Locus 386

Sequence ID	X_DroMel_CAF1
Location	1,148,517 – 1,148,622
Length	105
Max. P	0.586091

overview

Window 5

Location	1,148,517 – 1,148,622
Length	105
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	78.75
Mean single sequence MFE	-37.98
Consensus MFE	-25.79
Energy contribution	-26.52
Covariance contribution	0.73
Combinations/Pair	1.19
Mean z-score	-1.20
Structure conservation index	0.68
SVM decision value	0.11
SVM RNA-class probability	0.586091
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1148517 105 + 22224390
AGCUCGCUCCUCCGCCGAGGGCGUAAACUUGAGCAGCUGCUCGACCAUGUCCAGCUGCAGCUGCUCGUUGCUGUCCAUGGAAAGAAUGGCCCUGAA-AGCGGCA----------U-U
.((.((((..((.((((.((((((((...(((((((((((..(((...))).....))))))))))))))).)))).(....)...))))...)).-)))))).----------.-. ( -39.60)
>DroGri_CAF1 43656 109 + 1
AGCACGCUCCUCCGCCGAGGGCGUAAACUUCAGCAGCUGCUCAACCAUGUCCAGUGCCAGCUGCUCAUUGCUAUCCAUCGAGAGUAUAGCUCUAAG-AAACACAACACA-------A
(((((((.((((....)))))))).......((((((((....((........))..))))))))....)))........((((.....))))...-............-------. ( -29.90)
>DroEre_CAF1 8532 105 + 1
AGCUCGCUCCUCCGCCGAGGGCGUGAACUUGAGCAGUUGCUCGACCAUGUCCAGUUGCAGCUGCUCGUUGCUGUCCAUGGAGAGGAUGGCCCUGAA-AGUGGUA----------U-G
.((.((.(((((..(((.(((((..(...(((((((((((..(((...))).....))))))))))))..).)))).))).)))))))))((....-...))..----------.-. ( -39.00)
>DroYak_CAF1 8505 106 + 1
AGCUCGCUCCUCCGCAGAGGGCGUGAACUUGAGCAGCUGCUCGACCAUGUCCAGUUGCAGCUGCUCGUUGCUGUCCAUGGAGAGAAUGGCUCUGAA-AGUGGCA----------UUU
.((.((((.(((((..((.((((......(((((((((((..(((...))).....))))))))))).)))).))..)))))(((.....)))...-)))))).----------... ( -40.40)
>DroMoj_CAF1 56443 112 + 1
CGCACGCUCCUCGGCAGAUGGUGUAAACUUGAGCAGCUGCUCGACCAUGUCCAGCGCCAGCUGCUCAUUGCUAUCCAUGGAGAGUAUGGCUCUGUA-AGGGA----AAUUAGACACC
.((.((.....))))....(((((.....((((((((((((.(((...))).)))...)))))))))......(((.((.((((.....)))).))-.))).----......))))) ( -36.50)
>DroAna_CAF1 1545 114 + 1
GGCGCGCUCCUCCGCCGAUGGUGUGAACUUCAGUAGCUGUUCCACCAUGUCCAGAGCCAGCUGCUCGUUGCUGUCCAUGGAGAGAAUGGCUCUGAGGAGAUGCA---CAAAAGGUUU
.(.(((((((((.((((((((((.((((..(....)..)))))))))).((((..(.((((........)))).)..)))).....))))...)))))).))).---)......... ( -42.50)
>consensus
AGCUCGCUCCUCCGCCGAGGGCGUAAACUUGAGCAGCUGCUCGACCAUGUCCAGUGCCAGCUGCUCGUUGCUGUCCAUGGAGAGAAUGGCUCUGAA_AGAGGCA__________U_U
.((.((.(((((((..((.((((......((((((((((((.(((...))).))...)))))))))).)))).))..))))).)).))))........................... (-25.79 = -26.52 +   0.73)

alignment

secondary structure

dotplot

Window 6

Location	1,148,517 – 1,148,622
Length	105
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	78.75
Mean single sequence MFE	-38.33
Consensus MFE	-24.53
Energy contribution	-25.53
Covariance contribution	1.00
Combinations/Pair	1.11
Mean z-score	-1.31
Structure conservation index	0.64
SVM decision value	0.03
SVM RNA-class probability	0.549532
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1148517 105 - 22224390
A-A----------UGCCGCU-UUCAGGGCCAUUCUUUCCAUGGACAGCAACGAGCAGCUGCAGCUGGACAUGGUCGAGCAGCUGCUCAAGUUUACGCCCUCGGCGGAGGAGCGAGCU
.-.----------.((.(((-(((((((........))).)))).)))...((((((((((.(((......)))...)))))))))).......(((((((....)))).))).)). ( -40.10)
>DroGri_CAF1 43656 109 - 1
U-------UGUGUUGUGUUU-CUUAGAGCUAUACUCUCGAUGGAUAGCAAUGAGCAGCUGGCACUGGACAUGGUUGAGCAGCUGCUGAAGUUUACGCCCUCGGCGGAGGAGCGUGCU
.-------..((((((.(.(-(..((((.....)))).)).).)))))).(.((((((((.((((......)).))..)))))))).)....(((((((((....)))).))))).. ( -36.20)
>DroEre_CAF1 8532 105 - 1
C-A----------UACCACU-UUCAGGGCCAUCCUCUCCAUGGACAGCAACGAGCAGCUGCAACUGGACAUGGUCGAGCAACUGCUCAAGUUCACGCCCUCGGCGGAGGAGCGAGCU
.-.----------.......-.....((((((....((((..(.((((........)))))...)))).))))))((((....)))).(((((..((((((....)))).))))))) ( -33.90)
>DroYak_CAF1 8505 106 - 1
AAA----------UGCCACU-UUCAGAGCCAUUCUCUCCAUGGACAGCAACGAGCAGCUGCAACUGGACAUGGUCGAGCAGCUGCUCAAGUUCACGCCCUCUGCGGAGGAGCGAGCU
...----------(((((..-...((((.....))))...))).))((...((((((((((.(((......)))...)))))))))).......(((((((....)))).))).)). ( -38.80)
>DroMoj_CAF1 56443 112 - 1
GGUGUCUAAUU----UCCCU-UACAGAGCCAUACUCUCCAUGGAUAGCAAUGAGCAGCUGGCGCUGGACAUGGUCGAGCAGCUGCUCAAGUUUACACCAUCUGCCGAGGAGCGUGCG
(((((..((((----..((.-...((((.....))))....)).......(((((((((...(((.(((...))).)))))))))))))))).)))))....((((.....)).)). ( -36.10)
>DroAna_CAF1 1545 114 - 1
AAACCUUUUG---UGCAUCUCCUCAGAGCCAUUCUCUCCAUGGACAGCAACGAGCAGCUGGCUCUGGACAUGGUGGAACAGCUACUGAAGUUCACACCAUCGGCGGAGGAGCGCGCC
.........(---(((..((((((...(((......((((.((.((((........)))).)).)))).((((((((((..(....)..)))).)))))).))).)))))).)))). ( -44.90)
>consensus
A_A__________UGCCACU_UUCAGAGCCAUUCUCUCCAUGGACAGCAACGAGCAGCUGCAACUGGACAUGGUCGAGCAGCUGCUCAAGUUCACGCCCUCGGCGGAGGAGCGAGCU
............................((((.......))))...((...(((((((((...((.(((...))).)))))))))))..((((.(((.....)))...))))..)). (-24.53 = -25.53 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:14 2006