Locus 4847

Sequence ID	3L_DroMel_CAF1
Location	13,587,983 – 13,588,128
Length	145
Max. P	0.997866

overview

Window 7

Location	13,587,983 – 13,588,088
Length	105
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	81.31
Mean single sequence MFE	-34.50
Consensus MFE	-27.64
Energy contribution	-29.20
Covariance contribution	1.56
Combinations/Pair	1.04
Mean z-score	-2.95
Structure conservation index	0.80
SVM decision value	2.95
SVM RNA-class probability	0.997866
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13587983 105 - 23771897
GAGUUAUUAACACGCCUUGCCACAUUUGCUGCCGAGCUAAUGUGGCUUGGUUUAGUGGCUGCCCCCGGCCACUGCACCACCCACAA---------------GCCACCCACAAAAGCCACC
.............((...((((((((.(((....))).)))))))).((((.(((((((((....))))))))).)))).......---------------))................. ( -35.50)
>DroSim_CAF1 3778 105 - 1
GAGUUAUUAACACGCCUUGCCACAUUUGCUGCCGAGCUAAUGUGGCUUGGUUUAGUGGCUGCCCCCGGCCACUGCACCACCCACAA---------------GCCACCCACAAAAGCCACC
.............((...((((((((.(((....))).)))))))).((((.(((((((((....))))))))).)))).......---------------))................. ( -35.50)
>DroYak_CAF1 738 120 - 1
GAGUUAUUAACACGCCUUGCCACAUUUGCUGCCGAGCUAAUGUGGCUUGGUUUAGUGGCUGCCCCCGACCACUGCACCACCCACAAAAGCCACCCACAAAAACCACCCACAAGAGCCACC
.............(((((((((((((.(((....))).)))))))).((((.((((((.((....)).)))))).))))...............................))).)).... ( -30.90)
>DroAna_CAF1 31008 108 - 1
GAGUUAUUAACACGCUUUGCCACAUUUGCUGCCAAGCUAAUGUGGCCAGGUUUAGUGGCUGCCUCC-----UUGCCCCAGCCACCC-AGCCACCCAGCU-UGCCACC-----GAGCCACC
..................((((((((.(((....))).))))))))..((((..(((((((.....-----......)))))))..-)))).....(((-((....)-----)))).... ( -36.10)
>consensus
GAGUUAUUAACACGCCUUGCCACAUUUGCUGCCGAGCUAAUGUGGCUUGGUUUAGUGGCUGCCCCCGGCCACUGCACCACCCACAA_______________GCCACCCACAAAAGCCACC
.............((...((((((((.(((....))).))))))))..(((.(((((((((....))))))))).)))....................................)).... (-27.64 = -29.20 +   1.56)

alignment

secondary structure

dotplot

Window 8

Location	13,588,008 – 13,588,128
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	83.61
Mean single sequence MFE	-43.20
Consensus MFE	-34.35
Energy contribution	-34.47
Covariance contribution	0.13
Combinations/Pair	1.13
Mean z-score	-2.34
Structure conservation index	0.80
SVM decision value	1.60
SVM RNA-class probability	0.966898
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13588008 120 - 23771897
GCUGAGCUCAGUUCUCCGGAGUGCACUCGUAGCACACAGUGAGUUAUUAACACGCCUUGCCACAUUUGCUGCCGAGCUAAUGUGGCUUGGUUUAGUGGCUGCCCCCGGCCACUGCACCAC
((((....)))).....((.((((.......)))).((((((((((((((...(((..((((((((.(((....))).))))))))..))))))))))))(((...))))))))..)).. ( -45.80)
>DroSim_CAF1 3803 120 - 1
ACGGGGCUCAGUUCUCCGGAGUGCACUCGUAGCACACAGUGAGUUAUUAACACGCCUUGCCACAUUUGCUGCCGAGCUAAUGUGGCUUGGUUUAGUGGCUGCCCCCGGCCACUGCACCAC
..(((((.............((((.......))))...(((.........))))))))((((((((.(((....))).)))))))).((((.(((((((((....))))))))).)))). ( -47.40)
>DroYak_CAF1 778 120 - 1
ACAGAGCUCAGCUCUCCGGAGUGCACUCGUAGCACACAGUGAGUUAUUAACACGCCUUGCCACAUUUGCUGCCGAGCUAAUGUGGCUUGGUUUAGUGGCUGCCCCCGACCACUGCACCAC
..(((((...)))))..((.((((.......)))).((((((((((((((...(((..((((((((.(((....))).))))))))..)))))))))))).........)))))..)).. ( -42.70)
>DroAna_CAF1 31041 97 - 1
CCGGUGC-----UUGCCGGAG-------------CACAGUGAGUUAUUAACACGCUUUGCCACAUUUGCUGCCAAGCUAAUGUGGCCAGGUUUAGUGGCUGCCUCC-----UUGCCCCAG
(((((..-----..))))).(-------------((.((..(((((((((...((((.((((((((.(((....))).)))))))).)))))))))))))..))..-----.)))..... ( -36.90)
>consensus
ACGGAGCUCAGUUCUCCGGAGUGCACUCGUAGCACACAGUGAGUUAUUAACACGCCUUGCCACAUUUGCUGCCGAGCUAAUGUGGCUUGGUUUAGUGGCUGCCCCCGGCCACUGCACCAC
..((((.......))))((.((((.......)))).((((((((((((((...(((..((((((((.(((....))).))))))))..)))))))))))).........)))))..)).. (-34.35 = -34.47 +   0.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:05 2006