View Alignment

This page shows all the targets hit by the same query that passed the project filter. Click a track to view the detailed alignment.

Legend
 Query
 Query hiting target  Query hiting target's complemental strand
 Query's complemental strand hiting target  Query's complemental strand hiting target's complemental strand

Alignment Overview

Query: F9508H-LTR4-TNT-insertion-4 (Length: 115)

Name: F9508H-LTR4-TNT-insertion-4
Description: F9508H-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] F9508H-LTR4-TNT-insertion-4
F9508H-LTR4-TNT-insertion-4
[»] chr2 (12 HSPs)
chr2 (9-105)||(9283930-9284027)
chr2 (9-105)||(9321269-9321366)
chr2 (25-105)||(9274808-9274888)
chr2 (10-105)||(9292224-9292320)
chr2 (25-105)||(9060892-9060972)
chr2 (25-105)||(9316321-9316401)
chr2 (9-105)||(9328889-9328986)
chr2 (25-105)||(8573256-8573336)
chr2 (38-105)||(9065362-9065429)
chr2 (9-105)||(10353414-10353511)
chr2 (10-105)||(8579228-8579324)
chr2 (11-58)||(10372210-10372258)
[»] chr1 (3 HSPs)
chr1 (10-105)||(29423561-29423657)
chr1 (12-105)||(29467532-29467626)
chr1 (10-78)||(29443068-29443137)
[»] chr8 (1 HSPs)
chr8 (30-98)||(41966485-41966553)
[»] chr3 (1 HSPs)
chr3 (10-95)||(37462801-37462887)
[»] scaffold0667 (1 HSPs)
scaffold0667 (25-101)||(4780-4856)
[»] chr4 (1 HSPs)
chr4 (25-105)||(26575166-26575246)


