Locus 6188

Sequence ID	X_DroMel_CAF1
Location	15,776,703 – 15,776,943
Length	240
Max. P	0.994748

overview

Window 6

Location	15,776,703 – 15,776,823
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.67
Mean single sequence MFE	-46.48
Consensus MFE	-37.32
Energy contribution	-37.88
Covariance contribution	0.56
Combinations/Pair	1.08
Mean z-score	-1.54
Structure conservation index	0.80
SVM decision value	0.14
SVM RNA-class probability	0.600525
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15776703 120 - 22224390
CGCUGUGGUUGCAGCUGGAUCCUUAGCAGCCUCGAGACUCGCCUGCUGGAGUUUCUUGUAGUUUAUCGGUGCCUCAGAGCCGUAUAGACCGCGAAUCUGCAGUUGUUCGGCACAGCGAAG
(((((((.(.(((((((((..((((((((...((.....)).))))).)))..))(((..((((((((((........)))).))))))..))).....)))))))..).)))))))... ( -45.80)
>DroSec_CAF1 7297 120 - 1
CGCUGUGGUUGCAGCUGGAUCCUUAGCUGCCUCCAGACUAGCCUGCUGCAGUUUCUUGUAGUUUAUCGGUGCCUCAGAGCCGUAUAGACCGCGAAUCUGCAGUUGUUCGGCACAGCGAAG
((((((((..((((((((....))))))))..))......(((.(((((((....(((..((((((((((........)))).))))))..)))..))))))).....)))))))))... ( -52.50)
>DroSim_CAF1 5734 120 - 1
CGCUGUGGUUGCAGCUGGAUCCUUAGCUGCCUCCAGACUAGCCUGCUGCAGUUUCUUGUAGUUUAUCGGUGCCUCAGAGCCGUAUAGACCGCGAAUCUGCAGUUGUUCGGCACAGCGAAG
((((((((..((((((((....))))))))..))......(((.(((((((....(((..((((((((((........)))).))))))..)))..))))))).....)))))))))... ( -52.50)
>DroEre_CAF1 7316 120 - 1
GGGUGUGGAUGCAGCUGGAUCCUUGGCAGCCUCCAGACUCGCUUGCUGGAGUUUCUUGUAGUUUAUCGGUGCCUCGGAGCCGUAUAGCCCGCGAAUCUGCAGUUGUUCGGCACACCGAAG
((((.((((.((.((..(....)..)).)).)))).))))..((((.((.....)).))))....(((((((....).((((.(((((..(((....))).))))).)))).)))))).. ( -41.80)
>DroYak_CAF1 6963 120 - 1
CGGUGUGGAUGCAGCUGGAUCCUUGGCAGCCUCCAGACUCGCCUGCUGGAGUUUCUUGUAGUUUAUCGGUGCCUCGGAGCCGUAUAGCCCGCGAAUCUGCAGUUGUUCGGCACAGCGAAG
..((.((((.((.((..(....)..)).)).)))).))((((.(((((((.....((((((.....(((.((..((....))....))))).....))))))...)))))))..)))).. ( -39.80)
>consensus
CGCUGUGGUUGCAGCUGGAUCCUUAGCAGCCUCCAGACUCGCCUGCUGGAGUUUCUUGUAGUUUAUCGGUGCCUCAGAGCCGUAUAGACCGCGAAUCUGCAGUUGUUCGGCACAGCGAAG
(((((((...(((((((((..((((((((.(.........).)))))).))..))(((..((((((((((........)))).))))))..))).....)))))))....)))))))... (-37.32 = -37.88 +   0.56)

alignment

secondary structure

dotplot

Window 7

Location	15,776,823 – 15,776,943
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.91
Mean single sequence MFE	-44.86
Consensus MFE	-42.16
Energy contribution	-41.92
Covariance contribution	-0.24
Combinations/Pair	1.08
Mean z-score	-1.74
Structure conservation index	0.94
SVM decision value	2.51
SVM RNA-class probability	0.994748
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15776823 120 - 22224390
UGUGGGUUGCUGAUGGUUAACCGGUAGCGGUGGAGCGGAGGAGGUGGUCAUUGUUGUUGAGGUGGUUGAAUUAGUGGCUGCAUCGUCCGUUUCCGCGCUGUCCACAUGCUUGAAGCUUCG
((((((.(((((.(((....))).)))))((((((((((.((.(..(((((((...(..(.....)..)..)))))))..).)).)))).))))))....)))))).((.....)).... ( -45.50)
>DroSec_CAF1 7417 117 - 1
UGUGGGUUGCUGAUGGUUAACCGGUAGCGGUGGAGCGGAGGAGGUGGUCAUUG---UUGAGGUGGUUGAAUUAGUGGCUGCAUCGUCCGUCUCCGCGCUGUCCACAUGCUUAAAACUUCG
((((((.(((((.(((....))).)))))((((((((((.((.(..(((((((---((.((....)).)).)))))))..).)).)))).))))))....)))))).............. ( -45.80)
>DroSim_CAF1 5854 117 - 1
UGUGGGUUGCUGAUGGUUAACCGGUAGCGGUGGAGCGGAGGAGGUGGUCAUUG---UUGAGGUGGUUGAAUUAGUGGCUGCAUCGUCCGUCUCCGCGCUGUCCACAUGCUUGAAACUUCG
((((((.(((((.(((....))).)))))((((((((((.((.(..(((((((---((.((....)).)).)))))))..).)).)))).))))))....)))))).............. ( -45.80)
>DroEre_CAF1 7436 117 - 1
UGUGGGGUGCUGCUGGUUAGCCGCUAGCGGUGGAGCGGAUGAGGUGGUUAUCG---UUGAGGUGGUAGAAUUAGUGGCUGCAUCGUCCGUCUCCGUGCUGUCCACAUGCUUGAAGCUUCG
((((((..(((((((((.....)))))))))(((((((((((.(..(((((..---.................)))))..).))))))).))))......)))))).((.....)).... ( -44.01)
>DroYak_CAF1 7083 117 - 1
UGUGGGUUGCUGCUGGUUAACCGCUAGCGGUGGAGCGGAGGAGGUGGUUAUCG---UUGAGGUGGUUGAAUUAGUGGCUGCAUCGUCCGUCUCCGUGCUGUCCACAUGCUUGAAGCUUCG
((((((..(((((((((.....)))))))))((((((((.((.(..(((((..---(..(.....)..)....)))))..).)).)))).))))......)))))).((.....)).... ( -43.20)
>consensus
UGUGGGUUGCUGAUGGUUAACCGGUAGCGGUGGAGCGGAGGAGGUGGUCAUUG___UUGAGGUGGUUGAAUUAGUGGCUGCAUCGUCCGUCUCCGCGCUGUCCACAUGCUUGAAGCUUCG
((((((.(((((.(((....))).)))))((((((((((.((.(..(((((((...(..(.....)..)..)))))))..).)).)))).))))))....)))))).............. (-42.16 = -41.92 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:50 2006