Alignment of Intron_maturase_II with c1gd8a

Alignment of Intron_maturase_II with c1gd8a

PSSM Score Key
-10																			10

Bad																			Good

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FASTA version

Intron__PSS	Predicted Secondary Structure for your Sequence
Intron__Seq	Your Sequence
c1gd8a__Seq	Library Sequence
c1gd8a__SS	Known Secondary Structure of the Library Sequence (Assigned by STRIDE)
CORE	A measure of the burial and number of contacts made by a residue. (9 very buried/making many contacts, 0 not buried/making few contacts

Intron__PSS		C	C	E	E	E	E	E	C	C	C		H	H	H	H	H	H	H	H	H	C		C	C	C	C	C	C	C	C	C	C		C	C	C	C	C	E	E	C	C	C		C	C	C	H	H	H	H	H	H	H
Intron__Seq		H	T	S	L	V	V	N	A	P	I		R	S	I	V	M	K	L	N	K	H		G	Y	C	S	H	G	I	L	G	K		P	R	G	V	G	R	L	I	H	E		E	M	K	T	I	L	M	H	Y	L
-------																																																			-	-	H	-	L
c1gd8a__Seq		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	S	S	H	R	L
c1gd8a__SS		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	H	H	H	H	H
CORE		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	0	0	0	0	0

Intron__PSS

H

H

H

C

C

.

.

.

.

.

H

H

H

.

.

H

C

C

C

C

C

C

C

C

H

H

H

H

H

H

H

H

H

H

H

H

H

.

.

.

.

.

H

H

H

H

H

H

.

H

Intron__Seq

A

V

G

R

G

.

.

.

.

.

I

M

N

.

.

Y

Y

R

L

A

T

N

F

T

T

L

R

G

R

I

T

Y

I

L

F

Y

S

.

.

.

.

.

C

C

L

T

L

A

.

S

-------

A

+

R

+

+

+

-

-

-

-

-

+

-

+

-

L

R

G

-

+

-

-

+

-

+

+

-

L

-

+

c1gd8a__Seq

A

L

Y

R

N

Q

A

K

S

L

L

T

H

G

R

I

T

T

T

V

P

K

A

K

E

L

R

G

F

V

D

H

L

I

H

L

A

K

R

G

D

L

H

A

R

R

L

V

L

R

c1gd8a__SS

H

H

H

H

H

H

H

H

H

H

H

H

H

C

E

E

E

E

E

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

H

H

H

H

H

H

H

H

H

CORE

0

0

0

0

0

0

9

0

0

6

5

0

0

0

0

3

0

2

0

1

0

0

6

0

0

5

0

0

3

6

0

0

7

3

0

1

3

0

0

0

0

0

0

1

0

0

0

5

0

0

Intron__PSS

H

C

C

C

.

H

H

H

H

H

H

H

H

H

H

H

H

H

H

C

C

C

C

C

C

C

C

E

E

E

E

E

E

E

E

C

C

C

C

C

C

C

C

C

C

C

C

C

E

E

Intron__Seq

K

F

K

L

.

N

T

V

K

K

V

I

L

K

F

G

K

V

L

V

D

P

H

S

K

V

S

F

S

I

D

D

F

K

I

R

H

K

M

N

M

T

D

S

N

Y

T

P

D

E

-------

-

-

-

-

V

+

K

-

-

-

-

-

D

-

-

-

-

-

-

+

+

-

+

-

-

R

+

+

+

-

-

-

P

-

c1gd8a__Seq

D

L

Q

D

V

K

L

V

R

K

L

F

D

E

I

A

P

R

Y

R

D

R

.

Q

G

G

Y

T

R

V

L

K

L

A

E

R

R

.

.

.

.

.

R

G

D

G

A

P

L

A

c1gd8a__SS

H

C

C

C

H

H

H

H

H

H

H

H

H

C

H

H

H

H

H

C

C

C

.

C

C

C

C

E

E

E

E

E

C

E

E

E

C

.

.

.

.

.

C

C

C

C

C

E

E

E

CORE

0

7

0

0

0

0

3

3

0

0

7

1

0

0

3

1

0

0

0

0

0

0

.

0

0

0

0

3

0

4

0

0

0

0

0

0

0

.

.

.

.

.

0

0

0

0

0

0

0

4

Intron__PSS		E	E	E	E	E	E	E	E	C	C		C	C	H	H	H	H	H	H	H	H		H	H	H	C	C	C
Intron__Seq		I	L	D	R	Y	K	Y	M	L	P		R	S	L	S	L	F	S	G	I	C		Q	I	C	G	S	K
-------		-		+		+	-
c1gd8a__Seq		L	V	E	L	V	E	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.
c1gd8a__SS		E	E	E	E	C	C	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.
CORE		0	8	0	3	0	0	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.