Alignment Details
Target: chr2 (Bit Score: 86; Significance: 1e-41; HSPs: 12)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 86; E-Value: 1e-41
Query Start/End: Original strand, 9 - 105
Target Start/End: Original strand, 9283930 - 9284027
Alignment:
Q  9 cagactcttcagctccaaa-caaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    ||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||    
T  9283930 cagactcttcagctccaaaacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccatgggggtttttgttgagaatt 9284027  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #2
Raw Score: 46; E-Value: 1e-17
Query Start/End: Original strand, 9 - 105
Target Start/End: Complemental strand, 9321366 - 9321269
Alignment:
Q  9 cagactcttcagctcca-aacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    ||||||||||||||| | |||||||||||||||||||||||| | |||||| ||| || ||  ||||||||||  | |||||||||||||||||||||    
T  9321366 cagactcttcagctctataacaaactcgtggaaaataattcccagtatgccgtactctcttatctatgctcaattcatgggggtttttgttgagaatt 9321269  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #3
Raw Score: 41; E-Value: 0.00000000000001
Query Start/End: Original strand, 25 - 105
Target Start/End: Complemental strand, 9274888 - 9274808
Alignment:
Q  25 aaacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    ||||||||||||||||||||||||| | |||||| ||| || || | |||| ||||||| ||||| |||||||||||||||    
T  9274888 aaacaaactcgtggaaaataattcccagtatgccgtacgctcttaaatatgttcaagccatggggatttttgttgagaatt 9274808  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #4
Raw Score: 41; E-Value: 0.00000000000001
Query Start/End: Original strand, 10 - 105
Target Start/End: Complemental strand, 9292320 - 9292224
Alignment:
Q  10 agactcttcagctccaaa-caaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    |||||||||||||||||| | |||||||||||||| ||||||| |||||| ||| || || | |||| ||||||  |||||||||||||| ||||||    
T  9292320 agactcttcagctccaaaactaactcgtggaaaatcattcctagtatgccgtacgctcttcaatatgttcaagctatgggggtttttgttcagaatt 9292224  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #5
Raw Score: 37; E-Value: 0.000000000002
Query Start/End: Original strand, 25 - 105
Target Start/End: Original strand, 9060892 - 9060972
Alignment:
Q  25 aaacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    |||||||||||||||||| |||||| | |||||| ||| || || | |||| ||||||| |||||||||||||| ||||||    
T  9060892 aaacaaactcgtggaaaacaattcccagtatgccgtacgctcttcaatatgttcaagccatgggggtttttgttcagaatt 9060972  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #6
Raw Score: 37; E-Value: 0.000000000002
Query Start/End: Original strand, 25 - 105
Target Start/End: Complemental strand, 9316401 - 9316321
Alignment:
Q  25 aaacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    |||||||||||||||||| |||||| | |||||| ||| || || | |||| ||||||| |||||||||||||| ||||||    
T  9316401 aaacaaactcgtggaaaacaattcccagtatgccgtacgctcttcaatatgttcaagccatgggggtttttgttcagaatt 9316321  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #7
Raw Score: 34; E-Value: 0.0000000001
Query Start/End: Original strand, 9 - 105
Target Start/End: Complemental strand, 9328986 - 9328889
Alignment:
Q  9 cagactcttcagctccaaa-caaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    ||||||||||| ||| ||| ||||||| |||||||||||||||  |||||||||| || ||  ||||||||||  |  ||||||||| ||||||||||    
T  9328986 cagactcttcaactctaaaacaaactcttggaaaataattcctgctatgccctacgctcttgtctatgctcaaaacacgggggttttggttgagaatt 9328889  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #8
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 25 - 105
Target Start/End: Original strand, 8573256 - 8573336
Alignment:
Q  25 aaacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    |||||||||||||||||| |||||| | || ||| ||| || || | |||| ||||||| |||||||||||||| ||||||    
T  8573256 aaacaaactcgtggaaaacaattcccagtacgccatacgctcttcaatatgttcaagccatgggggtttttgttcagaatt 8573336  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #9
Raw Score: 32; E-Value: 0.000000002
Query Start/End: Original strand, 38 - 105
Target Start/End: Original strand, 9065362 - 9065429
Alignment:
Q  38 gaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    |||||||||||||| |||||||||| || ||||||||| | |   | |||||||||||||||||||||    
T  9065362 gaaaataattcctactatgccctacgctctttactatgttaacagcatgggggtttttgttgagaatt 9065429  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #10
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 9 - 105
Target Start/End: Complemental strand, 10353511 - 10353414
Alignment:
Q  9 cagactcttcagctccaaa-caaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    ||||||||||||||  ||| ||||||| |||||| ||||||||| | |||| ||  || |||||||||||  | |  |||||||||||||||||||||    
T  10353511 cagactcttcagcttgaaaacaaactcatggaaagtaattcctaatttgccttattctctttactatgctttaacaatgggggtttttgttgagaatt 10353414  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #11
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 10 - 105
Target Start/End: Original strand, 8579228 - 8579324
Alignment:
Q  10 agactcttcagctcc-aaacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    ||||||||||||||| |||||||||||||||||  | |||||| ||| || ||| || |||||    ||||| | ||||||||||| ||||||||||    
T  8579228 agactcttcagctccaaaacaaactcgtggaaagcacttcctaatatcccgtacgctctttacagcactcaacctgtgggggttttcgttgagaatt 8579324  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr2; HSP #12
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 11 - 58
Target Start/End: Complemental strand, 10372258 - 10372210
Alignment:
Q  11 gactcttcagctccaaa-caaactcgtggaaaataattcctattatgcc 58  Q
    ||||||||||||||||| | ||||||||||| |||||||||| ||||||    
T  10372258 gactcttcagctccaaagctaactcgtggaagataattcctactatgcc 10372210  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr1 (Bit Score: 45; Significance: 4e-17; HSPs: 3)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 45; E-Value: 4e-17
Query Start/End: Original strand, 10 - 105
Target Start/End: Complemental strand, 29423657 - 29423561
Alignment:
Q  10 agactcttcagctccaaa-caaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    |||||||||||||| ||| ||||||||||||||  | ||||||  ||||| |||||| |||||||||||||| |  |||||||||||||||||||||    
T  29423657 agactcttcagctcgaaaacaaactcgtggaaagaacttcctaccatgccttacactctttactatgctcaaacaatgggggtttttgttgagaatt 29423561  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr1; HSP #2
Raw Score: 31; E-Value: 0.000000009
Query Start/End: Original strand, 12 - 105
Target Start/End: Original strand, 29467532 - 29467626
Alignment:
Q  12 actcttcagctccaaa-caaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    |||||||||||| ||| | ||||| |||||| || || ||| |||||| ||| || |||||||| ||||| || ||| |||||||||||||||||    
T  29467532 actcttcagctcgaaaacgaactcctggaaagtactttctagtatgccgtactctctttactatcctcaaaccatggtggtttttgttgagaatt 29467626  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr1; HSP #3
Raw Score: 30; E-Value: 0.00000004
Query Start/End: Original strand, 10 - 78
Target Start/End: Original strand, 29443068 - 29443137
Alignment:
Q  10 agactcttcagctccaaa-caaactcgtggaaaataattcctattatgccctacactgtttactatgctc 78  Q
    ||||||||||||| |||| ||||||||||||||  | |||||| |||||| |||||| ||| ||||||||    
T  29443068 agactcttcagcttcaaaacaaactcgtggaaagaacttcctactatgccttacactctttcctatgctc 29443137  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr8 (Bit Score: 33; Significance: 0.0000000006; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 33; E-Value: 0.0000000006
Query Start/End: Original strand, 30 - 98
Target Start/End: Original strand, 41966485 - 41966553
Alignment:
Q  30 aactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgtt 98  Q
    |||||||||||||||||||| |  ||||| ||  || |||||||||||||| || ||||||||||||||    
T  41966485 aactcgtggaaaataattcccagaatgccgtatgctctttactatgctcaaaccatgggggtttttgtt 41966553  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr3 (Bit Score: 31; Significance: 0.000000009; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 31; E-Value: 0.000000009
Query Start/End: Original strand, 10 - 95
Target Start/End: Complemental strand, 37462887 - 37462801
Alignment:
Q  10 agactcttcagctccaaa-caaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggttttt 95  Q
    |||||||||||||||||| ||||||||||||||||| |||||| | | |||||| || || | |||  |||| || |||||||||||    
T  37462887 agactcttcagctccaaaacaaactcgtggaaaatagttcctagttttccctactctcttgaatattgtcaaaccatgggggttttt 37462801  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: scaffold0667 (Bit Score: 29; Significance: 0.0000001; HSPs: 1)
Name: scaffold0667
Description:

