Locus 4947

Sequence ID	3L_DroMel_CAF1
Location	13,702,861 – 13,702,954
Length	93
Max. P	0.910069

overview

Window 0

Location	13,702,861 – 13,702,954
Length	93
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	92.22
Mean single sequence MFE	-14.80
Consensus MFE	-12.40
Energy contribution	-12.35
Covariance contribution	-0.05
Combinations/Pair	1.06
Mean z-score	-2.28
Structure conservation index	0.84
SVM decision value	0.94
SVM RNA-class probability	0.886063
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13702861 93 + 23771897
UACGCAGUUGUAACCCGGCCGCACUCACUAAUAGUUCUAAUUGCAAAAAGCAAUUAAAACUUUCGCCAACUCCAAGAUGCACAUACCCACAGC
...(((.(((......(((.............((((.(((((((.....))))))).))))...))).....)))..)))............. ( -14.89)
>DroPse_CAF1 100103 88 + 1
AACGCAGUUGUAACCCGGCCACACUCACUAAUAGUUCUAAUUGCAAAAAGCAAUUAAAACUUUCACCAACUC-AAGAUGCACACAUCCA----
...(.(((((......(....)..........((((.(((((((.....))))))).)))).....))))))-..((((....))))..---- ( -14.00)
>DroSec_CAF1 110077 93 + 1
UACGCAGUUGUAACCCGGCCACACUCACUAAUAGUUCUAAUUGCAAAAAGCAAUUAAAACUUUCGCCAACUCCAAGAUGCACAUACCCACAGA
...(((.(((......(((.............((((.(((((((.....))))))).))))...))).....)))..)))............. ( -14.89)
>DroYak_CAF1 119785 93 + 1
UACGCAGUUGUAACCCGGCCACACUCACUAAUAGUUCUAAUUGCAAAAAGCAAUUAAAACUUUCACCAACUCCAAGAUGCACAUACCCACAGC
...(((((((.....)))).............((((.(((((((.....))))))).))))................)))............. ( -13.20)
>DroAna_CAF1 166334 92 + 1
UACGCAUUUGUAACCCGGCCGCACUUACUAAUAGUUCUAAUUGCAAAAAGCAAUUAAAACUUUCGCCAACUCCAAGAUGCACAUAUACCCGG-
...((((((.......(((.............((((.(((((((.....))))))).))))...))).......))))))............- ( -17.83)
>DroPer_CAF1 101545 88 + 1
AACGCAGUUGUAACCCGGCCACACUCACUAAUAGUUCUAAUUGCAAAAAGCAAUUAAAACUUUCACCAACUC-AAGAUGCACACAUCCA----
...(.(((((......(....)..........((((.(((((((.....))))))).)))).....))))))-..((((....))))..---- ( -14.00)
>consensus
UACGCAGUUGUAACCCGGCCACACUCACUAAUAGUUCUAAUUGCAAAAAGCAAUUAAAACUUUCACCAACUCCAAGAUGCACAUACCCACAG_
...(((((.((......)).))..........((((.(((((((.....))))))).))))................)))............. (-12.40 = -12.35 +  -0.05)

alignment

secondary structure

dotplot

Window 1

Location	13,702,861 – 13,702,954
Length	93
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	92.22
Mean single sequence MFE	-25.13
Consensus MFE	-22.00
Energy contribution	-21.75
Covariance contribution	-0.25
Combinations/Pair	1.04
Mean z-score	-1.85
Structure conservation index	0.88
SVM decision value	1.07
SVM RNA-class probability	0.910069
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13702861 93 - 23771897
GCUGUGGGUAUGUGCAUCUUGGAGUUGGCGAAAGUUUUAAUUGCUUUUUGCAAUUAGAACUAUUAGUGAGUGCGGCCGGGUUACAACUGCGUA
...(..(...((((...(((((.(((.((...((((((((((((.....))))))))))))....)).)..))..))))).)))).)..)... ( -25.80)
>DroPse_CAF1 100103 88 - 1
----UGGAUGUGUGCAUCUU-GAGUUGGUGAAAGUUUUAAUUGCUUUUUGCAAUUAGAACUAUUAGUGAGUGUGGCCGGGUUACAACUGCGUU
----.(((((....))))).-.......(((.((((((((((((.....)))))))))))).)))(((..((((((...))))))..)))... ( -23.70)
>DroSec_CAF1 110077 93 - 1
UCUGUGGGUAUGUGCAUCUUGGAGUUGGCGAAAGUUUUAAUUGCUUUUUGCAAUUAGAACUAUUAGUGAGUGUGGCCGGGUUACAACUGCGUA
...(..(...((((...(((((.(((.((...((((((((((((.....))))))))))))....)).)))....))))).)))).)..)... ( -25.00)
>DroYak_CAF1 119785 93 - 1
GCUGUGGGUAUGUGCAUCUUGGAGUUGGUGAAAGUUUUAAUUGCUUUUUGCAAUUAGAACUAUUAGUGAGUGUGGCCGGGUUACAACUGCGUA
...(..(...((((...((((((.(((.(((.((((((((((((.....)))))))))))).))).))).)....))))).)))).)..)... ( -25.20)
>DroAna_CAF1 166334 92 - 1
-CCGGGUAUAUGUGCAUCUUGGAGUUGGCGAAAGUUUUAAUUGCUUUUUGCAAUUAGAACUAUUAGUAAGUGCGGCCGGGUUACAAAUGCGUA
-....((((.((((...(((((.((..((...((((((((((((.....))))))))))))....))....))..))))).)))).))))... ( -27.40)
>DroPer_CAF1 101545 88 - 1
----UGGAUGUGUGCAUCUU-GAGUUGGUGAAAGUUUUAAUUGCUUUUUGCAAUUAGAACUAUUAGUGAGUGUGGCCGGGUUACAACUGCGUU
----.(((((....))))).-.......(((.((((((((((((.....)))))))))))).)))(((..((((((...))))))..)))... ( -23.70)
>consensus
_CUGUGGAUAUGUGCAUCUUGGAGUUGGCGAAAGUUUUAAUUGCUUUUUGCAAUUAGAACUAUUAGUGAGUGUGGCCGGGUUACAACUGCGUA
.............(((.....((.(((((...((((((((((((.....))))))))))))(((....)))...))))).)).....)))... (-22.00 = -21.75 +  -0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:42 2006