Locus 9447

Sequence ID	3R_DroMel_CAF1
Location	25,018,254 – 25,018,349
Length	95
Max. P	0.967583

overview

Window 8

Location	25,018,254 – 25,018,349
Length	95
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	76.42
Mean single sequence MFE	-28.84
Consensus MFE	-14.08
Energy contribution	-15.96
Covariance contribution	1.88
Combinations/Pair	1.05
Mean z-score	-1.97
Structure conservation index	0.49
SVM decision value	0.60
SVM RNA-class probability	0.796587
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25018254 95 + 27905053
UGCGAUUUCGAUGGCAAAUGAUUUUGCAUUUGCCUGAGCGGUGGCGU--GGGGCUGUGGGGUGGAUAUGGCGUAUAGGGCGGCAAAUCGAAGCAUAA
(((...((((((((((((((......))))))))......((.((.(--.(.((((((.......)))))).)...).)).))..)))))))))... ( -29.20)
>DroSec_CAF1 39434 96 + 1
UGCGAUUUCGAUGGCAAAUGAUUUUGCAUUUGCCUGAGCUGUGGAGUGUGGGGCUG-GGGGUGGAUUUGGCCCAUAGGGCGGCAAAUCGAAGCAUAA
(((...((((((((((((((......))))))))...(((((....((((((.(..-((......))..)))))))..)))))..)))))))))... ( -35.00)
>DroSim_CAF1 33571 94 + 1
UGCGAUUUCGAUGGCAAAUGAUUUUGCAUUUGCCGGAGGGGUGGAGU--GGGCCUG-GGUGUGGAUUUGGCCUAUAGGGCGGCAAAUCGAAGCAUAA
(((.((..(..(((((((((......)))))))))..)..))...((--.(.((((-(((.........))))..))).).))........)))... ( -30.60)
>DroEre_CAF1 41447 91 + 1
UGCGAUUUCGAUGGCAAAUGAUUUUGCAGUUGCCUGAAGAGCGGAGA--GGGUAUGGGGGGCG----UGGUCUGUGGGGCGGCAAAUCGAAGCAUAA
(((...((((((.(((((....))))).(((((((.....(((((..--(.((.......)).----)..))))).)))))))..)))))))))... ( -27.90)
>DroAna_CAF1 44282 79 + 1
UGCGAUUUGGAUGGCAAAUGAUUUUGCAGUUGCAA--GGAACGGGCG-----GU---UGCACGGAU--------CAGGGCGGUAAAUGGUAGCAUAA
(((.(((...((.((...(((((((((((..((..--.......)).-----.)---)))).))))--------))..)).))....))).)))... ( -21.50)
>consensus
UGCGAUUUCGAUGGCAAAUGAUUUUGCAUUUGCCUGAGGAGUGGAGU__GGGGCUG_GGGGUGGAU_UGGCCUAUAGGGCGGCAAAUCGAAGCAUAA
(((....(((((((((((((......))))))))...................................(((.....))).....))))).)))... (-14.08 = -15.96 +   1.88)

alignment

secondary structure

dotplot

Window 9

Location	25,018,254 – 25,018,349
Length	95
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	76.42
Mean single sequence MFE	-17.10
Consensus MFE	-10.68
Energy contribution	-12.88
Covariance contribution	2.20
Combinations/Pair	1.00
Mean z-score	-2.14
Structure conservation index	0.62
SVM decision value	1.61
SVM RNA-class probability	0.967583
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25018254 95 - 27905053
UUAUGCUUCGAUUUGCCGCCCUAUACGCCAUAUCCACCCCACAGCCCC--ACGCCACCGCUCAGGCAAAUGCAAAAUCAUUUGCCAUCGAAAUCGCA
...(((((((((..((.((.......))...............((...--..))....))...((((((((......))))))))))))))...))) ( -17.20)
>DroSec_CAF1 39434 96 - 1
UUAUGCUUCGAUUUGCCGCCCUAUGGGCCAAAUCCACCCC-CAGCCCCACACUCCACAGCUCAGGCAAAUGCAAAAUCAUUUGCCAUCGAAAUCGCA
...((((((((((((..((((...))))))))))......-......................((((((((......))))))))...)))...))) ( -23.10)
>DroSim_CAF1 33571 94 - 1
UUAUGCUUCGAUUUGCCGCCCUAUAGGCCAAAUCCACACC-CAGGCCC--ACUCCACCCCUCCGGCAAAUGCAAAAUCAUUUGCCAUCGAAAUCGCA
...(((((((((.............((((...........-..)))).--.............((((((((......))))))))))))))...))) ( -22.72)
>DroEre_CAF1 41447 91 - 1
UUAUGCUUCGAUUUGCCGCCCCACAGACCA----CGCCCCCCAUACCC--UCUCCGCUCUUCAGGCAACUGCAAAAUCAUUUGCCAUCGAAAUCGCA
...((((((((((((((.............----..............--.............)))))..(((((....))))).))))))...))) ( -13.00)
>DroAna_CAF1 44282 79 - 1
UUAUGCUACCAUUUACCGCCCUG--------AUCCGUGCA---AC-----CGCCCGUUCC--UUGCAACUGCAAAAUCAUUUGCCAUCCAAAUCGCA
...(((...........((...(--------(..((.((.---..-----.)).)).)).--..))....(((((....)))))..........))) (  -9.50)
>consensus
UUAUGCUUCGAUUUGCCGCCCUAUAGGCCA_AUCCACCCC_CAGCCCC__ACUCCACCCCUCAGGCAAAUGCAAAAUCAUUUGCCAUCGAAAUCGCA
...(((((((((.....(((.....)))...................................((((((((......))))))))))))))...))) (-10.68 = -12.88 +   2.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:34:51 2006