Locus 2337

Sequence ID	2L_DroMel_CAF1
Location	6,334,809 – 6,334,916
Length	107
Max. P	0.772616

overview

Window 9

Location	6,334,809 – 6,334,916
Length	107
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	76.93
Mean single sequence MFE	-45.58
Consensus MFE	-26.59
Energy contribution	-26.87
Covariance contribution	0.28
Combinations/Pair	1.33
Mean z-score	-1.71
Structure conservation index	0.58
SVM decision value	0.53
SVM RNA-class probability	0.772616
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6334809 107 + 22407834
AUAUCUGGCGCUGCACUGGCGGCUCGAUUGGUCCGCUUAGGAGCCUGCGGUUCCAGGAACAGCAGCUCCGUGCUUGCUGCUCGGUCUGCGCC---GUACUUCUUUAUGUU-
......(((((.(.(((((((((..((....)).((...(((((.(((.((((...)))).))))))))..))..))))).))))).)))))---...............- ( -41.80)
>DroVir_CAF1 44902 108 + 1
AUUGCGGGCGCUGCGCUGGCGGCGCGUGCCGCACGCUGCGGUGCCUGUGGCUCCAGGAACUGCAGCUCCGUGCUGGCCGCACGAUCGGCGCC---GUAUUUCUUAAUAUUU
..((((.(((((((....)))))))((((((...((((((((.((((......)))).))))))))..(((((.....)))))..)))))))---)))............. ( -54.50)
>DroPse_CAF1 64843 108 + 1
AUGGCCGGCGCAGCACUGGCCGCCCGGGCCGCCCUCUGCGGUGCCUGCGGCUCCAGGAACUGCAUCUCGCUGCUGACCGCCCGAUCCGCUGC---GAACUUUUGGAUAUUC
.(((.(((((((((.((((..((((((((.(((......)))))))).))).))))((........))))))).).))).)))(((((....---.......))))).... ( -41.00)
>DroGri_CAF1 19550 108 + 1
AUUGCUGGCGCGGCACUUGCCGCACGUGCGGCACGCAACGGUGCCUGUGGCUCCAAGAACUGCAACUCUGUGCUCGCUGCACGAUCCGCGCC---GUAUUUCUUAAUAUUU
..(((.((((((((....)))...((((((((..(((..((.(((...))).)).(((........))).)))..))))))))....)))))---)))............. ( -42.00)
>DroSim_CAF1 27864 107 + 1
AUAUCUGGCGCUGCACUGGCGGCUCGGUUGGUCCGCUUAGGAGCCUGCGGUUCCAGGAACAGCAGCUCCGUGCUUGCUGCUCGGUCUGCGCC---GUACUUUUUUAUGUU-
......(((((.(.(((((((((..((.....))((...(((((.(((.((((...)))).))))))))..))..))))).))))).)))))---...............- ( -44.50)
>DroMoj_CAF1 53315 111 + 1
AUGGCGGGCGCUGCGCUGGCCGCCCGAGCUGCUCUCUGCGGCGCCUGUGGCUCCAGGAACUGCAGCUCUGUGCUCGCAGCACGAUCCGCGCCCGCAUAUUUCUUAAUAUUC
...((((((((((.((((...(((.(((((((..(((..((.(((...))).)).)))...))))))).).))...)))).))....))))))))................ ( -49.70)
>consensus
AUAGCUGGCGCUGCACUGGCCGCCCGAGCGGCCCGCUGCGGUGCCUGCGGCUCCAGGAACUGCAGCUCCGUGCUCGCUGCACGAUCCGCGCC___GUACUUCUUAAUAUU_
......((((((((....))))).((((((((.......((.(((...))).)).......(((......)))..))))))))......)))................... (-26.59 = -26.87 +   0.28)

alignment

secondary structure

dotplot

Window 0

Location	6,334,809 – 6,334,916
Length	107
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	76.93
Mean single sequence MFE	-44.20
Consensus MFE	-24.08
Energy contribution	-24.88
Covariance contribution	0.81
Combinations/Pair	1.35
Mean z-score	-1.83
Structure conservation index	0.54
SVM decision value	0.47
SVM RNA-class probability	0.748085
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6334809 107 - 22407834
-AACAUAAAGAAGUAC---GGCGCAGACCGAGCAGCAAGCACGGAGCUGCUGUUCCUGGAACCGCAGGCUCCUAAGCGGACCAAUCGAGCCGCCAGUGCAGCGCCAGAUAU
-...............---(((((.(......).....((((((((((((.((((...)))).))).)))))...((((..(....)..))))..)))).)))))...... ( -38.60)
>DroVir_CAF1 44902 108 - 1
AAAUAUUAAGAAAUAC---GGCGCCGAUCGUGCGGCCAGCACGGAGCUGCAGUUCCUGGAGCCACAGGCACCGCAGCGUGCGGCACGCGCCGCCAGCGCAGCGCCCGCAAU
................---(((((.....((((((((.((((...(((((.((.((((......)))).)).)))))))))))).))))).((....)).)))))...... ( -47.00)
>DroPse_CAF1 64843 108 - 1
GAAUAUCCAAAAGUUC---GCAGCGGAUCGGGCGGUCAGCAGCGAGAUGCAGUUCCUGGAGCCGCAGGCACCGCAGAGGGCGGCCCGGGCGGCCAGUGCUGCGCCGGCCAU
.....(((.....(((---((.((.((((....)))).)).))))).(((.((.((((......)))).)).)))..))).((((.(((((((....))))).)))))).. ( -44.50)
>DroGri_CAF1 19550 108 - 1
AAAUAUUAAGAAAUAC---GGCGCGGAUCGUGCAGCGAGCACAGAGUUGCAGUUCUUGGAGCCACAGGCACCGUUGCGUGCCGCACGUGCGGCAAGUGCCGCGCCAGCAAU
................---(((((((.....((((((.(((......))).((.((((......)))).)))))))).((((((....))))))....)))))))...... ( -43.80)
>DroSim_CAF1 27864 107 - 1
-AACAUAAAAAAGUAC---GGCGCAGACCGAGCAGCAAGCACGGAGCUGCUGUUCCUGGAACCGCAGGCUCCUAAGCGGACCAACCGAGCCGCCAGUGCAGCGCCAGAUAU
-...............---(((((.(......).....((((((((((((.((((...)))).))).)))))...((((..(....)..))))..)))).)))))...... ( -38.60)
>DroMoj_CAF1 53315 111 - 1
GAAUAUUAAGAAAUAUGCGGGCGCGGAUCGUGCUGCGAGCACAGAGCUGCAGUUCCUGGAGCCACAGGCGCCGCAGAGAGCAGCUCGGGCGGCCAGCGCAGCGCCCGCCAU
................((((((((.....((((((.(.((...(((((((..((..(((.(((...))).)))..))..)))))))..))..))))))).))))))))... ( -52.70)
>consensus
_AAUAUUAAGAAAUAC___GGCGCGGAUCGUGCAGCAAGCACGGAGCUGCAGUUCCUGGAGCCACAGGCACCGCAGCGGGCCGCACGAGCCGCCAGUGCAGCGCCAGCAAU
...................(((((.(.....((.((.........(((((.((.((((......)))).)).)))))((.....))..)).)).....).)))))...... (-24.08 = -24.88 +   0.81)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:38 2006