Locus 5264

Sequence ID	3L_DroMel_CAF1
Location	14,537,750 – 14,537,842
Length	92
Max. P	0.800461

overview

Window 5

Location	14,537,750 – 14,537,842
Length	92
Sequences	6
Columns	92
Reading direction	forward
Mean pairwise identity	82.46
Mean single sequence MFE	-30.65
Consensus MFE	-19.15
Energy contribution	-21.52
Covariance contribution	2.36
Combinations/Pair	1.11
Mean z-score	-2.38
Structure conservation index	0.62
SVM decision value	0.38
SVM RNA-class probability	0.713454
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14537750 92 + 23771897
GAACGGUAACCAUCGUGGGUCAUUUGCCCAGAAUGCGACCCGGCCCAGUGGCUUGGAAAAUGUAAAUUUCCAACGGCCAGCUAGGCCAUAAA
....(((...(((..(((((.....)))))..)))..))).((((.(((((((((((((.......))))))..))))).)).))))..... ( -34.40)
>DroPse_CAF1 13192 80 + 1
AAAGGGGAGCCACCGUGGGUCAUUUGCCCAGCCUGUGUCCCG-----AUGGAGGGCGAAAUGUAAAUUUCC-----CCAGCCA--CCAUAAA
....((..((..(((((((.(((..((...))..))).))).-----)))).(((.(((((....))))))-----)).))..--))..... ( -27.90)
>DroSec_CAF1 11934 92 + 1
GAACGGUAACCAUCGUGGGUCAUUUGCCCAGAAUGUGACCCUGCCCAGUGGCUUGGAAAAUGUAAAUUUCCAACGGCCAGCUAGGCCAUAAA
..(((((....)))))(((((((...........))))))).(((.(((((((((((((.......))))))..))))).)).)))...... ( -30.80)
>DroSim_CAF1 12369 92 + 1
GAACGGUAACCAUCGUGGGUCAUUUGCCCAGAAUGUGACCCUGCCCAGUGGCUUGGAAAAUGUAAAUUUCCAACGGCCAGCUAGGCCAUAAA
..(((((....)))))(((((((...........))))))).(((.(((((((((((((.......))))))..))))).)).)))...... ( -30.80)
>DroYak_CAF1 13168 92 + 1
GAACGGUAACCAUCGUGGGUCAUUUGCCCAGAAUGCGACCCGGCCCAGUGGCUUGGAAAAUGUAAAUUUCCACCGGCUAGCUAGGCCAUAAA
....(((...(((..(((((.....)))))..)))..))).((((.(((((((((((((.......))))))..))))).)).))))..... ( -32.10)
>DroPer_CAF1 16698 80 + 1
AAAGGGGAGCCACCGUGGGUCAUUUGCCCAGCCUGUGUCCCG-----AUGGAGGGCGAAAUGUAAAUUUCC-----CCAGCCA--CCAUAAA
....((..((..(((((((.(((..((...))..))).))).-----)))).(((.(((((....))))))-----)).))..--))..... ( -27.90)
>consensus
GAACGGUAACCAUCGUGGGUCAUUUGCCCAGAAUGUGACCCGGCCCAGUGGCUUGGAAAAUGUAAAUUUCCAACGGCCAGCUAGGCCAUAAA
....(((...(((..(((((.....)))))..)))..))).((((.(((((((((((((.......))))))..))))).)).))))..... (-19.15 = -21.52 +   2.36)

alignment

secondary structure

dotplot

Window 6

Location	14,537,750 – 14,537,842
Length	92
Sequences	6
Columns	92
Reading direction	reverse
Mean pairwise identity	82.46
Mean single sequence MFE	-32.90
Consensus MFE	-20.41
Energy contribution	-23.85
Covariance contribution	3.44
Combinations/Pair	1.04
Mean z-score	-2.75
Structure conservation index	0.62
SVM decision value	0.62
SVM RNA-class probability	0.800461
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14537750 92 - 23771897
UUUAUGGCCUAGCUGGCCGUUGGAAAUUUACAUUUUCCAAGCCACUGGGCCGGGUCGCAUUCUGGGCAAAUGACCCACGAUGGUUACCGUUC
....((((((((.((((..(((((((.......)))))))))))))))))))(((.(((((.(((((....).)))).))).)).))).... ( -38.30)
>DroPse_CAF1 13192 80 - 1
UUUAUGG--UGGCUGG-----GGAAAUUUACAUUUCGCCCUCCAU-----CGGGACACAGGCUGGGCAAAUGACCCACGGUGGCUCCCCUUU
.....((--(((..((-----((((((....))))).))).))))-----)(((((((..(.(((((....).))))).)))..)))).... ( -27.60)
>DroSec_CAF1 11934 92 - 1
UUUAUGGCCUAGCUGGCCGUUGGAAAUUUACAUUUUCCAAGCCACUGGGCAGGGUCACAUUCUGGGCAAAUGACCCACGAUGGUUACCGUUC
......((((((.((((..(((((((.......)))))))))))))))))..(((..((((.(((((....).)))).))))...))).... ( -35.80)
>DroSim_CAF1 12369 92 - 1
UUUAUGGCCUAGCUGGCCGUUGGAAAUUUACAUUUUCCAAGCCACUGGGCAGGGUCACAUUCUGGGCAAAUGACCCACGAUGGUUACCGUUC
......((((((.((((..(((((((.......)))))))))))))))))..(((..((((.(((((....).)))).))))...))).... ( -35.80)
>DroYak_CAF1 13168 92 - 1
UUUAUGGCCUAGCUAGCCGGUGGAAAUUUACAUUUUCCAAGCCACUGGGCCGGGUCGCAUUCUGGGCAAAUGACCCACGAUGGUUACCGUUC
....((((((((...((...((((((.......)))))).))..))))))))(((.(((((.(((((....).)))).))).)).))).... ( -32.30)
>DroPer_CAF1 16698 80 - 1
UUUAUGG--UGGCUGG-----GGAAAUUUACAUUUCGCCCUCCAU-----CGGGACACAGGCUGGGCAAAUGACCCACGGUGGCUCCCCUUU
.....((--(((..((-----((((((....))))).))).))))-----)(((((((..(.(((((....).))))).)))..)))).... ( -27.60)
>consensus
UUUAUGGCCUAGCUGGCCGUUGGAAAUUUACAUUUUCCAAGCCACUGGGCCGGGUCACAUUCUGGGCAAAUGACCCACGAUGGUUACCGUUC
.....(((((((.((((...((((((.......)))))).)))))))))))((....((((.(((((....).)))).))))....)).... (-20.41 = -23.85 +   3.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:45:52 2006