Locus 4690

Sequence ID	3L_DroMel_CAF1
Location	13,230,139 – 13,230,250
Length	111
Max. P	0.731476

overview

Window 9

Location	13,230,139 – 13,230,250
Length	111
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	84.10
Mean single sequence MFE	-30.33
Consensus MFE	-23.47
Energy contribution	-23.47
Covariance contribution	0.00
Combinations/Pair	1.12
Mean z-score	-2.13
Structure conservation index	0.77
SVM decision value	0.43
SVM RNA-class probability	0.731476
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13230139 111 + 23771897
UUAU-UUUAUGCUGUUAAAUAAACUUUUAAGCCAGCCCUCGUUUACUGGCAGCCAGGCUGUCAUCUUGAACAUGCAACAUGACCGCAGCUCUGAGGCAACAACUGUUGCCGC
....-.....(((.(((((......)))))(((((..........))))))))(((((((((((.(((......))).)))...))))).))).((((((....)))))).. ( -31.70)
>DroSec_CAF1 23541 110 + 1
CUCUAGUUUUGCAGCUUUAUAAACUUUAAAGUCAGCCCUCGUUUUCUGGCAGCCAGGCUGUCAUCUUGAACAUGCAACAUGACCGCAGCUCUGAGGCAACAACUGUUGCC--
(((.((..((((.((((((.......))))))..((....((((..(((((((...)))))))....))))..)).........))))..)))))(((((....))))).-- ( -28.30)
>DroSim_CAF1 28459 110 + 1
CUCUAGUUUUGCAGUUUUAUAAACUUUAAAGUCAGCCCUCGUUUUCUGGCAGCCAGGCUGUCAUCUUGAACAUGCAACAUGACCGCAGCUCUGAGGCAACAACUGUUGCC--
(((.((..((((((((.....)))).....((((.....(((.((((((((((...)))))))....))).))).....)))).))))..)))))(((((....))))).-- ( -28.20)
>DroEre_CAF1 13048 101 + 1
U---------UCAGCUCCAUAAACUUUUAAGCCAGCCCUCGUUUUCUGGCAGCCAGGCUGUCAUCUUGAACAUGCAACAUGACCGCAACUCUGAGGCAACAACUGUUGCC--
.---------((((................(((((..........)))))......((.(((((.(((......))).))))).))....))))((((((....))))))-- ( -27.80)
>DroYak_CAF1 23513 108 + 1
U-CU-UUCUAGCUGCUCUAUAAACUUUUAAGCCAACCCUCGUUUUCUGGCAGCCAGGCUGUCAUCUUGAACAUGCAACAUGACCGCAGCUCUGAGGCAACAACUGUUGCC--
.-..-.((.((((((..............((((....((.(((....)))))...))))(((((.(((......))).))))).))))))..))((((((....))))))-- ( -30.10)
>DroAna_CAF1 110207 104 + 1
------CCAGGUAGCUUUCAGAACUCUGGAGGCGACCCUCUUUCCUCGGCAGUCAGGCUGUCAUCUUCAACAUGCAACAUGACCGCAGCUCUGAGGCAACAACUGUUGCC--
------...(((.((((((((....)))))))).))).......(((((.(((...((.(((((.(((.....).)).))))).)).))))))))(((((....))))).-- ( -35.90)
>consensus
U_CU__UUUUGCAGCUUUAUAAACUUUUAAGCCAGCCCUCGUUUUCUGGCAGCCAGGCUGUCAUCUUGAACAUGCAACAUGACCGCAGCUCUGAGGCAACAACUGUUGCC__
..............................(((((..........)))))...(((((((((((.(((......))).)))...))))).))).((((((....)))))).. (-23.47 = -23.47 +   0.00)

alignment

secondary structure

dotplot

Window 0

Location	13,230,139 – 13,230,250
Length	111
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	84.10
Mean single sequence MFE	-33.93
Consensus MFE	-28.42
Energy contribution	-27.87
Covariance contribution	-0.55
Combinations/Pair	1.14
Mean z-score	-1.61
Structure conservation index	0.84
SVM decision value	0.23
SVM RNA-class probability	0.642905
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13230139 111 - 23771897
GCGGCAACAGUUGUUGCCUCAGAGCUGCGGUCAUGUUGCAUGUUCAAGAUGACAGCCUGGCUGCCAGUAAACGAGGGCUGGCUUAAAAGUUUAUUUAACAGCAUAAA-AUAA
..((((((....)))))).(((.(((...(((((.(((......))).)))))))))))(((((((((........))))))......(((.....)))))).....-.... ( -35.70)
>DroSec_CAF1 23541 110 - 1
--GGCAACAGUUGUUGCCUCAGAGCUGCGGUCAUGUUGCAUGUUCAAGAUGACAGCCUGGCUGCCAGAAAACGAGGGCUGACUUUAAAGUUUAUAAAGCUGCAAAACUAGAG
--((((((....))))))....(((((((((((.(((((((.......))).)))).)))))))....((((.((((....))))...))))....))))............ ( -30.90)
>DroSim_CAF1 28459 110 - 1
--GGCAACAGUUGUUGCCUCAGAGCUGCGGUCAUGUUGCAUGUUCAAGAUGACAGCCUGGCUGCCAGAAAACGAGGGCUGACUUUAAAGUUUAUAAAACUGCAAAACUAGAG
--((((((....)))))).(((..(((((((((.(((((((.......))).)))).)))))).))).((((.((((....))))...))))......)))........... ( -29.40)
>DroEre_CAF1 13048 101 - 1
--GGCAACAGUUGUUGCCUCAGAGUUGCGGUCAUGUUGCAUGUUCAAGAUGACAGCCUGGCUGCCAGAAAACGAGGGCUGGCUUAAAAGUUUAUGGAGCUGA---------A
--((((((....))))))((((((((((.(((((.(((......))).))))).))..))))(((((..........)))))................))))---------. ( -31.60)
>DroYak_CAF1 23513 108 - 1
--GGCAACAGUUGUUGCCUCAGAGCUGCGGUCAUGUUGCAUGUUCAAGAUGACAGCCUGGCUGCCAGAAAACGAGGGUUGGCUUAAAAGUUUAUAGAGCAGCUAGAA-AG-A
--((((((....))))))....(((((((((((.(((((((.......))).)))).)))))(((((..........)))))...............))))))....-..-. ( -35.10)
>DroAna_CAF1 110207 104 - 1
--GGCAACAGUUGUUGCCUCAGAGCUGCGGUCAUGUUGCAUGUUGAAGAUGACAGCCUGACUGCCGAGGAAAGAGGGUCGCCUCCAGAGUUCUGAAAGCUACCUGG------
--((((((....))))))(((((((((((((((.(((((((.......))).)))).))))))).((((...(.....).))))...))))))))...........------ ( -40.90)
>consensus
__GGCAACAGUUGUUGCCUCAGAGCUGCGGUCAUGUUGCAUGUUCAAGAUGACAGCCUGGCUGCCAGAAAACGAGGGCUGGCUUAAAAGUUUAUAAAGCUGCAAAA__AG_A
..((((((....))))))...((((((((((((.(((((((.......))).)))).)))))))........(((......)))...))))).................... (-28.42 = -27.87 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:51 2006