Locus 3535

Sequence ID	3L_DroMel_CAF1
Location	10,362,313 – 10,362,450
Length	137
Max. P	0.841454

overview

Window 6

Location	10,362,313 – 10,362,412
Length	99
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	87.52
Mean single sequence MFE	-35.61
Consensus MFE	-29.90
Energy contribution	-29.32
Covariance contribution	-0.58
Combinations/Pair	1.31
Mean z-score	-2.19
Structure conservation index	0.84
SVM decision value	0.75
SVM RNA-class probability	0.841454
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10362313 99 - 23771897
GUUGUUCUGUCCAGCA--AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCG----UGCAGCACCAAUGGACGACCGCUGCAAGCCAUUAG
((((.......)))).--......(((((((((((((((((((((....)))))....))))))))----)(((((..............)))))..))).)))) ( -36.44)
>DroVir_CAF1 276574 97 - 1
GUUG---UGUCCAGCUAAAAAUGUCCAAGGCACGACGGUAGCAG--CCUGUUGCAUGUUGCUGUUGCUGUUGCUGUUUCUGUUG--AACGGCUGCA-ACUAUUAC
((((---((((..((.......))....))))))))((((((((--(.....)).)))))))(((((....(((((((.....)--)))))).)))-))...... ( -31.60)
>DroSec_CAF1 235984 99 - 1
GUUGUUCUGUCCAGCG--AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCG----UGCAGCACCAAUGGACGACCGCUGCAAGCCAUUAG
...........(((((--...((((((..((((((((((((((((....)))))....))))))))----)))........))))))..)))))........... ( -37.10)
>DroSim_CAF1 246577 99 - 1
GUUGUUCUGUCCAGCG--AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCG----UGCAGCACCAAUGGACGACCGCUGCAAGCCAUUAG
...........(((((--...((((((..((((((((((((((((....)))))....))))))))----)))........))))))..)))))........... ( -37.10)
>DroEre_CAF1 250487 99 - 1
GUUGUUCUGUCCAGCG--AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCG----UGCAGCACCAAUGGACGACCGCUGCAAGCCAUUAG
...........(((((--...((((((..((((((((((((((((....)))))....))))))))----)))........))))))..)))))........... ( -37.10)
>DroYak_CAF1 248116 99 - 1
GUUGUUCUGUCCAGCG--AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCA----UGCAGCACCAAUGGACGACCGCUGCAAGCCAUUAG
((((.......)))).--......(((((((..((((((((((((....)))))....))))))).----((((((..............)))))).))).)))) ( -34.34)
>consensus
GUUGUUCUGUCCAGCG__AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCG____UGCAGCACCAAUGGACGACCGCUGCAAGCCAUUAG
((((.......)))).............(((.(((((((((((((....)))))....))))))))....((((((..............)))))).)))..... (-29.90 = -29.32 +  -0.58)

alignment

secondary structure

dotplot

Window 7

Location	10,362,348 – 10,362,450
Length	102
Sequences	6
Columns	108
Reading direction	reverse
Mean pairwise identity	86.63
Mean single sequence MFE	-30.38
Consensus MFE	-23.97
Energy contribution	-23.67
Covariance contribution	-0.30
Combinations/Pair	1.26
Mean z-score	-2.21
Structure conservation index	0.79
SVM decision value	0.24
SVM RNA-class probability	0.649443
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10362348 102 - 23771897
ACAUGUCAAAGCCGUAAUAGGGAAACCAUAAAUUUUUUGUUGUUCUGUCCAGCA--AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCG----
..........(((......((....)).......((((((((.......)))))--))).......))).(((((((((((((....)))))....))))))))---- ( -34.50)
>DroVir_CAF1 276606 103 - 1
ACAUGUCAAAGCCGUAAUAGGGAAACCAUAAAUUCUUUGUUG---UGUCCAGCUAAAAAUGUCCAAGGCACGACGGUAGCAG--CCUGUUGCAUGUUGCUGUUGCUGU
(((((.(((((........((....)).......))))).))---))).((((......(((.....))).(((((((((((--(.....)).)))))))))))))). ( -28.76)
>DroGri_CAF1 255599 96 - 1
ACAUGUCAAAGCCGUAAUAGGGAAACCAUAAAUUCUUUGUUG---UGUCCAGCUAAAAAUGUCCAAGGCACGACAGUAGCAG--CCUGUUGCAUGUUGCUG-------
(((((.(((.((.((....((....)).........((((((---((((..((.......))....))))))))))..)).)--)...)))))))).....------- ( -24.90)
>DroEre_CAF1 250522 102 - 1
ACAUGUCAAAGCCGUAAUAGGGAAACCAUAAAUUUUUUGUUGUUCUGUCCAGCG--AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCG----
..........(((......((....)).......((((((((.......)))))--))).......))).(((((((((((((....)))))....))))))))---- ( -34.20)
>DroYak_CAF1 248151 102 - 1
ACAUGUCAAAGCCGUAAUAGGGAAACCAUAAAUUUGUUGUUGUUCUGUCCAGCG--AAAUGUCUAAGGCACGGUAGCAGCAACUCUUGUUGCAUGUUGCUGCCA----
..........(((......((....)).....(((((((..........)))))--))........)))..((((((((((((....)))))....))))))).---- ( -32.10)
>DroMoj_CAF1 312303 96 - 1
ACAUGUCAAAGCCGUAAUAGGGAAACCAUAAAUUCUUUGUUG---UGUCCAGCUAAAAAUGUGCAAGGCACGACGGUAGCAG--CCUGUUGCAUGUUGCUG-------
..........(((......((....))...........((((---((((..((.........))..)))))))))))(((((--(.((...)).)))))).------- ( -27.80)
>consensus
ACAUGUCAAAGCCGUAAUAGGGAAACCAUAAAUUCUUUGUUG___UGUCCAGCU__AAAUGUCCAAGGCACGACAGCAGCAA__CCUGUUGCAUGUUGCUGCCG____
..........(((......((....))...........((((.......)))).............)))..((((((((((............))))))))))..... (-23.97 = -23.67 +  -0.30)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:27 2006