Locus 3181

Sequence ID	2L_DroMel_CAF1
Location	9,104,949 – 9,105,051
Length	102
Max. P	0.579783

overview

Window 0

Location	9,104,949 – 9,105,051
Length	102
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	80.39
Mean single sequence MFE	-24.30
Consensus MFE	-15.39
Energy contribution	-17.08
Covariance contribution	1.70
Combinations/Pair	1.06
Mean z-score	-1.52
Structure conservation index	0.63
SVM decision value	0.09
SVM RNA-class probability	0.579783
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9104949 102 + 22407834
UCAUUUACACUAAUCAUGCAAUUCUUGUUACACUUUUAUUGGCCUCU------CCCAAAAGCCUAAGCGGGCUUAUUAGCACGUUGAGUGCAUGGCUAAUGAGCGC-CA
.................(((((....)))......(((((((((...------.....((((((....))))))....((((.....))))..)))))))))))..-.. ( -24.80)
>DroVir_CAF1 37457 89 + 1
GCA-UUACACUAAUCAUGCAAUUUUUGCUACAUUUUGAUUGGCCUU-----------CA------AGCUCGGGCAUUAGCACGUUGAGUGCAUGGCUAAUGAGAGAA--
(((-(..........)))).............((((.(((((((..-----------..------.((....))....((((.....))))..))))))).))))..-- ( -21.50)
>DroGri_CAF1 38617 89 + 1
GCA-UUACACUAAUCAUAGCAUUUUUGCUUCAGUUUUAUUGGCCUC-----------CA------AACUUGGCCAUUAGCACGUUGAGUGCAUGGCUAAUGAGAGCA--
((.-.............((((....))))....(((((((((((.(-----------((------....)))......((((.....))))..))))))))))))).-- ( -25.20)
>DroSim_CAF1 7218 102 + 1
GCAUUUACACUAAUCAUGCAAUUCUUGUUACAAUUUUAUUGGCCUCU------CCCAAAAGCCUAAGCGGGCUCAUUAGCACGUUGAGUGCAUAGCUAAUGAGCGC-CA
((((...........))))...................((((.....------.))))..((....))((((((((((((..((.....))...)))))))))).)-). ( -23.70)
>DroEre_CAF1 7317 102 + 1
GCAUUUACACUAAUCAUGCAAUUCUUGUUACACUUUUAUUGGCCCUU------CCCAAAAGCCUAAGCGGGCUCAUUAGCACGUUGAGUGCAUGGCUAAUGAGCGC-CA
((((...........))))...................((((.....------.))))..((....))((((((((((((.(((.......))))))))))))).)-). ( -24.80)
>DroYak_CAF1 7630 108 + 1
GCAUUUACACUAAUCAUGCAAUUCUUGUUACACUUUUAUUGGCCUUCUAUUGGCCCAAAAGCCUAAGCGGGCUCAUUAGCACGUUGAGUACAUGGCUAAUGAACGC-CA
((((...........))))......((((...(((((...((((.......)))).)))))....))))(((((((((((.(((.......)))))))))))..))-). ( -25.80)
>consensus
GCAUUUACACUAAUCAUGCAAUUCUUGUUACACUUUUAUUGGCCUCU______CCCAAAAGCCUAAGCGGGCUCAUUAGCACGUUGAGUGCAUGGCUAAUGAGCGC_CA
..................................((((((((((...............((((......)))).....((((.....))))..))))))))))...... (-15.39 = -17.08 +   1.70)

alignment

secondary structure

dotplot

Window 1

Location	9,104,949 – 9,105,051
Length	102
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	80.39
Mean single sequence MFE	-27.53
Consensus MFE	-15.18
Energy contribution	-16.88
Covariance contribution	1.70
Combinations/Pair	1.29
Mean z-score	-1.89
Structure conservation index	0.55
SVM decision value	0.01
SVM RNA-class probability	0.540943
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9104949 102 - 22407834
UG-GCGCUCAUUAGCCAUGCACUCAACGUGCUAAUAAGCCCGCUUAGGCUUUUGGG------AGAGGCCAAUAAAAGUGUAACAAGAAUUGCAUGAUUAGUGUAAAUGA
((-((.((((..((((..((((.....))))...((((....))))))))..))))------....)))).(((..((((((......))))))..))).......... ( -28.00)
>DroVir_CAF1 37457 89 - 1
--UUCUCUCAUUAGCCAUGCACUCAACGUGCUAAUGCCCGAGCU------UG-----------AAGGCCAAUCAAAAUGUAGCAAAAAUUGCAUGAUUAGUGUAA-UGC
--......(((((..((((((.......(((((......(((((------..-----------..)))...))......))))).....))))))..)))))...-... ( -18.30)
>DroGri_CAF1 38617 89 - 1
--UGCUCUCAUUAGCCAUGCACUCAACGUGCUAAUGGCCAAGUU------UG-----------GAGGCCAAUAAAACUGAAGCAAAAAUGCUAUGAUUAGUGUAA-UGC
--.((...(((((..(((((((.....))))...(((((.....------..-----------..)))))..........((((....)))))))..)))))...-.)) ( -21.00)
>DroSim_CAF1 7218 102 - 1
UG-GCGCUCAUUAGCUAUGCACUCAACGUGCUAAUGAGCCCGCUUAGGCUUUUGGG------AGAGGCCAAUAAAAUUGUAACAAGAAUUGCAUGAUUAGUGUAAAUGC
.(-(.((((((((((.(((.......)))))))))))))))((...((((((....------.))))))...................((((((.....))))))..)) ( -31.20)
>DroEre_CAF1 7317 102 - 1
UG-GCGCUCAUUAGCCAUGCACUCAACGUGCUAAUGAGCCCGCUUAGGCUUUUGGG------AAGGGCCAAUAAAAGUGUAACAAGAAUUGCAUGAUUAGUGUAAAUGC
.(-(.((((((((((.(((.......)))))))))))))))(.(((.(((((((((------.....))..))))))).)))).....((((((.....)))))).... ( -30.30)
>DroYak_CAF1 7630 108 - 1
UG-GCGUUCAUUAGCCAUGUACUCAACGUGCUAAUGAGCCCGCUUAGGCUUUUGGGCCAAUAGAAGGCCAAUAAAAGUGUAACAAGAAUUGCAUGAUUAGUGUAAAUGC
.(-(.((((((((((.((((.....))))))))))))))))(.(((.(((((((((((.......))))..))))))).)))).....((((((.....)))))).... ( -36.40)
>consensus
UG_GCGCUCAUUAGCCAUGCACUCAACGUGCUAAUGAGCCCGCUUAGGCUUUUGGG______AAAGGCCAAUAAAAGUGUAACAAGAAUUGCAUGAUUAGUGUAAAUGC
...((((((((((((.(((.......))))))))))))..)))...(((((((.........)))))))...................((((((.....)))))).... (-15.18 = -16.88 +   1.70)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:14 2006