Locus 5744

Sequence ID	X_DroMel_CAF1
Location	14,879,995 – 14,880,141
Length	146
Max. P	0.875517

overview

Window 7

Location	14,879,995 – 14,880,101
Length	106
Sequences	3
Columns	110
Reading direction	forward
Mean pairwise identity	83.96
Mean single sequence MFE	-24.57
Consensus MFE	-15.52
Energy contribution	-16.30
Covariance contribution	0.78
Combinations/Pair	1.05
Mean z-score	-2.34
Structure conservation index	0.63
SVM decision value	0.30
SVM RNA-class probability	0.677805
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14879995 106 + 22224390
UUUUGCA-CUGCAU---UGUACAGUCGAUGAAAUGUGCUACUUAUGAUUGGCACAAGUGAUUGUGGCCAAAAUAACGAUAGUGGCGUUAACAAUAUGCCAAAAUACAUGU
....(((-(..(((---((......)))))....))))....((((.(((((((((....)))).)))))...........((((((.......)))))).....)))). ( -29.00)
>DroSec_CAF1 26310 98 + 1
AU--GCAAUUGCAUAAAUGCA-AGUCCAUGAAAUGUGCUAACUAUUAUUGGCACAUGUGAUUGUGGCCAAAAUAACGAU---------AACGAUAUGCCAAAAUACAUGU
..--....(((((....))))-)...((((..(((((((((......)))))))))...(((.((((....(((.((..---------..)).))))))).))).)))). ( -21.90)
>DroSim_CAF1 17715 98 + 1
AU--GCAAUUGCAUAAAUGCA-AGUCCAUGAAAUGUGCUAAUUAUCAUUGGCACAUGUGAUUGUGGCCAAAAUAACGAU---------AACGAUAUGCCAAAAUACAUGU
..--....(((((....))))-)...((((..((((((((((....))))))))))...(((.((((....(((.((..---------..)).))))))).))).)))). ( -22.80)
>consensus
AU__GCAAUUGCAUAAAUGCA_AGUCCAUGAAAUGUGCUAAUUAUCAUUGGCACAUGUGAUUGUGGCCAAAAUAACGAU_________AACGAUAUGCCAAAAUACAUGU
....(((..((((....))))..(.(((..(.(((((((((......)))))))))....)..))).)...........................)))............ (-15.52 = -16.30 +   0.78)

alignment

secondary structure

dotplot

Window 8

Location	14,880,021 – 14,880,141
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	85.71
Mean single sequence MFE	-24.77
Consensus MFE	-18.63
Energy contribution	-19.13
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.22
Structure conservation index	0.75
SVM decision value	0.49
SVM RNA-class probability	0.754787
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14880021 120 + 22224390
AAAUGUGCUACUUAUGAUUGGCACAAGUGAUUGUGGCCAAAAUAACGAUAGUGGCGUUAACAAUAUGCCAAAAUACAUGUAGCAUACACACGUGUACAUACAUUCAAUUUGAAAGCAUUG
.((((((((((..(((.(((((((((....)))).)))))...........((((((.......)))))).....)))))))).((((....))))..................))))). ( -30.20)
>DroSec_CAF1 26337 103 + 1
AAAUGUGCUAACUAUUAUUGGCACAUGUGAUUGUGGCCAAAAUAACGAU---------AACGAUAUGCCAAAAUACAUGUAGCA--------UGUACAUACAUUCAUUUUGAAAGCAUUG
..(((((((((......)))))))))((((.((((((....(((.((..---------..)).))))))....((((((...))--------))))...))).))))............. ( -21.60)
>DroSim_CAF1 17742 102 + 1
AAAUGUGCUAAUUAUCAUUGGCACAUGUGAUUGUGGCCAAAAUAACGAU---------AACGAUAUGCCAAAAUACAUGUAGCA--------UGUACAUACAUUCAUUUUGAAAGCAUU-
..((((((((((....))))))))))((((.((((((....(((.((..---------..)).))))))....((((((...))--------))))...))).))))............- ( -22.50)
>consensus
AAAUGUGCUAAUUAUCAUUGGCACAUGUGAUUGUGGCCAAAAUAACGAU_________AACGAUAUGCCAAAAUACAUGUAGCA________UGUACAUACAUUCAUUUUGAAAGCAUUG
....(((((........((((((((......))).)))))............................((((((..(((((((((......))))...)))))..))))))..))))).. (-18.63 = -19.13 +   0.50)

alignment

secondary structure

dotplot

Window 9

Location	14,880,021 – 14,880,141
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	85.71
Mean single sequence MFE	-26.07
Consensus MFE	-19.23
Energy contribution	-19.57
Covariance contribution	0.34
Combinations/Pair	1.06
Mean z-score	-2.63
Structure conservation index	0.74
SVM decision value	0.89
SVM RNA-class probability	0.875517
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14880021 120 - 22224390
CAAUGCUUUCAAAUUGAAUGUAUGUACACGUGUGUAUGCUACAUGUAUUUUGGCAUAUUGUUAACGCCACUAUCGUUAUUUUGGCCACAAUCACUUGUGCCAAUCAUAAGUAGCACAUUU
..((((.(((.....))).))))(((((....)))))(((((.(((...((((((((.((.....((((..((....))..))))......))..))))))))..))).)))))...... ( -29.60)
>DroSec_CAF1 26337 103 - 1
CAAUGCUUUCAAAAUGAAUGUAUGUACA--------UGCUACAUGUAUUUUGGCAUAUCGUU---------AUCGUUAUUUUGGCCACAAUCACAUGUGCCAAUAAUAGUUAGCACAUUU
...((((..(..(((((((((..(((((--------((...)))))))....)))).)))))---------.....(((((((((.(((......)))))))).)))))..))))..... ( -24.30)
>DroSim_CAF1 17742 102 - 1
-AAUGCUUUCAAAAUGAAUGUAUGUACA--------UGCUACAUGUAUUUUGGCAUAUCGUU---------AUCGUUAUUUUGGCCACAAUCACAUGUGCCAAUGAUAAUUAGCACAUUU
-..((((.....(((((((((..(((((--------((...)))))))....)))).)))))---------...(((((((((((.(((......)))))))).)))))).))))..... ( -24.30)
>consensus
CAAUGCUUUCAAAAUGAAUGUAUGUACA________UGCUACAUGUAUUUUGGCAUAUCGUU_________AUCGUUAUUUUGGCCACAAUCACAUGUGCCAAUAAUAAUUAGCACAUUU
...((((.((((((((.(((((.(((..........)))))))).))))))))......................((((((((((.(((......)))))))).)))))..))))..... (-19.23 = -19.57 +   0.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:19 2006