Locus 5196

Sequence ID	3L_DroMel_CAF1
Location	14,317,415 – 14,317,518
Length	103
Max. P	0.990513

overview

Window 5

Location	14,317,415 – 14,317,518
Length	103
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	91.99
Mean single sequence MFE	-33.55
Consensus MFE	-26.98
Energy contribution	-28.07
Covariance contribution	1.09
Combinations/Pair	1.10
Mean z-score	-2.44
Structure conservation index	0.80
SVM decision value	0.39
SVM RNA-class probability	0.715442
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14317415 103 + 23771897
UGAGGCACAUGGGAAAUGACCAAAACAUGGCCAAGUCGAGUAUGU--UUGGGCACUUAUUAGGUUGGCCAUUAGGCCAUAGCCAUAUAGAGCACCA------AUCAGCCAG
...(((......((..((.(((.....))).))..)).....((.--((((((.((.....((((((((....)))))..)))....)).)).)))------).))))).. ( -30.00)
>DroSec_CAF1 142246 103 + 1
UGAGGCACAUGGGAAAUGGCCAAAACAUGGCCAAGUCGAGUAUGU--UUGGGCACUUAUUAGGUUGGCCAUUAGGCCAUAGCCAUAUAGAGCACCA------AUCAGCCAG
...(((......((..((((((.....))))))..)).....((.--((((((.((.....((((((((....)))))..)))....)).)).)))------).))))).. ( -37.10)
>DroSim_CAF1 142897 103 + 1
UGAGGCACAUGGGAAAUGGCCAAAACAUGGCCAAGUCGAGUAUGU--UUGGGCACUUAUUAGGUUGGCCAUUAGGCCAUAGCCAUAUAGAGCACCA------AUCAGCCAG
...(((......((..((((((.....))))))..)).....((.--((((((.((.....((((((((....)))))..)))....)).)).)))------).))))).. ( -37.10)
>DroEre_CAF1 142563 103 + 1
UGAGGCACAUGGGAAAUGGCCAAAACAUGGCCAAGUCGAGUAUGU--UUGGGCACUUAUUAGGUUGGCCAUUAGGCCAUAGCCAUAUAGAGCACCA------AUCAGCCAG
...(((......((..((((((.....))))))..)).....((.--((((((.((.....((((((((....)))))..)))....)).)).)))------).))))).. ( -37.10)
>DroYak_CAF1 146813 103 + 1
UGAGGCACAUGGGAAAUGACCAAAACAUGGCCAAGUCUAGUAUGU--UUGGGCACUUAUUAGGUUGGCCAUUAGGCCAUAGCCAUAUAGAGCACCA------AUCAGCCAG
...(((((((((((..((.(((.....))).))..)))..)))))--((((((.((.....((((((((....)))))..)))....)).)).)))------)...))).. ( -31.50)
>DroAna_CAF1 135923 109 + 1
UGAGGCACAUGGGAAAUGGCCAAAACAUGGCCAGUUGCAGUAUGUUUUUGGGCUCCUAUUAGGUUGCCUAUUAGGCCAUAACCAUAUAUGAUACCAACAUUGAUCAG--AG
........((((...((((((((((((((((.....))..))))))))(((((.((.....))..)))))...))))))..))))...((((..........)))).--.. ( -28.50)
>consensus
UGAGGCACAUGGGAAAUGGCCAAAACAUGGCCAAGUCGAGUAUGU__UUGGGCACUUAUUAGGUUGGCCAUUAGGCCAUAGCCAUAUAGAGCACCA______AUCAGCCAG
...((((((((.((..((((((.....))))))..))...)))))...(((((.((.....((((((((....)))))..)))....)).)).)))..........))).. (-26.98 = -28.07 +   1.09)

alignment

secondary structure

dotplot

Window 6

Location	14,317,415 – 14,317,518
Length	103
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	91.99
Mean single sequence MFE	-32.92
Consensus MFE	-28.17
Energy contribution	-28.53
Covariance contribution	0.36
Combinations/Pair	1.10
Mean z-score	-2.94
Structure conservation index	0.86
SVM decision value	2.22
SVM RNA-class probability	0.990513
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14317415 103 - 23771897
CUGGCUGAU------UGGUGCUCUAUAUGGCUAUGGCCUAAUGGCCAACCUAAUAAGUGCCCAA--ACAUACUCGACUUGGCCAUGUUUUGGUCAUUUCCCAUGUGCCUCA
..(((...(------(((.((.((....((...(((((....))))).)).....)).))))))--((((....((..((((((.....))))))..))..)))))))... ( -32.40)
>DroSec_CAF1 142246 103 - 1
CUGGCUGAU------UGGUGCUCUAUAUGGCUAUGGCCUAAUGGCCAACCUAAUAAGUGCCCAA--ACAUACUCGACUUGGCCAUGUUUUGGCCAUUUCCCAUGUGCCUCA
..(((...(------(((.((.((....((...(((((....))))).)).....)).))))))--((((....((..((((((.....))))))..))..)))))))... ( -35.10)
>DroSim_CAF1 142897 103 - 1
CUGGCUGAU------UGGUGCUCUAUAUGGCUAUGGCCUAAUGGCCAACCUAAUAAGUGCCCAA--ACAUACUCGACUUGGCCAUGUUUUGGCCAUUUCCCAUGUGCCUCA
..(((...(------(((.((.((....((...(((((....))))).)).....)).))))))--((((....((..((((((.....))))))..))..)))))))... ( -35.10)
>DroEre_CAF1 142563 103 - 1
CUGGCUGAU------UGGUGCUCUAUAUGGCUAUGGCCUAAUGGCCAACCUAAUAAGUGCCCAA--ACAUACUCGACUUGGCCAUGUUUUGGCCAUUUCCCAUGUGCCUCA
..(((...(------(((.((.((....((...(((((....))))).)).....)).))))))--((((....((..((((((.....))))))..))..)))))))... ( -35.10)
>DroYak_CAF1 146813 103 - 1
CUGGCUGAU------UGGUGCUCUAUAUGGCUAUGGCCUAAUGGCCAACCUAAUAAGUGCCCAA--ACAUACUAGACUUGGCCAUGUUUUGGUCAUUUCCCAUGUGCCUCA
..(((...(------(((.((.((....((...(((((....))))).)).....)).))))))--((((....((..((((((.....))))))..))..)))))))... ( -32.40)
>DroAna_CAF1 135923 109 - 1
CU--CUGAUCAAUGUUGGUAUCAUAUAUGGUUAUGGCCUAAUAGGCAACCUAAUAGGAGCCCAAAAACAUACUGCAACUGGCCAUGUUUUGGCCAUUUCCCAUGUGCCUCA
..--............(((((.....((((..((((((.....(((..((.....)).)))..(((((((...((.....)).)))))))))))))...)))))))))... ( -27.40)
>consensus
CUGGCUGAU______UGGUGCUCUAUAUGGCUAUGGCCUAAUGGCCAACCUAAUAAGUGCCCAA__ACAUACUCGACUUGGCCAUGUUUUGGCCAUUUCCCAUGUGCCUCA
..(((...........((((((.(((..((...(((((....))))).))..))))))))).....((((....((..((((((.....))))))..))..)))))))... (-28.17 = -28.53 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:44:18 2006