Locus 8715

Sequence ID	3R_DroMel_CAF1
Location	23,297,303 – 23,297,408
Length	105
Max. P	0.938189

overview

Window 6

Location	23,297,303 – 23,297,408
Length	105
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	80.52
Mean single sequence MFE	-30.67
Consensus MFE	-17.24
Energy contribution	-17.35
Covariance contribution	0.11
Combinations/Pair	1.13
Mean z-score	-2.55
Structure conservation index	0.56
SVM decision value	0.86
SVM RNA-class probability	0.867753
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23297303 105 + 27905053
AAUCGCAAAUCCCAGGGAGCUAGUGCCAGCCUUAAAUGUAGUUUAAUUGUGGUAUACUACUUGCGGCU-UUUACCAGCCGCAAAUGAUCAUUUUAAUGCCGCAAAU
.............((((.((....))...)))).............(((((((((.....((((((((-......)))))))).(((.....)))))))))))).. ( -27.10)
>DroPse_CAF1 99049 102 + 1
AAUCCUAAAUGCGGCAUGUCCAGGGCAAUCCUUAAAUGCAGUUUAAGUGUUGUU---UACCUGCGGCU-UUUGGCAGCCGCAAAUGAUCCUUUUAAUGCCGCAAAU
.........((((((((....(((((((..(((((((...)))))))..)))).---....(((((((-......)))))))......)))....))))))))... ( -37.10)
>DroSec_CAF1 94885 105 + 1
AAUCGCAAAUCCCAGUGAGAUUGUGCCAGCCUUAAAUGUAGUUUAAGUGUGGUCUACUACUUGCGGCU-UUUGCCAGCCGCAAAUGAUCAUUUUAAUGCCGCAAAU
..((((........))))(((..(((((..(((((((...)))))))..)))).......((((((((-......)))))))))..)))................. ( -27.50)
>DroEre_CAF1 100440 105 + 1
AAUCGCAAAUCCCAGGGCGCCAGUGCCAGCCUUAAAUGUAGUUUAAGUGUGGUCUACUACUUGCGGCA-UUUGCCCGCCGCAAAUGAUCAUUUUAGUGCCGCAAAU
...............(((((.(((((((..(((((((...)))))))..))))..)))..(((((((.-.......)))))))............)))))...... ( -29.90)
>DroAna_CAF1 90897 97 + 1
AAUCCAAAAUCUGAGGC------UGGAAUCCUUAAAUGUAGUUUAAGUGUGGCC---CAUUUGCGGCUUUUUGCCAGCCGCAAAUUAUCCUUUAAAUGCCACAAAU
..((((...........------))))...(((((((...)))))))((((((.---..(((((((((.......)))))))))(((.....)))..))))))... ( -25.70)
>DroPer_CAF1 99484 102 + 1
AAUCCUAAAUGCGGCGUGUCCAGGGCAAUCCUUAAAUGCAGUUUAAGUGUUGUU---UACCUGCGGCU-UUUGGCAGCCGCAAAUGAUCCUUUUAAUGCCGCAAAU
.........((((((((....(((((((..(((((((...)))))))..)))).---....(((((((-......)))))))......)))....))))))))... ( -36.70)
>consensus
AAUCCCAAAUCCCAGGGAGCCAGUGCAAGCCUUAAAUGUAGUUUAAGUGUGGUC___UACUUGCGGCU_UUUGCCAGCCGCAAAUGAUCAUUUUAAUGCCGCAAAU
..............................(((((((...)))))))((((((........(((((((.......)))))))..(((.....)))..))))))... (-17.24 = -17.35 +   0.11)

alignment

secondary structure

dotplot

Window 7

Location	23,297,303 – 23,297,408
Length	105
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	80.52
Mean single sequence MFE	-32.48
Consensus MFE	-19.40
Energy contribution	-19.10
Covariance contribution	-0.30
Combinations/Pair	1.17
Mean z-score	-2.89
Structure conservation index	0.60
SVM decision value	1.29
SVM RNA-class probability	0.938189
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23297303 105 - 27905053
AUUUGCGGCAUUAAAAUGAUCAUUUGCGGCUGGUAAA-AGCCGCAAGUAGUAUACCACAAUUAAACUACAUUUAAGGCUGGCACUAGCUCCCUGGGAUUUGCGAUU
.....((((.(((((........((((((((......-))))))))(((((.((.......)).))))).))))).))))(((((((....))))....))).... ( -28.40)
>DroPse_CAF1 99049 102 - 1
AUUUGCGGCAUUAAAAGGAUCAUUUGCGGCUGCCAAA-AGCCGCAGGUA---AACAACACUUAAACUGCAUUUAAGGAUUGCCCUGGACAUGCCGCAUUUAGGAUU
...((((((((....(((...((((((((((......-)))))))))).---..(((..((((((.....))))))..))).)))....))))))))......... ( -38.00)
>DroSec_CAF1 94885 105 - 1
AUUUGCGGCAUUAAAAUGAUCAUUUGCGGCUGGCAAA-AGCCGCAAGUAGUAGACCACACUUAAACUACAUUUAAGGCUGGCACAAUCUCACUGGGAUUUGCGAUU
.....((((.(((((......((((((((((......-)))))))))).((((............)))).))))).))))(((.(((((.....)))))))).... ( -32.20)
>DroEre_CAF1 100440 105 - 1
AUUUGCGGCACUAAAAUGAUCAUUUGCGGCGGGCAAA-UGCCGCAAGUAGUAGACCACACUUAAACUACAUUUAAGGCUGGCACUGGCGCCCUGGGAUUUGCGAUU
(((((((((.(......)...((((((.....)))))-)))))))))).(((((((.((((((((.....))))))...(((......))).)))).))))).... ( -30.00)
>DroAna_CAF1 90897 97 - 1
AUUUGUGGCAUUUAAAGGAUAAUUUGCGGCUGGCAAAAAGCCGCAAAUG---GGCCACACUUAAACUACAUUUAAGGAUUCCA------GCCUCAGAUUUUGGAUU
(((((.(((.......((...((((((((((.......)))))))))).---..))...((((((.....)))))).......------))).)))))........ ( -31.20)
>DroPer_CAF1 99484 102 - 1
AUUUGCGGCAUUAAAAGGAUCAUUUGCGGCUGCCAAA-AGCCGCAGGUA---AACAACACUUAAACUGCAUUUAAGGAUUGCCCUGGACACGCCGCAUUUAGGAUU
...((((((......(((...((((((((((......-)))))))))).---..(((..((((((.....))))))..))).)))......))))))......... ( -35.10)
>consensus
AUUUGCGGCAUUAAAAGGAUCAUUUGCGGCUGGCAAA_AGCCGCAAGUA___GACCACACUUAAACUACAUUUAAGGAUGGCACUGGCCCCCUCGGAUUUGCGAUU
.................((((((((((((((.......))))))))))......(((..((((((.....))))))..))).....................)))) (-19.40 = -19.10 +  -0.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:17:56 2006