Locus 5140

Sequence ID	2R_DroMel_CAF1
Location	16,728,857 – 16,728,968
Length	111
Max. P	0.959142

overview

Window 9

Location	16,728,857 – 16,728,968
Length	111
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	74.35
Mean single sequence MFE	-52.68
Consensus MFE	-32.33
Energy contribution	-31.42
Covariance contribution	-0.91
Combinations/Pair	1.36
Mean z-score	-1.92
Structure conservation index	0.61
SVM decision value	1.49
SVM RNA-class probability	0.958820
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16728857 111 + 20766785
CUCGUCCAGCGGCUGCGGCGGCAGCAGCAGCUGCCAGUUGAUUGACCUGCUUCUGCAGCAGUUGCUGCUUCAGGGCGGCCACUCCACCAUGUUUGCCCAGAUUGCUGGCAC---------
...(.((((((((((.(((((((((....)))))).((.((.((.((.(((.(((.(((((...))))).)))))))).)).)).)).......)))))).))))))))..--------- ( -49.50)
>DroPse_CAF1 39624 99 + 1
CUCGGCCAGCGGCGGCAGCGGCCGCGGCAGCAGCCAGCUGAUUGACCUGCUUCUGCAGCAGCUGCUGCUUGAGGGCUGCGACUCCGCCGUGCUUGACGG---------------------
.(((((..(((((((..((((((.((((((((((..((((...((......))..)))).)))))))).))..))))))....))))))))).)))...--------------------- ( -51.00)
>DroGri_CAF1 51962 120 + 1
CCCGUCCAGCGGCAGCAGCAGCAGCCGCCGCUGCCAGCUGAUUGACCUGCUUCUGCAACAGUUGCUGCUUCAAGGCAGCGACGCCGCCAUGUUUCGACAGGUUGGAGGCGGGCGGCGCGG
...(((((((((((((.((.......)).)))))).))))...)))......((((....(((((((((....)))))))))((((((.((((((.(.....).)))))))))))))))) ( -60.00)
>DroMoj_CAF1 51409 102 + 1
CUCGGCCGGCGGCUGCGGCAGCGGCUGCUGCUGCCAGCUGAUUGACCUGCUUCUGCAGCAGUUGUUGCUUCAAGGCAGCCACGCCCCCAUGCU---------UGGAGGCAG---------
....(((((((((((((((((((((((((((....(((.(......).)))...))))))))))))))).....))))))..))).(((....---------))).)))..--------- ( -51.60)
>DroAna_CAF1 54280 111 + 1
CUCGUCCUGCGGCAGCUGCGGCUGCAGCGGCGGCCAGUUGGUUGACCUGCUUCUGGAGCAGUUGCUGCUUGAGGGCUGCCACGCCGCCGUGUUUGGUCAGAUUGUUGGCAG---------
...((((((((((((((((((((((....))))))(((.((....)).)))......)))))))))))...)))))(((((((..((((....)))).....)).))))).--------- ( -50.70)
>DroPer_CAF1 38780 99 + 1
CUCGGCCAGCGGCGGCAGCGGCCGCGGCUGCAGCCAGCUGAUUGACCUGCUUCUGCAGCAGCUGCUGCUUGAGGGCUGCGACUCCGCCGUGCUUGGCGG---------------------
(.((((((((.(((((....))))).)))(((((.(((((......((((....)))))))))))))).....))))).)...((((((....))))))--------------------- ( -53.30)
>consensus
CUCGGCCAGCGGCAGCAGCGGCAGCAGCAGCUGCCAGCUGAUUGACCUGCUUCUGCAGCAGUUGCUGCUUCAGGGCUGCCACGCCGCCAUGCUUGGCCA___UG__GGCAG_________
........((.(((((....))))).)).(((((((((.(......).)))...(((((....))))).....))))))......................................... (-32.33 = -31.42 +  -0.91)

alignment

secondary structure

dotplot

Window 0

Location	16,728,857 – 16,728,968
Length	111
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	74.35
Mean single sequence MFE	-49.07
Consensus MFE	-30.92
Energy contribution	-31.37
Covariance contribution	0.45
Combinations/Pair	1.29
Mean z-score	-1.87
Structure conservation index	0.63
SVM decision value	1.50
SVM RNA-class probability	0.959142
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16728857 111 - 20766785
---------GUGCCAGCAAUCUGGGCAAACAUGGUGGAGUGGCCGCCCUGAAGCAGCAACUGCUGCAGAAGCAGGUCAAUCAACUGGCAGCUGCUGCUGCCGCCGCAGCCGCUGGACGAG
---------((.(((((...((((((......(((.((.(((((((.(((.(((((...))))).)))..)).))))).)).)))((((((....))))))))).)))..)))))))... ( -51.80)
>DroPse_CAF1 39624 99 - 1
---------------------CCGUCAAGCACGGCGGAGUCGCAGCCCUCAAGCAGCAGCUGCUGCAGAAGCAGGUCAAUCAGCUGGCUGCUGCCGCGGCCGCUGCCGCCGCUGGCCGAG
---------------------..((((.((.((((((.(((((.((.....(((((((((((((((....))))......))))).)))))))).)))))..))))))..)))))).... ( -46.70)
>DroGri_CAF1 51962 120 - 1
CCGCGCCGCCCGCCUCCAACCUGUCGAAACAUGGCGGCGUCGCUGCCUUGAAGCAGCAACUGUUGCAGAAGCAGGUCAAUCAGCUGGCAGCGGCGGCUGCUGCUGCUGCCGCUGGACGGG
((((((((((((.(........).))......)))))))).(((((......)))))..(((((.....)))))(((...((((.(((((((((((...)))))))))))))))))))). ( -57.60)
>DroMoj_CAF1 51409 102 - 1
---------CUGCCUCCA---------AGCAUGGGGGCGUGGCUGCCUUGAAGCAACAACUGCUGCAGAAGCAGGUCAAUCAGCUGGCAGCAGCAGCCGCUGCCGCAGCCGCCGGCCGAG
---------..(((((((---------....)))))))((((((((.....(((.....(((((.....)))))........)))((((((.......))))))))))))))........ ( -47.82)
>DroAna_CAF1 54280 111 - 1
---------CUGCCAACAAUCUGACCAAACACGGCGGCGUGGCAGCCCUCAAGCAGCAACUGCUCCAGAAGCAGGUCAACCAACUGGCCGCCGCUGCAGCCGCAGCUGCCGCAGGACGAG
---------((((((......)).........(((((((((((.(....)..(((((...((((.....))))(((((......)))))...))))).))))).))))))))))...... ( -42.20)
>DroPer_CAF1 38780 99 - 1
---------------------CCGCCAAGCACGGCGGAGUCGCAGCCCUCAAGCAGCAGCUGCUGCAGAAGCAGGUCAAUCAGCUGGCUGCAGCCGCGGCCGCUGCCGCCGCUGGCCGAG
---------------------(((((......)))))..(((..(((.....((((((((((((((....))))......))))).)))))(((.(((((....))))).))))))))). ( -48.30)
>consensus
_________CUGCC__CA___UGGCCAAACACGGCGGAGUCGCAGCCCUCAAGCAGCAACUGCUGCAGAAGCAGGUCAAUCAGCUGGCAGCAGCCGCGGCCGCUGCAGCCGCUGGACGAG
...............................(((((..((.((((((.....(((((....)))))...(((.((....)).))))))))).)).(((((....))))))))))...... (-30.92 = -31.37 +   0.45)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:34 2006