Alignment of Intron_maturase_II with c1jm7b

Alignment of Intron_maturase_II with c1jm7b

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
c1jm7b__Seq	Library Sequence
c1jm7b__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
Intron__Seq		H	T	S	L	V	V	N	A	P	.		.	.	.	.	.	.	.	I	R	S		I	V	M	K	L	N	K	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	H	G
-------									-	P										-	R	-		-		-	-	L	-	K																								H	-
c1jm7b__Seq		.	.	.	.	.	.	M	E	P	D		G	R	G	A	W	A	H	S	R	A		A	L	D	R	L	E	K	L	L	R		C	S	R	C	T	N	I	L	R	E		P	V	C	L	G	G	C	E	H	I
c1jm7b__SS		.	.	.	.	.	.	C	C	C	C		C	C	C	C	C	H	H	H	H	H		H	H	H	H	H	H	H	H	C	E		E	C	C	C	C	E	E	C	C	C		C	C	C	C	C	C	C	C	C	C
CORE		.	.	.	.	.	.	0	0	0	0		0	0	0	0	0	0	0	0	0	0		0	1	0	0	0	0	0	0	4	0		4	2	0	1	0	0	1	5	0	0		2	5	0	9	1	0	0	0	0	2

Intron__PSS

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

H

H

H

.

.

.

C

C

H

H

H

H

C

C

Intron__Seq

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

A

V

G

.

.

.

R

G

I

M

N

Y

Y

R

-------

+

C

S

-

+

-

G

-

P

+

-

-

+

+

I

+

+

-

-

-

-

-

L

+

-

-

-

+

R

+

+

-

+

-

-

-

c1jm7b__Seq

F

C

S

N

C

V

S

D

C

I

G

T

G

C

P

V

C

Y

T

P

A

W

I

Q

D

L

K

I

N

R

Q

L

D

S

M

I

Q

L

C

S

K

L

R

N

L

L

H

D

N

E

c1jm7b__SS

C

C

C

C

C

H

H

H

C

C

C

C

C

C

C

C

C

C

C

C

C

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

C

C

C

CORE

6

3

1

0

1

9

1

0

0

5

0

0

7

2

1

0

0

0

0

0

8

0

3

0

0

5

0

0

0

0

0

2

0

0

1

3

0

0

1

0

0

0

0

0

0

0

0

0

0

0

Intron__PSS		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	H	C	C	C		H	H	H	H	H	H	H	H	H	H		H	H	H	H	C	C	C	C	C	C
Intron__Seq		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	K	F	K	L		N	T	V	K	K	V	I	L	K	F		G	K	V	L	V	D	P	H	S	K
-------		L	+	-
c1jm7b__Seq		L	S	D	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.
c1jm7b__SS		C	C	C	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.
CORE		0	0	0	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.		.	.	.	.	.	.	.	.	.	.

Intron__PSS

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

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

Intron__Seq

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

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

-------

c1jm7b__Seq

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c1jm7b__SS

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CORE

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Intron__PSS		C
Intron__Seq		K
-------
c1jm7b__Seq		.
c1jm7b__SS		.
CORE		.