Locus 7149

Sequence ID	3L_DroMel_CAF1
Location	19,196,430 – 19,196,574
Length	144
Max. P	0.696141

overview

Window 7

Location	19,196,430 – 19,196,544
Length	114
Sequences	3
Columns	114
Reading direction	reverse
Mean pairwise identity	90.06
Mean single sequence MFE	-29.26
Consensus MFE	-25.16
Energy contribution	-24.72
Covariance contribution	-0.44
Combinations/Pair	1.08
Mean z-score	-1.98
Structure conservation index	0.86
SVM decision value	0.34
SVM RNA-class probability	0.696141
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19196430 114 - 23771897
UCCCGUGUAAGCCAAAGAAGCAAAUUUUUGAAAAAUGCCUGCCAGCGGAAGAAGCAGCAGCAGCAGCAGGCGGAGGAGCGAAAGACGGUGGCAAGGACAUGGAGUGAAAACAGU
..((((((..((((..(..................(((((((..((.......)).((....)).)))))))......(....).)..))))....)))))).((....))... ( -33.00)
>DroSec_CAF1 24698 105 - 1
UCCCGUGUAAGCGAAAGAAGGAAAUUUUUGAAAAAUGCCUGCCAGCAGAAGA---------AGCAGCAGGCGGAGGCGCAGAAGACGGUGGCAAGGACAUGGAGUGAAAACAGU
..((((((...(....).......((((((.....(((((((..((......---------.)).)))))))......))))))............)))))).((....))... ( -27.20)
>DroSim_CAF1 29003 114 - 1
UUCCGUGUAAGCGAAAGAAGGAAAUUUUUGAAAAAUGCCUGCCAGCAGAAGAAUAAGCAGCAGCAGCAGGCGGAGGAGCAGAAGACGGUGGCAAGGACAUGGAGUGAAAACAGU
.(((((((...(....).......((((((.....(((((((..((................)).)))))))......))))))............)))))))((....))... ( -27.59)
>consensus
UCCCGUGUAAGCGAAAGAAGGAAAUUUUUGAAAAAUGCCUGCCAGCAGAAGAA__AGCAGCAGCAGCAGGCGGAGGAGCAGAAGACGGUGGCAAGGACAUGGAGUGAAAACAGU
..((((((...(....).......((((((.....(((((((..((................)).)))))))......))))))............)))))).((....))... (-25.16 = -24.72 +  -0.44)

alignment

secondary structure

dotplot

Window 8

Location	19,196,470 – 19,196,574
Length	104
Sequences	5
Columns	117
Reading direction	forward
Mean pairwise identity	76.99
Mean single sequence MFE	-23.25
Consensus MFE	-15.55
Energy contribution	-15.87
Covariance contribution	0.32
Combinations/Pair	1.12
Mean z-score	-1.56
Structure conservation index	0.67
SVM decision value	0.33
SVM RNA-class probability	0.690266
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19196470 104 + 23771897
UCCGCCUGCUGCUGCUGCUGCUUCUUCCGCUGGCAGGCAUUUUUCAAAAAUUUGCUUC------UUUGGCUUACACGGGAAUAAAAGGUUUUUUAAAAAC-UGAAAUAU------UU
...(((((((((....)).((.......)).)))))))...((((.....((((.(((------(.((.....)).)))).)))).(((((.....))))-)))))...------.. ( -22.00)
>DroSec_CAF1 24738 100 + 1
UCCGCCUGCUGCU---------UCUUCUGCUGGCAGGCAUUUUUCAAAAAUUUCCUUC------UUUCGCUUACACGGGAAUCUAAGGCUUAUAAAAAAAGGAAACUAUCUCG--UU
((((((((((((.---------......)).)))))))...............((((.------.(((.(......).)))...))))............)))..........--.. ( -23.60)
>DroSim_CAF1 29043 110 + 1
UCCGCCUGCUGCUGCUGCUUAUUCUUCUGCUGGCAGGCAUUUUUCAAAAAUUUCCUUC------UUUCGCUUACACGGAAAUGUAAGGUUUAA-AAACAUCUAAAAUAUCUCAGUUU
.(((((((((((................)).)))))))...........((((((...------............))))))....)).....-....................... ( -19.25)
>DroEre_CAF1 27801 115 + 1
UCCGCCUGCUGCUGCUCCUGCUUCUUCUGCUGGCAGGCAGUUUUUAAGAAUUUUCUUCCUCAUUUUUCGCUUACACGGGAACAUACGGUUU-CAGAAG-CCUAAAAUAUCUACAUUU
...(((((((((.((....)).......)).))))))).......................(((((..((((.....(((((.....))))-)..)))-)..))))).......... ( -24.10)
>DroYak_CAF1 52818 114 + 1
UCCGCCUGCUGCUGCUCCUGCUGCUUCUGCUGGCAGGCAUUUUUUAAGAAUUUCCUUCUU--UUUUUCACUUACACGGGUAUAUACGGUUUGUAUAAA-CCUAAUAUAUCUACAUUU
...(((((((((.((.......))....)).))))))).......(((((.....)))))--..............((((((((..(((((....)))-))..))))))))...... ( -27.30)
>consensus
UCCGCCUGCUGCUGCUCCUGCUUCUUCUGCUGGCAGGCAUUUUUCAAAAAUUUCCUUC______UUUCGCUUACACGGGAAUAUAAGGUUUAUAAAAAACCUAAAAUAUCUAC_UUU
.(((((((((((................)).)))))))...........((((((.....................))))))....))............................. (-15.55 = -15.87 +   0.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:39:18 2006