Locus 8236

Sequence ID	X_DroMel_CAF1
Location	20,448,826 – 20,448,944
Length	118
Max. P	0.976130

overview

Window 8

Location	20,448,826 – 20,448,927
Length	101
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	82.35
Mean single sequence MFE	-38.10
Consensus MFE	-23.88
Energy contribution	-23.92
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.49
Structure conservation index	0.63
SVM decision value	1.21
SVM RNA-class probability	0.930811
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20448826 101 - 22224390
AGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGCGGAAACUUCACUUAUGGCGGCUUGAAAGCGGAAGGC----------------CAAACGAUGUGGGGGAAUGAUUUAAU
...((((((.((.(((...(((.((((.(((((((.((.(....)..)).))))))).)))).))).(....)))----------------)..))....))))))........... ( -33.80)
>DroSec_CAF1 22659 100 - 1
AGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGCGGAAACUUCACUUAUGGCGGCUUGAAAGCUAAUGAC-----------------CCACGAGGUGGGGGAAUGAUUUAAU
...((((((.((((((..((((.((((.(((((((.((.(....)..)).))))))).))))..)))).....))-----------------))))....))))))........... ( -39.60)
>DroSim_CAF1 27486 101 - 1
AGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGCGGAAACUUCACUUAUGGCGGCUUGAAAGCUGAUGAA----------------CCAACGAGGUGGGGGAAUGAUUUAAU
...((((((.((.(((..((((.((((.(((((((.((.(....)..)).))))))).))))..))))......)----------------)).))....))))))........... ( -33.60)
>DroEre_CAF1 20133 117 - 1
AGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGGGGAAACUUCACCUAUGGCGGCUUGAAAACUGAAGACCAUAAUGGGCUGCGCACAAACGAGGCGGGGAAAUGAUUUAAU
...((((...((..((((((((.((((.(((((((.((((....).))).))))))).)))).))......((.((.....)).))))))))..)).....))))............ ( -40.70)
>DroYak_CAF1 20367 117 - 1
AGGCCCCCAAGUGGGUGUGUUUGAGGUGGCCAUAGUUGGGGAAACUUCACUUAUGGCGGCUUGCAAACUGAGGACCAUAAUGGGCUGAUGGCAAACGAGGCGGGCAAUCGAUUUUAU
..(((((((.((((....(((((((((.((((((((..((....))..)).)))))).)))).)))))......))))..)))(((..((.....)).)))))))............ ( -42.80)
>consensus
AGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGCGGAAACUUCACUUAUGGCGGCUUGAAAGCUGAAGAC________________CAAACGAGGUGGGGGAAUGAUUUAAU
...(((((((((.(.((((..((((((..((........))..))))))..)))).).)))))....(....)............................))))............ (-23.88 = -23.92 +   0.04)

alignment

secondary structure

dotplot

Window 9

Location	20,448,852 – 20,448,944
Length	92
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	92.72
Mean single sequence MFE	-32.54
Consensus MFE	-28.82
Energy contribution	-28.50
Covariance contribution	-0.32
Combinations/Pair	1.14
Mean z-score	-1.72
Structure conservation index	0.89
SVM decision value	1.76
SVM RNA-class probability	0.976130
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20448852 92 - 22224390
AACUGCUUAGUGUGACCAGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGCGGAAACUUCACUUAUGGCGGCUUGAAAGCGGAAGGC--
..((((((........((.((((......)))).))..(.((((.(((((((.((.(....)..)).))))))).)))).))))))).....-- ( -32.20)
>DroSec_CAF1 22684 92 - 1
AACUGCUUAGUGUGACCAGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGCGGAAACUUCACUUAUGGCGGCUUGAAAGCUAAUGAC--
......(((((.....((.((((......)))).))(((.((((.(((((((.((.(....)..)).))))))).)))).))))))))....-- ( -29.50)
>DroSim_CAF1 27512 92 - 1
AACUGCUUAGUGUGACCAGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGCGGAAACUUCACUUAUGGCGGCUUGAAAGCUGAUGAA--
......(((((.....((.((((......)))).))(((.((((.(((((((.((.(....)..)).))))))).)))).))))))))....-- ( -29.60)
>DroEre_CAF1 20173 94 - 1
AACUGCUCAGUGUGACCAGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGGGGAAACUUCACCUAUGGCGGCUUGAAAACUGAAGACCA
......(((((.....((.((((......)))).))(((.((((.(((((((.((((....).))).))))))).)))).))))))))...... ( -35.80)
>DroYak_CAF1 20407 94 - 1
AACUGCUUAGUGUGACCAGGCCCCCAAGUGGGUGUGUUUGAGGUGGCCAUAGUUGGGGAAACUUCACUUAUGGCGGCUUGCAAACUGAGGACCA
.....((((((.((..(((((((((....))).).)))))((((.((((((((..((....))..)).)))))).)))).)).))))))..... ( -35.60)
>consensus
AACUGCUUAGUGUGACCAGGCCCCUAAGUGGGUGUGUUUGAGGUGGCCAUAGCUGCGGAAACUUCACUUAUGGCGGCUUGAAAGCUGAAGAC__
......(((((.....((.((((......)))).))(((.((((.(((((((.((.(....)..)).))))))).)))).))))))))...... (-28.82 = -28.50 +  -0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:03 2006