Locus 4729

Sequence ID	2R_DroMel_CAF1
Location	15,515,133 – 15,515,261
Length	128
Max. P	0.978602

overview

Window 9

Location	15,515,133 – 15,515,238
Length	105
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	83.27
Mean single sequence MFE	-30.35
Consensus MFE	-29.80
Energy contribution	-29.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.05
Structure conservation index	0.98
SVM decision value	1.82
SVM RNA-class probability	0.978602
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15515133 105 + 20766785
AUUUUAAUA-------AAAAAGAGAAC--AACUUUACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCGUGUUAU
.........-------........(((--(......((((((.((((.......))))........((((((((((((....))))).....))))))).))))))..)))).. ( -30.80)
>DroPse_CAF1 348282 105 + 1
AA-AUGAAA-------AAAAAUCU-ACAUCUCCUUACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCACGUCUU
..-......-------........-...........((((((.((((.......))))........((((((((((((....))))).....))))))).))))))........ ( -29.80)
>DroSim_CAF1 288483 103 + 1
AA-AAGAAA-------AAAAAGAG-AC--AACUUUACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCGUGCUAU
..-......-------..((((..-..--..)))).((((((.((((.......))))........((((((((((((....))))).....))))))).))))))........ ( -29.90)
>DroEre_CAF1 298471 95 + 1
------------------AAAGAAUAC-GAACUUUACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCAUGCUGU
------------------.........-........((((((.((((.......))))........((((((((((((....))))).....))))))).))))))........ ( -29.80)
>DroYak_CAF1 306333 106 + 1
CCUUGAAUA-------A-AAAAAGUACUUGACUUUACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCUUGUUAU
.....((((-------(-..(((((.....))))).((((((.((((.......))))........((((((((((((....))))).....))))))).)))))).))))).. ( -32.00)
>DroPer_CAF1 311921 112 + 1
GA-AAAAAAAAUUUUAAAAAAUCU-ACAUCUCCUUACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCACGUCUU
..-.....................-...........((((((.((((.......))))........((((((((((((....))))).....))))))).))))))........ ( -29.80)
>consensus
AA_AAAAAA_______AAAAAGAG_AC_UAACUUUACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCAUGUUAU
....................................((((((.((((.......))))........((((((((((((....))))).....))))))).))))))........ (-29.80 = -29.80 +   0.00)

alignment

secondary structure

dotplot

Window 0

Location	15,515,158 – 15,515,261
Length	103
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.64
Mean single sequence MFE	-36.02
Consensus MFE	-29.80
Energy contribution	-29.80
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.31
Structure conservation index	0.83
SVM decision value	0.48
SVM RNA-class probability	0.753004
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15515158 103 + 20766785
UACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCGUGUUAUAUU-CGUUGACAGAACGUUAUUAU----------------
..((((((.((((.......))))........((((((((((((....))))).....))))))).))))))..(((((....-...)))))............---------------- ( -32.10)
>DroSec_CAF1 308643 104 + 1
UACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCGUGUUGUACCCCUUUGACAGAACGUUAUUAA----------------
..((((((.((((.......))))........((((((((((((....))))).....))))))).))))))(((.((((.........)))).))).......---------------- ( -32.60)
>DroEre_CAF1 298486 103 + 1
UACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCAUGCUGUUUC-UGUUGUCAGAACGUGGUGAU----------------
..((((((.((((.......))))........((((((((((((....))))).....))))))).))))))...((..((((-((....))))).)..))...---------------- ( -36.00)
>DroYak_CAF1 306359 103 + 1
UACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCUUGUUAUUUC-UGUUGUCAAAACGUCAUCAU----------------
.......((((.(((..(((...((((.((((((((((((((((....))))).....)))))))...)))).))))...)))-....)))....)))).....---------------- ( -30.60)
>DroAna_CAF1 286698 117 + 1
UACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCUUGUGCUACGGGGCUGCCA-AACGGCAACUUCAAC--ACGGGGUGGG
((((((....(((.......)))((((.((((((((((((((((....))))).....)))))))...)))).)))).....((((.((((.-...)))).))))...--..)))))).. ( -46.50)
>DroPer_CAF1 311953 118 + 1
UACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCACGUCUUAGU-AAGUGGCUAA-CUGCGAAUACAAUCUACGGGCGGAA
..((((((.((((.......))))........((((((((((((....))))).....))))))).))))))..((((((((.-..(((((...-..))...)))...))).)))))... ( -38.30)
>consensus
UACCCCAGAUGGGACUCGAACCCACAAUCCCCGGCUUAGGAGGCCGAUGCCUUAUCCAUUAGGCCACUGGGGCAUGUUAUAUC_CGUUGACAGAACGUCAUCAU________________
..((((((.((((.......))))........((((((((((((....))))).....))))))).))))))................................................ (-29.80 = -29.80 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:27:56 2006