Locus 813

Sequence ID	X_DroMel_CAF1
Location	2,253,852 – 2,253,959
Length	107
Max. P	0.999794

overview

Window 4

Location	2,253,852 – 2,253,959
Length	107
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	71.18
Mean single sequence MFE	-38.23
Consensus MFE	-29.23
Energy contribution	-28.90
Covariance contribution	-0.33
Combinations/Pair	1.08
Mean z-score	-2.06
Structure conservation index	0.76
SVM decision value	4.09
SVM RNA-class probability	0.999794
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2253852 107 + 22224390
-AAUUUGCAUGCCCUGUGUGCCUUUUGACCUGCGGCAACAGACGGGGCACGUGGCACUCCGAGG-AAAUG---GCAUAUGGCAUGCAGUAUAUAGCACACAGCAUAUAGCAC--------
-...(((((((((..(((((((.(((..(((..(....)...(((((.........))))))))-))).)---)))))))))))))))(((((.((.....)))))))....-------- ( -36.30)
>DroSec_CAF1 16682 91 + 1
-AAUUUGCAUGCCCUGUGUGCCUUUUGACCUGCGGCAACAGACGGGGCACGUGGCACUGCGAGG-AAGCGGCGGCAUAUGGCAUGCAGCAAAU---------------------------
-...(((((((((.((((((((...((.((((((....).).)))).))...))).((((....-..))))..))))).))))))))).....--------------------------- ( -37.20)
>DroYak_CAF1 17754 117 + 1
AAAUUUGCAUGACUUGUGCGCCUUUUGACCUGCGGCAACAGACGGGGCACGUGGCAGUGUAUCGCACAUG---GCAUAUGGCAUGCAGCAUGUAGCAUGUAGCAUGCAGCAAAAAGCAUA
...((((((((...((((((........((((((....).).))))((((......))))..))))))..---.)))...((((((.(((((...))))).)))))).)))))....... ( -41.20)
>consensus
_AAUUUGCAUGCCCUGUGUGCCUUUUGACCUGCGGCAACAGACGGGGCACGUGGCACUGCGAGG_AAAUG___GCAUAUGGCAUGCAGCAUAUAGCA___AGCAU__AGCA_________
....(((((((((.((((((((...((.((((((....).).)))).))...))).(.....)..........))))).)))))))))................................ (-29.23 = -28.90 +  -0.33)

alignment

secondary structure

dotplot

Window 5

Location	2,253,852 – 2,253,959
Length	107
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	71.18
Mean single sequence MFE	-32.83
Consensus MFE	-22.82
Energy contribution	-23.27
Covariance contribution	0.45
Combinations/Pair	1.13
Mean z-score	-1.26
Structure conservation index	0.69
SVM decision value	0.68
SVM RNA-class probability	0.821538
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2253852 107 - 22224390
--------GUGCUAUAUGCUGUGUGCUAUAUACUGCAUGCCAUAUGC---CAUUU-CCUCGGAGUGCCACGUGCCCCGUCUGUUGCCGCAGGUCAAAAGGCACACAGGGCAUGCAAAUU-
--------(((.((((.((.....)))))))))((((((((...((.---(((((-.....))))).)).(((((..((((((....))))).)....)))))....))))))))....- ( -33.70)
>DroSec_CAF1 16682 91 - 1
---------------------------AUUUGCUGCAUGCCAUAUGCCGCCGCUU-CCUCGCAGUGCCACGUGCCCCGUCUGUUGCCGCAGGUCAAAAGGCACACAGGGCAUGCAAAUU-
---------------------------......((((((((...((.(((.((..-....)).))).)).(((((..((((((....))))).)....)))))....))))))))....- ( -31.30)
>DroYak_CAF1 17754 117 - 1
UAUGCUUUUUGCUGCAUGCUACAUGCUACAUGCUGCAUGCCAUAUGC---CAUGUGCGAUACACUGCCACGUGCCCCGUCUGUUGCCGCAGGUCAAAAGGCGCACAAGUCAUGCAAAUUU
.......(((((.((((((..((((...))))..))))))...(((.---(.(((((....(((......)))....((((.(((((...)).))).))))))))).).))))))))... ( -33.50)
>consensus
_________UGCU__AUGCU___UGCUAUAUGCUGCAUGCCAUAUGC___CAUUU_CCUCGCAGUGCCACGUGCCCCGUCUGUUGCCGCAGGUCAAAAGGCACACAGGGCAUGCAAAUU_
.................................((((((((.........((((........))))....(((((..((((((....))))).)....)))))....))))))))..... (-22.82 = -23.27 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:23 2006