Locus 6958

Sequence ID	X_DroMel_CAF1
Location	17,424,255 – 17,424,371
Length	116
Max. P	0.919748

overview

Window 7

Location	17,424,255 – 17,424,371
Length	116
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	71.91
Mean single sequence MFE	-39.38
Consensus MFE	-22.28
Energy contribution	-23.96
Covariance contribution	1.68
Combinations/Pair	1.30
Mean z-score	-1.71
Structure conservation index	0.57
SVM decision value	0.63
SVM RNA-class probability	0.805387
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17424255 116 + 22224390
CAGCCGUCGAUGAGGCAGUCCAUCAUUCCACCGAAUCCUGCUUAUAGCAAGAAACAGGGCAAAAAUGCGGCUCGCCCAAAUUCCGAGCGAGCUGGAAAGGUGCCAAUGCAGGGGCU----
..(((........)))(((((..((((........((.(((.....))).)).....((((....(.((((((((.(.......).)))))))).)....))))))))...)))))---- ( -37.50)
>DroSec_CAF1 348 95 + 1
CAGCCGUCGAUGAGGCAGUCCAUCAUGCCACCGAACCCUGCCUAUACCAAGAAACAGCGCAAGAAUGCGC---------------------CUGGAAAGGUGCCAGUGCAGGGGCU----
.((((.(((....((((........))))..)))..(((((((..............(....)...((((---------------------((....)))))).)).)))))))))---- ( -34.00)
>DroSim_CAF1 332 95 + 1
CAGCCGUCGAUGAGGCAGUCCAUCAUGCCACCGAACCCUGCCUAUACCAAGAAACAGCGCAAGAAUGCGG---------------------CUGGAAAGGUGCCAGUGCAGGGGCU----
.((((.(((....((((........))))..)))..(((((((.((((......(((((((....))).)---------------------)))....))))..)).)))))))))---- ( -33.70)
>DroEre_CAF1 94 119 + 1
CAGCCGUUGAUAGGGCAGCUCAUCAUAACGCCGAACGCUGCUUACGCCAAGAAGCAGCGGAAGACUGGGGCUCGUCCAAAUCCUGGACGAGCUGGCAAGGUGCCGAUGCAGGUGCUGGU-
..(((((((......))))..........(((...((((((((.(.....))))))))).........((((((((((.....)))))))))))))..((..((......))..)))))- ( -49.60)
>DroYak_CAF1 358 120 + 1
CAGCCUAUAUUGAGGCAAUCCAUAAUGCCAUCGAACUCUGCUUAUGCCAAAAAGCAGCGCAAGACUGGCACUCGUCCGAAUCCUGGACGAGCUGGUAAGGUGCCGAUGCAGGUGCUCGUU
..((((......))))...(((...(((((((...(.((((((........)))))).)...)).)))))((((((((.....)))))))).)))...((..((......))..)).... ( -42.10)
>consensus
CAGCCGUCGAUGAGGCAGUCCAUCAUGCCACCGAACCCUGCUUAUACCAAGAAACAGCGCAAGAAUGCGGCUCG_CC_AAU_C_G__CGAGCUGGAAAGGUGCCAAUGCAGGGGCU____
..(((........)))...................((((((((.((((.........(....)....(((((((((((.....)))))))))))....))))..)).))))))....... (-22.28 = -23.96 +   1.68)

alignment

secondary structure

dotplot

Window 8

Location	17,424,255 – 17,424,371
Length	116
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	71.91
Mean single sequence MFE	-41.60
Consensus MFE	-24.16
Energy contribution	-25.38
Covariance contribution	1.22
Combinations/Pair	1.25
Mean z-score	-1.84
Structure conservation index	0.58
SVM decision value	1.13
SVM RNA-class probability	0.919748
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17424255 116 - 22224390
----AGCCCCUGCAUUGGCACCUUUCCAGCUCGCUCGGAAUUUGGGCGAGCCGCAUUUUUGCCCUGUUUCUUGCUAUAAGCAGGAUUCGGUGGAAUGAUGGACUGCCUCAUCGACGGCUG
----((((..((....((((((.((((((((((((((.....))))))))).(((....))).(((..((((((.....))))))..))))))))....))..))))....))..)))). ( -44.40)
>DroSec_CAF1 348 95 - 1
----AGCCCCUGCACUGGCACCUUUCCAG---------------------GCGCAUUCUUGCGCUGUUUCUUGGUAUAGGCAGGGUUCGGUGGCAUGAUGGACUGCCUCAUCGACGGCUG
----(((((((((.(((..(((......(---------------------(((((....)))))).......))).))))))))..(((((((((........))))..))))).)))). ( -38.82)
>DroSim_CAF1 332 95 - 1
----AGCCCCUGCACUGGCACCUUUCCAG---------------------CCGCAUUCUUGCGCUGUUUCUUGGUAUAGGCAGGGUUCGGUGGCAUGAUGGACUGCCUCAUCGACGGCUG
----(((((((((.(((..(((....(((---------------------(.(((....)))))))......))).))))))))..(((((((((........))))..))))).)))). ( -36.50)
>DroEre_CAF1 94 119 - 1
-ACCAGCACCUGCAUCGGCACCUUGCCAGCUCGUCCAGGAUUUGGACGAGCCCCAGUCUUCCGCUGCUUCUUGGCGUAAGCAGCGUUCGGCGUUAUGAUGAGCUGCCCUAUCAACGGCUG
-..((((...((....((((.(((..((((((((((((...))))))))))....(((...((((((((........))))))))...)))....))..))).))))....))...)))) ( -45.40)
>DroYak_CAF1 358 120 - 1
AACGAGCACCUGCAUCGGCACCUUACCAGCUCGUCCAGGAUUCGGACGAGUGCCAGUCUUGCGCUGCUUUUUGGCAUAAGCAGAGUUCGAUGGCAUUAUGGAUUGCCUCAAUAUAGGCUG
..(((((....)).)))........(((((((((((.......))))))))((((.((..((.((((((........)))))).))..))))))....)))...((((......)))).. ( -42.90)
>consensus
____AGCCCCUGCAUUGGCACCUUUCCAGCUCG__C_G_AUU_GG_CGAGCCGCAUUCUUGCGCUGUUUCUUGGUAUAAGCAGGGUUCGGUGGCAUGAUGGACUGCCUCAUCGACGGCUG
....((((..((....((((....((((((((((((.......))))))))..........(((((..(((((.......)))))..)))))......)))).))))....))..)))). (-24.16 = -25.38 +   1.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:44 2006