Locus 521

Sequence ID	2L_DroMel_CAF1
Location	1,588,167 – 1,588,263
Length	96
Max. P	0.669463

overview

Window 4

Location	1,588,167 – 1,588,263
Length	96
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	82.23
Mean single sequence MFE	-29.38
Consensus MFE	-22.45
Energy contribution	-21.59
Covariance contribution	-0.86
Combinations/Pair	1.21
Mean z-score	-1.29
Structure conservation index	0.76
SVM decision value	-0.02
SVM RNA-class probability	0.524443
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1588167 96 + 22407834
------GCAGCA----------AGCGGUAGAUGGGGCGUAUACGCAACAUAUU-UUCAGCAAA--CUGUCACAUCGCGUAUACGCAAUCAGUCGGCA----GUCAGUCAACAGGAUGCC
------((....----------.))((..(((...((((((((((........-..(((....--))).......)))))))))).)))..))((((----..(........)..)))) ( -26.83)
>DroPse_CAF1 110506 108 + 1
CGCGCAAGGGUA----------GGCGACAGACACGGCGUAUACGCAACAUAUU-UUCAACCAAAUGUGUCACAUCGCGUAUACGCAAUCAGUCGACAGUCAGUCAGUCAACAGGAUGCC
...(((...((.----------((((((.((....((((((((((.(((((((-(......))))))))......))))))))))..)).)))(((.....))).))).))....))). ( -33.10)
>DroEre_CAF1 68169 96 + 1
------GCAGAA----------AACGGUAGACGGGGCGUAUACGCAACAUAUU-UUCAGCAAA--CUGUCACAUCGCGUAUACGCAAUCAGUCGGCA----GUCAGUCAACAGGAUGCC
------......----------.......(((...((((((((((........-..(((....--))).......)))))))))).....)))((((----..(........)..)))) ( -26.03)
>DroYak_CAF1 66829 96 + 1
------GCAGCA----------CGCGGCAGACGGGGCGUAUACGCAACAUAUU-UUCAGCAAA--CUGUCACAUCGCGUAUACGCAAUCAGUCGGCA----GUCAGUCAACAGGAUGCC
------((....----------.))(((((((...((((((((((........-..(((....--))).......)))))))))).....)))(((.----....))).......)))) ( -28.93)
>DroAna_CAF1 97476 111 + 1
------AAAUAAAAUCAUCCGGGGCGAUAGACGGGGCGUAUACGCAACAUAUUUUUCAGCAAA--CUGUCACAUCGCGUAUACGCAAUCAGUCGGCAGCCAGUCAGUCAACAGGAUGCC
------.........(((((..(((....(((...((((((((((...........(((....--))).......)))))))))).....)))....))).((......)).))))).. ( -32.37)
>DroPer_CAF1 113355 108 + 1
CACGCAAGGGUA----------GGCGACAGACACGGCGUAUACGCAACAUAUU-UUCAACCAAAUCUGUCACAUCGCGUAUACGCAAUCAGUCGACAGUCAGUCAGUCAACAGGAUGCC
...(((...((.----------((((((.((....((((((((((.(((.(((-(......)))).)))......))))))))))..)).)))(((.....))).))).))....))). ( -29.00)
>consensus
______ACAGAA__________GGCGACAGACGGGGCGUAUACGCAACAUAUU_UUCAGCAAA__CUGUCACAUCGCGUAUACGCAAUCAGUCGGCA____GUCAGUCAACAGGAUGCC
.........................(((.(((...((((((((((..............................)))))))))).....)))(((.....))).)))........... (-22.45 = -21.59 +  -0.86)

alignment

secondary structure

dotplot

Window 5

Location	1,588,167 – 1,588,263
Length	96
Sequences	6
Columns	119
Reading direction	reverse
Mean pairwise identity	82.23
Mean single sequence MFE	-33.57
Consensus MFE	-27.86
Energy contribution	-27.87
Covariance contribution	0.00
Combinations/Pair	1.07
Mean z-score	-1.49
Structure conservation index	0.83
SVM decision value	0.29
SVM RNA-class probability	0.669463
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1588167 96 - 22407834
GGCAUCCUGUUGACUGAC----UGCCGACUGAUUGCGUAUACGCGAUGUGACAG--UUUGCUGAA-AAUAUGUUGCGUAUACGCCCCAUCUACCGCU----------UGCUGC------
((((..(.((((.(....----.).)))).(((.((((((((((((((((.(((--....)))..-..))))))))))))))))...)))....)..----------))))..------ ( -30.00)
>DroPse_CAF1 110506 108 - 1
GGCAUCCUGUUGACUGACUGACUGUCGACUGAUUGCGUAUACGCGAUGUGACACAUUUGGUUGAA-AAUAUGUUGCGUAUACGCCGUGUCUGUCGCC----------UACCCUUGCGCG
(((............(((.....)))(((.(((.((((((((((((((((...((......))..-..))))))))))))))))...))).))))))----------............ ( -35.60)
>DroEre_CAF1 68169 96 - 1
GGCAUCCUGUUGACUGAC----UGCCGACUGAUUGCGUAUACGCGAUGUGACAG--UUUGCUGAA-AAUAUGUUGCGUAUACGCCCCGUCUACCGUU----------UUCUGC------
((((..(........)..----))))(((.(...((((((((((((((((.(((--....)))..-..)))))))))))))))).).))).......----------......------ ( -31.10)
>DroYak_CAF1 66829 96 - 1
GGCAUCCUGUUGACUGAC----UGCCGACUGAUUGCGUAUACGCGAUGUGACAG--UUUGCUGAA-AAUAUGUUGCGUAUACGCCCCGUCUGCCGCG----------UGCUGC------
(((((.(.(((....)))----.((.(((.(...((((((((((((((((.(((--....)))..-..)))))))))))))))).).))).)).).)----------))))..------ ( -32.80)
>DroAna_CAF1 97476 111 - 1
GGCAUCCUGUUGACUGACUGGCUGCCGACUGAUUGCGUAUACGCGAUGUGACAG--UUUGCUGAAAAAUAUGUUGCGUAUACGCCCCGUCUAUCGCCCCGGAUGAUUUUAUUU------
((((.((.(((....))).)).))))........((((((((((((((((.(((--....))).....))))))))))))))))..(((((........))))).........------ ( -37.10)
>DroPer_CAF1 113355 108 - 1
GGCAUCCUGUUGACUGACUGACUGUCGACUGAUUGCGUAUACGCGAUGUGACAGAUUUGGUUGAA-AAUAUGUUGCGUAUACGCCGUGUCUGUCGCC----------UACCCUUGCGUG
(((............(((.....)))(((.(((.((((((((((((((((.(((......)))..-..))))))))))))))))...))).))))))----------............ ( -34.80)
>consensus
GGCAUCCUGUUGACUGAC____UGCCGACUGAUUGCGUAUACGCGAUGUGACAG__UUUGCUGAA_AAUAUGUUGCGUAUACGCCCCGUCUACCGCC__________UACUGC______
((((....(((....)))....))))(((.....((((((((((((((((.(((......))).....))))))))))))))))...)))............................. (-27.86 = -27.87 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:15 2006