Locus 8639

Sequence ID	3L_DroMel_CAF1
Location	22,437,987 – 22,438,107
Length	120
Max. P	0.977094

overview

Window 6

Location	22,437,987 – 22,438,107
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	92.08
Mean single sequence MFE	-44.06
Consensus MFE	-37.92
Energy contribution	-38.17
Covariance contribution	0.25
Combinations/Pair	1.09
Mean z-score	-2.60
Structure conservation index	0.86
SVM decision value	1.78
SVM RNA-class probability	0.977094
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22437987 120 + 23771897
UGAGGCUCAGGCUAACGUUCUCACACGGCGAUAUGGGCGACUCAUAAAAGGAGAUCAGCAGCUCCACACUGGGCAGUCGUCUCCACCAAAGCCAGUAGGGUACGUCGGCACUGAGCCAAA
...(((((((((..((((.(((((..(((..((((((...))))))...((((((..((.((((......)))).)).))))))......))).)).))).))))..)).)))))))... ( -49.50)
>DroSec_CAF1 9868 120 + 1
UGAGGCUCAGGCUAACGUUUUCACACGCCGAUAUGGGCGACUCAUAAAAGGAGAUCAGCAUCUCCACACUGGGCAGUCGUCUCCACCAAAGCCAGUAGGGCACGUCGGCACUGAGCCAAA
...(((((((((....))........((((((..(((((((((......((((((....)))))).......).))))))))........(((.....)))..)))))).)))))))... ( -47.22)
>DroEre_CAF1 15736 120 + 1
UGAGGCUCAGGCUAACGUUCAGGCACGGCGAAAUGGGCGACUCAUAAAAGGAGAUCAGCAACUCCAAACUGGGCCGUCGUCUCCACCACAGCCAGUAGGGCAUGUCGGCCCUGAGCCAAA
...(((((.((((...((..(((((((((...(((((...)))))....((((........)))).......))))).))))..))...))))...(((((......))))))))))... ( -45.70)
>DroYak_CAF1 54543 120 + 1
UGAGACUCAGGCUAACAUUCUCACACGGCGAAAUGGGCGACUCAUAAAAGGAGAUCAGCAACUCCAAACCAGGCCGUCGUCUCCACCAAAGCCAGUAGGGCACGUCGGCCCUGAGCCAAA
...(.(((((((..((......(((((((...(((((...)))))....((((........)))).......))))).))..........(((.....)))..))..).)))))).)... ( -33.80)
>consensus
UGAGGCUCAGGCUAACGUUCUCACACGGCGAAAUGGGCGACUCAUAAAAGGAGAUCAGCAACUCCAAACUGGGCAGUCGUCUCCACCAAAGCCAGUAGGGCACGUCGGCACUGAGCCAAA
...(((((((((..((((((..((..(((.....(((((((((......((((........))))......))..)))))))........))).))..)).))))..)).)))))))... (-37.92 = -38.17 +   0.25)

alignment

secondary structure

dotplot

Window 7

Location	22,437,987 – 22,438,107
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.08
Mean single sequence MFE	-44.97
Consensus MFE	-39.09
Energy contribution	-39.40
Covariance contribution	0.31
Combinations/Pair	1.11
Mean z-score	-1.41
Structure conservation index	0.87
SVM decision value	0.05
SVM RNA-class probability	0.560664
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22437987 120 - 23771897
UUUGGCUCAGUGCCGACGUACCCUACUGGCUUUGGUGGAGACGACUGCCCAGUGUGGAGCUGCUGAUCUCCUUUUAUGAGUCGCCCAUAUCGCCGUGUGAGAACGUUAGCCUGAGCCUCA
...(((((((.((..((((.(..(((((((...((..(......)..))..((((((.((.(((.((........)).))).)))))))).)))).))).).))))..)))))))))... ( -45.70)
>DroSec_CAF1 9868 120 - 1
UUUGGCUCAGUGCCGACGUGCCCUACUGGCUUUGGUGGAGACGACUGCCCAGUGUGGAGAUGCUGAUCUCCUUUUAUGAGUCGCCCAUAUCGGCGUGUGAAAACGUUAGCCUGAGCCUCA
...(((((((.((..((((....(((..(((...((((.(.(((((...((....((((((....)))))).....))))))))))))...)))..)))...))))..)))))))))... ( -47.40)
>DroEre_CAF1 15736 120 - 1
UUUGGCUCAGGGCCGACAUGCCCUACUGGCUGUGGUGGAGACGACGGCCCAGUUUGGAGUUGCUGAUCUCCUUUUAUGAGUCGCCCAUUUCGCCGUGCCUGAACGUUAGCCUGAGCCUCA
...((((((((((......)))))...(((((.(((((((....((((.((....((((........)))).....)).))))....)))))))((......))..))))).)))))... ( -43.80)
>DroYak_CAF1 54543 120 - 1
UUUGGCUCAGGGCCGACGUGCCCUACUGGCUUUGGUGGAGACGACGGCCUGGUUUGGAGUUGCUGAUCUCCUUUUAUGAGUCGCCCAUUUCGCCGUGUGAGAAUGUUAGCCUGAGUCUCA
...((((((((.(..((((..(.(((((((...(((((.(.((((..(.(((...((((........))))..))).).))))))))))..)))).))).).))))..)))))))))... ( -43.00)
>consensus
UUUGGCUCAGGGCCGACGUGCCCUACUGGCUUUGGUGGAGACGACGGCCCAGUGUGGAGUUGCUGAUCUCCUUUUAUGAGUCGCCCAUAUCGCCGUGUGAGAACGUUAGCCUGAGCCUCA
...(((((((.((..((((....(((.(((...(((((.(.((((....((....((((........)))).....)).))))))))))..)))))).....))))..)))))))))... (-39.09 = -39.40 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:21:05 2006