Locus 1537

Sequence ID	X_DroMel_CAF1
Location	4,447,620 – 4,447,820
Length	200
Max. P	0.999695

overview

Window 4

Location	4,447,620 – 4,447,740
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.65
Mean single sequence MFE	-29.48
Consensus MFE	-29.02
Energy contribution	-28.86
Covariance contribution	-0.16
Combinations/Pair	1.03
Mean z-score	-2.34
Structure conservation index	0.98
SVM decision value	3.90
SVM RNA-class probability	0.999695
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4447620 120 + 22224390
AAAUGGCCACGUCGUCGUUGCCUCAUGGCAAAAGUUCUUCUGAAUUUCUGAUGUUGCUCUGAUAAAUACUUCACUGCGCCAUUCUCGGUGGCUACCUCUCCUCCGUUCACUAUUCUUCCU
.((((((.(((((....(((((....)))))((((((....))))))..))))).((..(((........)))..))))))))..(((.((........)).)))............... ( -29.80)
>DroSec_CAF1 49221 119 + 1
AAAUGGCCACGUCGUCGUUGCCUCAUGGCAAAAGUUCUUCUGAAUUUCUGAUGUUGCUCUGAUAAAUACUUCACUGCGCCAUUCUCGGUGGCUCCCUCUCCUUCGCUCACUAUUCU-CCU
.((((((.(((((....(((((....)))))((((((....))))))..))))).((..(((........)))..))))))))...((((((............)).)))).....-... ( -29.40)
>DroSim_CAF1 50451 119 + 1
AAAUGGCCACGUCGUCGUUGCCUCAUGGCAAAAGUUCUUCUGAAUUUCUGAUGUUGCUCUGAUAAAUACUUCACUGCGCCAUUCUCGGUGGCUCCCUCUCCCUCGCUCACUAUUCU-CCU
.((((((.(((((....(((((....)))))((((((....))))))..))))).((..(((........)))..))))))))...((((((............)).)))).....-... ( -29.40)
>DroEre_CAF1 51075 119 + 1
AAAUGGCCACGUCGCCGUUGCCUCAUGGCAAAAGUUCUUCUGAAUUUCUGAUGUUGCUCUGAUAAGUACUUCACUGCGCCAUUCUCGGUGGCUCCCUCUCCUUCGCUCACUAUUCU-CCU
.((((((.(((((....(((((....)))))((((((....))))))..))))).((..(((........)))..))))))))...((((((............)).)))).....-... ( -29.40)
>DroYak_CAF1 49801 119 + 1
AAAUGGCCACGUCGUCGUUGCCUCAUGGCAAAAGUUCUUCUGAAUUUCUGAUGUUGCUCUGAUAAAUACUUCACUGCGCCAUUCUCGGUGGCUCCCUCUCCUUCGCUCACUAUUCU-CCU
.((((((.(((((....(((((....)))))((((((....))))))..))))).((..(((........)))..))))))))...((((((............)).)))).....-... ( -29.40)
>consensus
AAAUGGCCACGUCGUCGUUGCCUCAUGGCAAAAGUUCUUCUGAAUUUCUGAUGUUGCUCUGAUAAAUACUUCACUGCGCCAUUCUCGGUGGCUCCCUCUCCUUCGCUCACUAUUCU_CCU
.((((((.(((((....(((((....)))))((((((....))))))..))))).((..(((........)))..))))))))...((((((............)).))))......... (-29.02 = -28.86 +  -0.16)

alignment

secondary structure

dotplot

Window 5

Location	4,447,700 – 4,447,820
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.48
Mean single sequence MFE	-30.02
Consensus MFE	-26.44
Energy contribution	-26.84
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.32
Structure conservation index	0.88
SVM decision value	0.26
SVM RNA-class probability	0.656757
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4447700 120 + 22224390
AUUCUCGGUGGCUACCUCUCCUCCGUUCACUAUUCUUCCUCUCACUUGCUCUCUCGUUCGCAUGUUUGGGUGUAUAUCCUCAUGGAAAAUCGGAGGGGGCACAUUCGACCCACCCAUCAA
......(((((........((((((.............(((..((.(((..........))).))..)))......(((....)))....))))))((((......).)))..))))).. ( -28.90)
>DroSec_CAF1 49301 119 + 1
AUUCUCGGUGGCUCCCUCUCCUUCGCUCACUAUUCU-CCUCUCACUUGCUCUCUCGUUCGCAUGUUUGGGUGUAUAUCCUCAUGGAAAAUCGGAGGGGGCACAUUCGACCCACCCAUCAA
......(((((..((((((((...((..........-..........)).......(((.((((...((((....)))).)))))))....))))))))..........)))))...... ( -28.95)
>DroSim_CAF1 50531 119 + 1
AUUCUCGGUGGCUCCCUCUCCCUCGCUCACUAUUCU-CCUCUCACUUGCUCUCUCGCUCGCAUGUUUGGGUGUAUAUCCUCAUGGAAAAUCGGAGGGGGCACAUUCGACCCACCCAUCAA
....(((((((((((((((.................-.........(((.(((..((......))..))).)))..(((....))).....))))))))).)).))))............ ( -29.40)
>DroEre_CAF1 51155 119 + 1
AUUCUCGGUGGCUCCCUCUCCUUCGCUCACUAUUCU-CCUCUCACUUGCUCUCUCGUUCGCAUGUUUGGGUGUAUAUCCUCAUGGAGAAUCGGUGGGGGCACAUUCGGCCCACCCAUCAA
......(((((...............((((((((((-((.......(((.(((.(((....)))...))).))).........))))))).)))))((((.......))))..))))).. ( -31.39)
>DroYak_CAF1 49881 119 + 1
AUUCUCGGUGGCUCCCUCUCCUUCGCUCACUAUUCU-CCUCUCACUUGCUCUCUCGUUCGCAUGUUUGGGUGUAUAUCCACAUGGAAAAUCGGAGGGGGCACAUUCGGCCCACCCAUCAA
......(((((((((((((((...((..........-..........)).......(((.(((((..((((....))))))))))))....)))))))).......)).)))))...... ( -31.46)
>consensus
AUUCUCGGUGGCUCCCUCUCCUUCGCUCACUAUUCU_CCUCUCACUUGCUCUCUCGUUCGCAUGUUUGGGUGUAUAUCCUCAUGGAAAAUCGGAGGGGGCACAUUCGACCCACCCAUCAA
......(((((..((((((((.................(((..((.(((..........))).))..)))......(((....))).....))))))))..........)))))...... (-26.44 = -26.84 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:47 2006