Target: scaffold0667; HSP #1
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 25 - 101
Target Start/End: Complemental strand, 4856 - 4780
Alignment:
Q  25 aaacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgag 101  Q
    |||| |||||||||||||||||||||| |||||| ||| |  ||  || ||||||| || |||||||||| ||||||    
T  4856 aaaccaactcgtggaaaataattcctactatgccgtacgcccttgtctttgctcaaaccatgggggttttggttgag 4780  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]

Target: chr4 (Bit Score: 29; Significance: 0.0000001; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 29; E-Value: 0.0000001
Query Start/End: Original strand, 25 - 105
Target Start/End: Complemental strand, 26575246 - 26575166
Alignment:
Q  25 aaacaaactcgtggaaaataattcctattatgccctacactgtttactatgctcaagccgtgggggtttttgttgagaatt 105  Q
    |||||||||| |||||||||||||||| | | || ||| || |||||||| ||| | |  |||| ||||||||||||||||    
T  26575246 aaacaaactcatggaaaataattcctaattttccttacgctctttactatactcgaacaatgggtgtttttgttgagaatt 26575166  T

Back To: [ HSP Overview ] [ Target Overview ] [ Alignment Overview ]



© Oklahoma State University

This website was viewed 822 times since January 2019
Visitors: 1110