Locus 8042

Sequence ID	3L_DroMel_CAF1
Location	21,213,303 – 21,213,463
Length	160
Max. P	0.983462

overview

Window 9

Location	21,213,303 – 21,213,423
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.83
Mean single sequence MFE	-43.60
Consensus MFE	-42.72
Energy contribution	-42.72
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.40
Structure conservation index	0.98
SVM decision value	1.94
SVM RNA-class probability	0.983462
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21213303 120 + 23771897
AAGGGAACUCACCAGUAGUAGGCUAUCUGGUCGCCCAGGCCGUUCCUAACGUUGCGAUCUAGGAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCC
..((((....((((((((....))).)))))..((((...((........(((((((((.....))))))))).(((((.((((((((...)))))))).)))))..))...)))))))) ( -46.40)
>DroSim_CAF1 80369 120 + 1
AACCGAACUCACCAGUAGUAGGCUAUCUGGUCGCCCAGGCCGUUCCUUACGUUGCGAUCUAGGAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCC
..........((((((((....))).))))).(((((...((........(((((((((.....))))))))).(((((.((((((((...)))))))).)))))..))...)))))... ( -42.90)
>DroEre_CAF1 32971 120 + 1
AACCAGACUCACCAGUAGUAGGCUAUCUGGUCGCCCAGACCGUUCCUAACGUUGCGAUCUAGUAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCC
..........((((((((....))).))))).(((((...((........(((((((((.....))))))))).(((((.((((((((...)))))))).)))))..))...)))))... ( -42.90)
>DroYak_CAF1 139945 120 + 1
AACCAGACUCACCAGUAGUAGGCUAUCUGGUCGCCCAGACCGUUCCUCACGUUGCGAUCCAGUAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCC
..........((((((((....))).))))).(((((...((........(((((((((.....))))))))).(((((.((((((((...)))))))).)))))..))...)))))... ( -42.20)
>consensus
AACCAAACUCACCAGUAGUAGGCUAUCUGGUCGCCCAGACCGUUCCUAACGUUGCGAUCUAGGAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCC
..........((((((((....))).))))).(((((...((........(((((((((.....))))))))).(((((.((((((((...)))))))).)))))..))...)))))... (-42.72 = -42.72 +   0.00)

alignment

secondary structure

dotplot

Window 0

Location	21,213,343 – 21,213,463
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	94.86
Mean single sequence MFE	-40.60
Consensus MFE	-35.38
Energy contribution	-36.50
Covariance contribution	1.12
Combinations/Pair	1.02
Mean z-score	-2.11
Structure conservation index	0.87
SVM decision value	0.94
SVM RNA-class probability	0.885408
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21213343 120 + 23771897
CGUUCCUAACGUUGCGAUCUAGGAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCCUUCGAGAUGUUGAAGUUGUACUUGAGGAACUUAUCCUGAU
.((((((...(((((((((.....))))))))).(((((.((((((((...)))))))).)))))........(((((.((((((....))))))..).)))).)))))).......... ( -39.20)
>DroSim_CAF1 80409 120 + 1
CGUUCCUUACGUUGCGAUCUAGGAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCCUUGGAGAUGUUGAAGUUGUACUUGAGGAACUUCUCCGGAU
.((((((((.(((((((((.....))))))))).(((((.((((((((...)))))))).))))).((((.....((((....).))).)))).........)))))))).......... ( -38.80)
>DroEre_CAF1 33011 120 + 1
CGUUCCUAACGUUGCGAUCUAGUAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCCUUGGAGAUGUUGAAGUUAUACUUGAGAAACUUCUCUGGGU
.(..((((..(((((((((.....))))))))).(((((.((((((((...)))))))).))))).......))))..)((..((((.(((.(((.....)))....))).))))..)). ( -42.20)
>DroYak_CAF1 139985 120 + 1
CGUUCCUCACGUUGCGAUCCAGUAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCCUUGGAGAUGUUGAAGUUGUACUUUAGGAACUUCUCCGGGU
.(..(((...(((((((((.....))))))))).(((((.((((((((...)))))))).)))))........)))..)((((((((.(((((((.....)))))...)).)))))))). ( -42.20)
>consensus
CGUUCCUAACGUUGCGAUCUAGGAGAUUGUAGCACAGAUUGGUGGAGGCACCCUCCAUCCAUUUGAUCGAAAUGGGUCCCUUGGAGAUGUUGAAGUUGUACUUGAGGAACUUCUCCGGAU
.(..(((...(((((((((.....))))))))).(((((.((((((((...)))))))).)))))........)))..)((((((((.(((.(((.....)))....))).)))))))). (-35.38 = -36.50 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:04:39 2006