Locus 6175

Sequence ID	X_DroMel_CAF1
Location	15,745,066 – 15,745,185
Length	119
Max. P	0.624899

overview

Window 1

Location	15,745,066 – 15,745,185
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.54
Mean single sequence MFE	-30.90
Consensus MFE	-22.27
Energy contribution	-22.96
Covariance contribution	0.69
Combinations/Pair	1.09
Mean z-score	-1.94
Structure conservation index	0.72
SVM decision value	0.05
SVM RNA-class probability	0.557283
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15745066 119 + 22224390
AUACUGUGUUUAAUAUGCAUAUGUUCGCGUGUGUGGUGCUCAUGACAUACAUACAUAAAUGCCAACAAAGUCCCAA-AUAUCGCAUUCAUUUGCGAGGGGACUUCGCAGGACGUUAUAAA
...(((((........((((((((....((((((.((....)).))))))..)))))..))).....(((((((..-...(((((......))))).))))))))))))........... ( -36.10)
>DroSec_CAF1 4074 120 + 1
AUACUGUGUUUAAUAUGCAUAUGUUCGCGUGUGUGGUGCGCAUGACAUACAUACAUAAAUGCCAAUAAAGUCCGAAAAAAUCGCAUUCAUUUGCGAGGAGACUUCGCAGGACGUUAUAAA
.....(((((((.((((..(((((...((((((.....)))))))))))))))..)))))))..((((.(((((((.........)))...((((((....).))))))))).))))... ( -29.50)
>DroSim_CAF1 4085 119 + 1
AUACUGUGUUUAAUAUGCAUAUGUUCGCGUGUGUGGUGCGCAUGACAUACAUACAUAAAUGCCAACAAAGUCCCAA-AAAUCGCAUUCAUUUGCGAGGAGACUUCGCAGGACGUUAUAAA
...(((((........((((((((....((((((.((....)).))))))..)))))..))).....(((((((..-...(((((......))))))).))))))))))........... ( -30.30)
>DroEre_CAF1 3918 119 + 1
AUACUGUGUUUAAUAUGCAUAUGUUCGCGUGUGUGGUGCGCAUGACACACAUACAUAAAUGCCAACAAAGUCCCAA-AAAUCGCAUCCAUUCGCGAGGGGACUUCGCAGGACGUUAUAAA
...(((((........((((((((....((((((.((....)).))))))..)))))..))).....(((((((..-...((((........)))).))))))))))))........... ( -36.10)
>DroYak_CAF1 4010 106 + 1
AUACUGUGUUUAAUAUGCAUAUGUUUGCAUGUGUGGUGCGCAUGACACACAUACAUAAAUGCCAACAAAGUCCCAA-AAAUCGCAUUCGUU-------------CGCAGGACGUUAUAAA
...(((((......((((.(((((.((((((((.....)))))).)).)))))......((....)).........-.....)))).....-------------)))))........... ( -22.50)
>consensus
AUACUGUGUUUAAUAUGCAUAUGUUCGCGUGUGUGGUGCGCAUGACAUACAUACAUAAAUGCCAACAAAGUCCCAA_AAAUCGCAUUCAUUUGCGAGGAGACUUCGCAGGACGUUAUAAA
....(((((.......)))))((((.(((((((((((((....).))).)))))))....)).))))..((((.......(((((......)))))(....)......))))........ (-22.27 = -22.96 +   0.69)

alignment

secondary structure

dotplot

Window 2

Location	15,745,066 – 15,745,185
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.54
Mean single sequence MFE	-30.90
Consensus MFE	-22.28
Energy contribution	-24.44
Covariance contribution	2.16
Combinations/Pair	1.14
Mean z-score	-2.07
Structure conservation index	0.72
SVM decision value	0.19
SVM RNA-class probability	0.624899
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15745066 119 - 22224390
UUUAUAACGUCCUGCGAAGUCCCCUCGCAAAUGAAUGCGAUAU-UUGGGACUUUGUUGGCAUUUAUGUAUGUAUGUCAUGAGCACCACACACGCGAACAUAUGCAUAUUAAACACAGUAU
........(((..((((((((((.(((((......)))))...-..)))))))))).))).((((.((((((((((.....((.........))....))))))))))))))........ ( -32.90)
>DroSec_CAF1 4074 120 - 1
UUUAUAACGUCCUGCGAAGUCUCCUCGCAAAUGAAUGCGAUUUUUUCGGACUUUAUUGGCAUUUAUGUAUGUAUGUCAUGCGCACCACACACGCGAACAUAUGCAUAUUAAACACAGUAU
........(((((((((.......))))).........((.....))))))..(((((...((((.((((((((((....(((.........)))...))))))))))))))..))))). ( -26.70)
>DroSim_CAF1 4085 119 - 1
UUUAUAACGUCCUGCGAAGUCUCCUCGCAAAUGAAUGCGAUUU-UUGGGACUUUGUUGGCAUUUAUGUAUGUAUGUCAUGCGCACCACACACGCGAACAUAUGCAUAUUAAACACAGUAU
........(((..((((((((((.(((((......)))))...-..)))))))))).))).((((.((((((((((....(((.........)))...))))))))))))))........ ( -32.50)
>DroEre_CAF1 3918 119 - 1
UUUAUAACGUCCUGCGAAGUCCCCUCGCGAAUGGAUGCGAUUU-UUGGGACUUUGUUGGCAUUUAUGUAUGUGUGUCAUGCGCACCACACACGCGAACAUAUGCAUAUUAAACACAGUAU
........(((..((((((((((.(((((......)))))...-..)))))))))).)))...(((((((((((....((((.........)))).)))))))))))............. ( -37.00)
>DroYak_CAF1 4010 106 - 1
UUUAUAACGUCCUGCG-------------AACGAAUGCGAUUU-UUGGGACUUUGUUGGCAUUUAUGUAUGUGUGUCAUGCGCACCACACAUGCAAACAUAUGCAUAUUAAACACAGUAU
........((((((.(-------------((((....)).)))-.)))))).((((.(.....(((((((((((..((((.(.....).))))...))))))))))).....)))))... ( -25.40)
>consensus
UUUAUAACGUCCUGCGAAGUCCCCUCGCAAAUGAAUGCGAUUU_UUGGGACUUUGUUGGCAUUUAUGUAUGUAUGUCAUGCGCACCACACACGCGAACAUAUGCAUAUUAAACACAGUAU
........(((..((((((((((.(((((......)))))......)))))))))).))).((((.((((((((((..((((.........))))...))))))))))))))........ (-22.28 = -24.44 +   2.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:27 2006