Locus 8278

Sequence ID	X_DroMel_CAF1
Location	20,586,162 – 20,586,254
Length	92
Max. P	0.970651

overview

Window 4

Location	20,586,162 – 20,586,254
Length	92
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	78.39
Mean single sequence MFE	-23.75
Consensus MFE	-20.37
Energy contribution	-20.70
Covariance contribution	0.33
Combinations/Pair	1.05
Mean z-score	-2.12
Structure conservation index	0.86
SVM decision value	1.51
SVM RNA-class probability	0.960481
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20586162 92 + 22224390
----CUAGUACUCACCUAUCACAUUUAUAAGGGCGAGCAGCUCACACACGUAAUAUCUGUACGCCCACCAAUUGUGAUAUCUGCAAACG-AAAUCGC---------------
----...((...((..(((((((.......(((((.((((...((....)).....)))).)))))......)))))))..))...)).-.......--------------- ( -21.32)
>DroVir_CAF1 204851 90 + 1
GUGGCUGUUACUCACCUAUCACAUUUAUUAGGGCGAGCAGUUCACACACGUAGUAUCUGUACGCCCACCAAUUGUGAUAUCUAAAAUG--AG--------------------
((((.......)))).(((((((.......(((((.((((..(((....)).)...)))).)))))......))))))).........--..-------------------- ( -22.52)
>DroGri_CAF1 184684 90 + 1
-----UGCUACUCACCUAUCACAUUUAUUAGGGCGAGCAGUUCACACACGUAAUAUCUGUAGGCCCACCAAUUGUGAUAUCUGAAACA--AAGUUUG---------------
-----......(((..(((((((.......((((..((((...((....)).....))))..))))......)))))))..)))....--.......--------------- ( -20.32)
>DroMoj_CAF1 254499 90 + 1
CUGG--GUUACUCACCUAUCACAUUUAUCAGGGCGAGCAGCUCACACACGUAGUAUCUGUACGCCCACCAAUUGUGAUAUCUGGAAUUGCAG--------------------
(((.--(....(((..(((((((.......(((((.((((..(((....)).)...)))).)))))......)))))))..)))...).)))-------------------- ( -23.92)
>DroAna_CAF1 162919 99 + 1
ACAAAUACCACUCACCUAUCACAUUUAUAAGGGCGAGCAGCUCACACACGUAAUAUCUGUACGCCCACCAAUUGUGAUAUCUGGAAAUG-GAAAUGGAAA------------
.......(((.(((..(((((((.......(((((.((((...((....)).....)))).)))))......)))))))..)))...))-).........------------ ( -24.32)
>DroPer_CAF1 189261 107 + 1
----CUGCUACUCACCUAUCACAUUUAUAAGGGCGAGCAGCUCACACACGUAAUAUCUGUACGCCCACCAAUUGUGAUAUCUGGAAGAG-AAAAGGGAAAAGUAGGAGGAAA
----((.(((((..(((((((((.......(((((.((((...((....)).....)))).)))))......)))))).(((.....))-)..)))....))))).)).... ( -30.12)
>consensus
____CUGCUACUCACCUAUCACAUUUAUAAGGGCGAGCAGCUCACACACGUAAUAUCUGUACGCCCACCAAUUGUGAUAUCUGGAAAAG_AAA__GG_______________
...........(((..(((((((.......(((((.((((...((....)).....)))).)))))......)))))))..)))............................ (-20.37 = -20.70 +   0.33)

alignment

secondary structure

dotplot

Window 5

Location	20,586,162 – 20,586,254
Length	92
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	78.39
Mean single sequence MFE	-29.27
Consensus MFE	-25.19
Energy contribution	-25.55
Covariance contribution	0.36
Combinations/Pair	1.04
Mean z-score	-2.44
Structure conservation index	0.86
SVM decision value	1.66
SVM RNA-class probability	0.970651
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20586162 92 - 22224390
---------------GCGAUUU-CGUUUGCAGAUAUCACAAUUGGUGGGCGUACAGAUAUUACGUGUGUGAGCUGCUCGCCCUUAUAAAUGUGAUAGGUGAGUACUAG----
---------------(((....-)))(..(...(((((((.(((..(((((..(((...((((....)))).)))..)))))...))).))))))).)..).......---- ( -29.60)
>DroVir_CAF1 204851 90 - 1
--------------------CU--CAUUUUAGAUAUCACAAUUGGUGGGCGUACAGAUACUACGUGUGUGAACUGCUCGCCCUAAUAAAUGUGAUAGGUGAGUAACAGCCAC
--------------------((--((((.....(((((((.(((..(((((..(((((((.....))))...)))..)))))...))).))))))))))))).......... ( -28.00)
>DroGri_CAF1 184684 90 - 1
---------------CAAACUU--UGUUUCAGAUAUCACAAUUGGUGGGCCUACAGAUAUUACGUGUGUGAACUGCUCGCCCUAAUAAAUGUGAUAGGUGAGUAGCA-----
---------------.......--(((((((..(((((((.(((..((((...(((...((((....)))).)))...))))...))).)))))))..)))..))))----- ( -23.80)
>DroMoj_CAF1 254499 90 - 1
--------------------CUGCAAUUCCAGAUAUCACAAUUGGUGGGCGUACAGAUACUACGUGUGUGAGCUGCUCGCCCUGAUAAAUGUGAUAGGUGAGUAAC--CCAG
--------------------(((......))).(((((((.(((..(((((..(((((((.....))))...)))..)))))...))).)))))))(((.....))--)... ( -27.40)
>DroAna_CAF1 162919 99 - 1
------------UUUCCAUUUC-CAUUUCCAGAUAUCACAAUUGGUGGGCGUACAGAUAUUACGUGUGUGAGCUGCUCGCCCUUAUAAAUGUGAUAGGUGAGUGGUAUUUGU
------------....((..((-((((..(...(((((((.(((..(((((..(((...((((....)))).)))..)))))...))).))))))).)..))))).)..)). ( -33.50)
>DroPer_CAF1 189261 107 - 1
UUUCCUCCUACUUUUCCCUUUU-CUCUUCCAGAUAUCACAAUUGGUGGGCGUACAGAUAUUACGUGUGUGAGCUGCUCGCCCUUAUAAAUGUGAUAGGUGAGUAGCAG----
....((.((((((..((....(-((.....)))(((((((.(((..(((((..(((...((((....)))).)))..)))))...))).))))))))).)))))).))---- ( -33.30)
>consensus
_______________CC__UUU_CAAUUCCAGAUAUCACAAUUGGUGGGCGUACAGAUAUUACGUGUGUGAGCUGCUCGCCCUUAUAAAUGUGAUAGGUGAGUAGCAG____
.............................((..(((((((.(((..(((((..(((...((((....)))).)))..)))))...))).)))))))..))............ (-25.19 = -25.55 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:00:00 2006