Locus 5413

Sequence ID	2L_DroMel_CAF1
Location	15,435,861 – 15,435,959
Length	98
Max. P	0.934894

overview

Window 9

Location	15,435,861 – 15,435,959
Length	98
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	78.51
Mean single sequence MFE	-20.71
Consensus MFE	-15.93
Energy contribution	-15.93
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.83
Structure conservation index	0.77
SVM decision value	1.24
SVM RNA-class probability	0.934894
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15435861 98 + 22407834
------CGA-CUCUGGAC----AUUCGCCUGAAAACUGGCUUAAUAUUAUUUAUGAGCCGACUGCUCGCCAUAUCACGUAAUAAUCACGCACAUAAAUGGCCAGUUAAA
------...-.((.((.(----....))).)).((((((((.......((((((((((.....)))).........(((.......)))...))))))))))))))... ( -18.11)
>DroPse_CAF1 180150 88 + 1
--------U-CUCUC------------CCGCAAAACUGGCUUAAUAUUAUUUAUGAGCCCAAUGCUCGCCAUAUCACGUAAUAAUCACGCACAUAAAUGGCCAGUUAAA
--------.-.....------------......((((((((.......((((((((((.....)))).........(((.......)))...))))))))))))))... ( -16.91)
>DroGri_CAF1 193690 102 + 1
------GGA-UUGUGGUCCGUCCUGUGCAUGGAAACUGGCUUAAUAUUAUUUAUGAGCCCAAUAUGCGCGAUAUCACGUAAUAAUCACGCACAUAAAUGGCCAGUUAAA
------(((-(....)))).(((.......)))((((((((.......(((((((.((......((((.(....).))))........)).)))))))))))))))... ( -25.75)
>DroMoj_CAF1 224501 96 + 1
CAACACGGAG------------CUGUGCCUG-AAACUGGCUUAAUAUUAUUUAUGAGCCCAAUAUGCGCGAUAUCACGUAAUAAUCACGCACAUAAAUGGCCAGUUAAA
........((------------(((.(((..-.....((((((.((.....)))))))).....((((.(((...........))).)))).......))))))))... ( -22.70)
>DroAna_CAF1 190401 98 + 1
------GGU-CUCUGCAC----AUUCGACUGGAAACUGGCUUAAUAUUAUUUAUGAGCCAAGUGCCGGCCAUAUCACGUAAUAAUCACGCACAUAAAUGGCCAGUUAAA
------...-....((((----........(....)(((((((.((.....))))))))).)))).((((((....(((.......))).......))))))....... ( -23.90)
>DroPer_CAF1 181209 77 + 1
--------------------------------AAACUGGCUUAAUAUUAUUUAUGAGCCCAAUGCUCGCCAUAUCACGUAAUAAUCACGCACAUAAAUGGCCAGUUAAA
--------------------------------.((((((((.......((((((((((.....)))).........(((.......)))...))))))))))))))... ( -16.91)
>consensus
______GGA_CUCUG________U__GCCUG_AAACUGGCUUAAUAUUAUUUAUGAGCCCAAUGCUCGCCAUAUCACGUAAUAAUCACGCACAUAAAUGGCCAGUUAAA
.................................((((((((.......(((((((.((.........((........)).........)).)))))))))))))))... (-15.93 = -15.93 +  -0.00)

alignment

secondary structure

dotplot

Window 0

Location	15,435,861 – 15,435,959
Length	98
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	78.51
Mean single sequence MFE	-23.95
Consensus MFE	-16.42
Energy contribution	-17.28
Covariance contribution	0.86
Combinations/Pair	1.09
Mean z-score	-1.53
Structure conservation index	0.69
SVM decision value	0.66
SVM RNA-class probability	0.814291
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 15435861 98 - 22407834
UUUAACUGGCCAUUUAUGUGCGUGAUUAUUACGUGAUAUGGCGAGCAGUCGGCUCAUAAAUAAUAUUAAGCCAGUUUUCAGGCGAAU----GUCCAGAG-UCG------
.....((((.(((((....((((((...))))))((..((((((((.....)))).(((......))).))))....))....))))----).))))..-...------ ( -24.60)
>DroPse_CAF1 180150 88 - 1
UUUAACUGGCCAUUUAUGUGCGUGAUUAUUACGUGAUAUGGCGAGCAUUGGGCUCAUAAAUAAUAUUAAGCCAGUUUUGCGG------------GAGAG-A--------
...(((((((...((((((((((((...)))))).)))))).((((.....))))..............)))))))......------------.....-.-------- ( -21.50)
>DroGri_CAF1 193690 102 - 1
UUUAACUGGCCAUUUAUGUGCGUGAUUAUUACGUGAUAUCGCGCAUAUUGGGCUCAUAAAUAAUAUUAAGCCAGUUUCCAUGCACAGGACGGACCACAA-UCC------
......(((((.(((.((((((((.......((((....)))).......((((..............))))......))))))))))).)).)))...-...------ ( -24.94)
>DroMoj_CAF1 224501 96 - 1
UUUAACUGGCCAUUUAUGUGCGUGAUUAUUACGUGAUAUCGCGCAUAUUGGGCUCAUAAAUAAUAUUAAGCCAGUUU-CAGGCACAG------------CUCCGUGUUG
.......((((....(((((((((((.(((....))))))))))))))..))))...............(((.....-..))).(((------------(.....)))) ( -26.60)
>DroAna_CAF1 190401 98 - 1
UUUAACUGGCCAUUUAUGUGCGUGAUUAUUACGUGAUAUGGCCGGCACUUGGCUCAUAAAUAAUAUUAAGCCAGUUUCCAGUCGAAU----GUGCAGAG-ACC------
......(((((((.....(((((((...)))))))..)))))))((((((((((..............)))))).(((.....))).----))))....-...------ ( -24.54)
>DroPer_CAF1 181209 77 - 1
UUUAACUGGCCAUUUAUGUGCGUGAUUAUUACGUGAUAUGGCGAGCAUUGGGCUCAUAAAUAAUAUUAAGCCAGUUU--------------------------------
...(((((((...((((((((((((...)))))).)))))).((((.....))))..............))))))).-------------------------------- ( -21.50)
>consensus
UUUAACUGGCCAUUUAUGUGCGUGAUUAUUACGUGAUAUGGCGAGCAUUGGGCUCAUAAAUAAUAUUAAGCCAGUUU_CAGGC__A________CAGAG_UCC______
...(((((((...((((((((((((...)))))).)))))).((((.....))))..............)))))))................................. (-16.42 = -17.28 +   0.86)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:30 2006