCAGCGCC-CU
....((...(((((.........((-((((((..........))---))))))....((.......))...................---------............)))))..))-.. ( -26.20)
>DroSim_CAF1 15162 115 - 1
CCACGGAAACUGCAGUUUGCCCUCC-GGGGGUUAAUUGCACUGC---CCCCGCUUCCGCCCAUUUUGCAUUUUACUCUUUACCUCCCUUUACCUCCUCCUACCAUCUAUGCAGCGCC-CU
....((...(((((..........(-((((((..........))---))))).....((.......))........................................)))))..))-.. ( -22.30)
>DroEre_CAF1 13299 100 - 1
CCGCGGAAACUGCAGUUUGACCUCC-GGGGGUUAAUUGCACUGC--CUCCCGUUUCCGUCCAUUUUGCAUUUUACUCUUUACCUUCU---------ACCAUCCAGU-------CGCC-CU
..((((((((.((((((((((((..-..)))))))....)))))--.....))))))))............................---------..........-------....-.. ( -22.60)
>DroYak_CAF1 12608 97 - 1
CCACGGAAACUGCAGUUCGGCCUCCAGGGGGUUAAUUGCACCGCACCCCCCGCUUCCGUUCAUUUUGCAUUUUACUCUUUACCCUCU---------ACCAACCAGC--------------
..((((((..(((((((.(((((.....))))))))))))..((.......))))))))............................---------..........-------------- ( -19.70)
>consensus
CCACGGAAACUGCAGUUUGCCCUCC_GGGGGUUAAUUGCACUGC___CCCCGCUUCCGUCCAUUUUGCAUUUUACUCUUUACCUUCU_________ACCUACCAUCUAU_CAGCGCC_CU
...(((((..(((((((...(((....)))...)))))))..((.......))))))).............................................................. (-14.44 = -14.28 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:40 2006