Locus 6852

Sequence ID	2L_DroMel_CAF1
Location	19,178,133 – 19,178,310
Length	177
Max. P	0.645844

overview

Window 5

Location	19,178,133 – 19,178,230
Length	97
Sequences	4
Columns	115
Reading direction	reverse
Mean pairwise identity	75.16
Mean single sequence MFE	-23.69
Consensus MFE	-18.01
Energy contribution	-18.07
Covariance contribution	0.06
Combinations/Pair	1.14
Mean z-score	-1.26
Structure conservation index	0.76
SVM decision value	-0.00
SVM RNA-class probability	0.531389
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19178133 97 - 22407834
AGGUAGUUGCAUUCCGGGAUGCAGUAGCAGCCCUGGAUGCCGUUGCUGAUUAUCACCAAAAUUAU------UACACAAGUCUACAACUAAAAACUGAAAUAAA------------
...(((((((((((.(((.(((....))).))).)))))).((((..((((..............------......))))..))))....))))).......------------ ( -23.35)
>DroSec_CAF1 41537 95 - 1
ACGUAGUUGCAUUCCGGGAUGCAGUAGCAGCCCUGGAUGCCGUUGCUGAUCAUCGCCAAAAUUAU------AACCCAAGUCUACAGCUGAAAACUGAAAUA--------------
...(((((((((((.(((.(((....))).))).)))))).((((..(((...............------.......)))..))))....))))).....-------------- ( -22.35)
>DroSim_CAF1 1833 97 - 1
ACGUAGUUGCAUUCCGGGAUGCAGUAGCAGCCCUGGAUGCCGUUGCUGAUCAUCUCCAAAAUUAU------UAAACAAGUCUACAGCUAAAAACUGAAAUAAA------------
...(((((((((((.(((.(((....))).))).)))))).((((..(((...............------.......)))..))))....))))).......------------ ( -22.35)
>DroYak_CAF1 2191 115 - 1
GAGAACUUGCAUUCCGGGAUGCAGUGGCAGCCCCAGGUGCUGUUGCUGACUAAAACUGAAGUUACUCAGACUAUACCGCUCUUCAUCUCAAAUCCGAAAUAAAACAAUUAGAAAA
...............(((((((((..((((((....).)))))..))).......((((......))))..............)))))).......................... ( -26.70)
>consensus
ACGUAGUUGCAUUCCGGGAUGCAGUAGCAGCCCUGGAUGCCGUUGCUGAUCAUCACCAAAAUUAU______UACACAAGUCUACAGCUAAAAACUGAAAUAAA____________
..((((..((((((.(((.(((....))).))).))))))......(((((........)))))................))))............................... (-18.01 = -18.07 +   0.06)

alignment

secondary structure

dotplot

Window 6

Location	19,178,190 – 19,178,310
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	92.00
Mean single sequence MFE	-43.82
Consensus MFE	-37.14
Energy contribution	-37.70
Covariance contribution	0.56
Combinations/Pair	1.08
Mean z-score	-1.33
Structure conservation index	0.85
SVM decision value	0.23
SVM RNA-class probability	0.645844
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19178190 120 + 22407834
GCAUCCAGGGCUGCUACUGCAUCCCGGAAUGCAACUACCUCGGCAACAUGGCACUGCAGCAGUUCCCGUCCAGCAGUUGAAACAAAAGUUGGUGCACUGGAUGCAGGAGGGCAGGUUGCA
...(((.(((.(((....))).)))))).(((((((.(((((....)......(((((.((((...((.(((((..(((...)))..))))))).))))..)))))))))...))))))) ( -46.80)
>DroSec_CAF1 41592 120 + 1
GCAUCCAGGGCUGCUACUGCAUCCCGGAAUGCAACUACGUCGGCAACAUGGCACUGCAGCAGUUCCCGUCCAGCAGUUGAAACAAAAGUUCGUGCACUGGAUGCAGGAGGGCAGGUUGCA
...(((.(((.(((....))).)))))).((((((...((((......)))).((((.....(((((((((((....((((.......))))....)))))))..)))).)))))))))) ( -41.10)
>DroSim_CAF1 1890 120 + 1
GCAUCCAGGGCUGCUACUGCAUCCCGGAAUGCAACUACGUCGGCAACAUGGCACUGCAGCAGUUCCCGUCCAGCAGUUGAAACAAAAGUUCGUGCACUGGAUGCAGGAGGGCAGGUUGCA
...(((.(((.(((....))).)))))).((((((...((((......)))).((((.....(((((((((((....((((.......))))....)))))))..)))).)))))))))) ( -41.10)
>DroEre_CAF1 2025 120 + 1
GCACCUAGGGCUGCCGCAGCAUCCCGGAAUGCAGCUUCCUCGGCAACAUGGCACUGCGGCAGUUCCAGUCCAGCAAUUGAAACAAAAGUUGGUGCACUGGAUGCAGGCGGGCAGAUUGCA
(((......((((((((((....((((((......))))..(....)..))..))))))))))((((((.((.(((((........))))).)).)))))))))..((((.....)))). ( -45.50)
>DroYak_CAF1 2266 120 + 1
GCACCUGGGGCUGCCACUGCAUCCCGGAAUGCAAGUUCUCCGGCAACAUGGCACUGCGGCAGUUCCAGUCCAGCAAUUGAAACAAAAGUUGGUGCACUGGAUGCAGGCGGGUAGAUUGCA
((((....).(((((.((((((((.(((((((.(((.((..(....)..)).)))...))).))))(((.((.(((((........))))).)).)))))))))))...)))))..))). ( -44.60)
>consensus
GCAUCCAGGGCUGCUACUGCAUCCCGGAAUGCAACUACCUCGGCAACAUGGCACUGCAGCAGUUCCCGUCCAGCAGUUGAAACAAAAGUUGGUGCACUGGAUGCAGGAGGGCAGGUUGCA
((((((.(((.(((....))).))))).))))..........(((((.((.(.(((((.((((.(....(((((..(((...)))..))))).).))))..)))))...).)).))))). (-37.14 = -37.70 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:21:20 2006