Locus 2676

Sequence ID	2L_DroMel_CAF1
Location	7,495,504 – 7,495,612
Length	108
Max. P	0.940316

overview

Window 9

Location	7,495,504 – 7,495,612
Length	108
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.51
Mean single sequence MFE	-31.29
Consensus MFE	-17.12
Energy contribution	-18.65
Covariance contribution	1.53
Combinations/Pair	1.08
Mean z-score	-3.04
Structure conservation index	0.55
SVM decision value	1.29
SVM RNA-class probability	0.940243
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7495504 108 + 22407834
-GAACUUACCAAAACCGCGCUCUCUCGCACCAGCUGAGAGACAUUCUCUCUCAUUUGCACCGCUGAGCCGAGCUUAUUUAAGCCGCGCGUAAACUUUCGCUCCAUCCUG-----------
-...............((((((...((...(((.(((((((.....))))))).)))...))..)))).(.((((....)))))))(((........))).........----------- ( -25.70)
>DroPse_CAF1 25309 108 + 1
AUUACUUACCAAAACGGCACUCUCACGCACCAGCUGAGAGACAUUCUCUCUCAUCUGGCCCGCCGAAGUUAGCUUAUUCAAGCCGCGCGUAAAUUUACGCUCCAUUCU------------
..............((((.......((..((((.(((((((.....))))))).))))..))...(((....)))......)))).(((((....)))))........------------ ( -29.80)
>DroGri_CAF1 21157 119 + 1
-AAACUUACCAAAACUGCGCUCUCACGCACAACCUGAGAGACGCUCUCUCUCAGCUGUGCGGCCAUGCCGGGCUUAUUCAAGCCCCGCGUGAAUUUACGCUCCAUUCUCAAUUUCCCUUC
-...............(((......((((((..((((((((.....)))))))).))))))..(((((.((((((....)))))).)))))......))).................... ( -41.50)
>DroEre_CAF1 18591 108 + 1
-GUACUUACCAAAACCGCGCUCUCCCGCACCAGCUGAGAGACAUUCUCUCUCAUUUGCACCGCAGAGCCGAGCUUAUUUAAGCCGCGCGUAAAUUUCCGUUCCAUCCUG-----------
-............((((((((((..((...(((.(((((((.....))))))).)))...)).))))).(.((((....)))))))).))...................----------- ( -25.50)
>DroYak_CAF1 18728 108 + 1
-GAGCUUACCAAAAUCGCGCUCUCGCGCACCAGCUGAGAGACAUUCUCUCGCAUUUGCACCGCUGAGCCGAGCUUGUUUAAGCCGCGCGUAAACUUUCGCUCCAUCCUG-----------
-((((..........(((((..(((.((..((((.(((((.....)))))((....))...)))).)))))((((....)))).))))).........)))).......----------- ( -35.41)
>DroPer_CAF1 23583 105 + 1
AUUACUUACCAAAACGGCACUCUCACGCACCAGCUGAGAGACAUUCUCUCUCAUCUGGCCCGCCGAAGUUAGCUUAUUCAAGCCGCGCGUAAAUUUACGCUCCAU---------------
..............((((.......((..((((.(((((((.....))))))).))))..))...(((....)))......)))).(((((....))))).....--------------- ( -29.80)
>consensus
_GAACUUACCAAAACCGCGCUCUCACGCACCAGCUGAGAGACAUUCUCUCUCAUCUGCACCGCCGAGCCGAGCUUAUUCAAGCCGCGCGUAAAUUUACGCUCCAUCCUG___________
................((((((...((...(((.(((((((.....))))))).)))...))..))))...((((....)))).))(((........))).................... (-17.12 = -18.65 +   1.53)

alignment

secondary structure

dotplot

Window 0

Location	7,495,504 – 7,495,612
Length	108
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.51
Mean single sequence MFE	-41.32
Consensus MFE	-22.67
Energy contribution	-22.28
Covariance contribution	-0.38
Combinations/Pair	1.28
Mean z-score	-3.03
Structure conservation index	0.55
SVM decision value	1.29
SVM RNA-class probability	0.940316
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7495504 108 - 22407834
-----------CAGGAUGGAGCGAAAGUUUACGCGCGGCUUAAAUAAGCUCGGCUCAGCGGUGCAAAUGAGAGAGAAUGUCUCUCAGCUGGUGCGAGAGAGCGCGGUUUUGGUAAGUUC-
-----------((((((.((((....)))).((((((((((....)))))..(((((((........(((((((.....)))))))))))).))......)))))))))))........- ( -37.20)
>DroPse_CAF1 25309 108 - 1
------------AGAAUGGAGCGUAAAUUUACGCGCGGCUUGAAUAAGCUAACUUCGGCGGGCCAGAUGAGAGAGAAUGUCUCUCAGCUGGUGCGUGAGAGUGCCGUUUUGGUAAGUAAU
------------(((((((.(((((....)))))..(((((....))))).((((..(((.(((((.(((((((.....))))))).))))).)))..)))).))))))).......... ( -42.20)
>DroGri_CAF1 21157 119 - 1
GAAGGGAAAUUGAGAAUGGAGCGUAAAUUCACGCGGGGCUUGAAUAAGCCCGGCAUGGCCGCACAGCUGAGAGAGAGCGUCUCUCAGGUUGUGCGUGAGAGCGCAGUUUUGGUAAGUUU-
........((..(((.....((((...(((((((.((((((....)))))).))......((((((((((((((.....))))))).)))))))))))).))))..)))..))......- ( -48.00)
>DroEre_CAF1 18591 108 - 1
-----------CAGGAUGGAACGGAAAUUUACGCGCGGCUUAAAUAAGCUCGGCUCUGCGGUGCAAAUGAGAGAGAAUGUCUCUCAGCUGGUGCGGGAGAGCGCGGUUUUGGUAAGUAC-
-----------.........((.(((((...(((.((((((....)))).))(((((.(.(..(...(((((((.....)))))))....)..).).))))))))))))).))......- ( -38.30)
>DroYak_CAF1 18728 108 - 1
-----------CAGGAUGGAGCGAAAGUUUACGCGCGGCUUAAACAAGCUCGGCUCAGCGGUGCAAAUGCGAGAGAAUGUCUCUCAGCUGGUGCGCGAGAGCGCGAUUUUGGUAAGCUC-
-----------((((((.((((....)))).(((((.((((....))))((((((((((...((....))(((((.....))))).))))).)).)))..)))))))))))........- ( -41.90)
>DroPer_CAF1 23583 105 - 1
---------------AUGGAGCGUAAAUUUACGCGCGGCUUGAAUAAGCUAACUUCGGCGGGCCAGAUGAGAGAGAAUGUCUCUCAGCUGGUGCGUGAGAGUGCCGUUUUGGUAAGUAAU
---------------.....(((((....)))))...(((((...((((..((((..(((.(((((.(((((((.....))))))).))))).)))..))))...))))...)))))... ( -40.30)
>consensus
___________CAGGAUGGAGCGUAAAUUUACGCGCGGCUUAAAUAAGCUCGGCUCGGCGGUGCAAAUGAGAGAGAAUGUCUCUCAGCUGGUGCGUGAGAGCGCGGUUUUGGUAAGUAC_
..........................((((((((.(((((.......(((......)))...........(((((.....))))))))))))((((....)))).......))))))... (-22.67 = -22.28 +  -0.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:33:28 2006