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 |
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Alignment Overview
Query: F9367-LTR4-TNT-insertion-1 (Length: 392)
Name: F9367-LTR4-TNT-insertion-1
Description: F9367-LTR4
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)
| [»] F9367-LTR4-TNT-insertion-1 |
 | |
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| [»] scaffold1663 (1 HSPs) |
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Alignment Details
Target: chr2 (Bit Score: 344; Significance: 0; HSPs: 4)
Name: chr2
Description:
Target: chr2; HSP #1
Raw Score: 344; E-Value: 0
Query Start/End: Original strand, 8 - 382
Target Start/End: Original strand, 39873435 - 39873809
Alignment:
| Q |
8 |
cccctaccatctttaatattctaaatcctactaacgaaacnnnnnnnnngaaagagcaaaacttcttaaatggtccacagttaacaatgtgcataaagaa |
107 |
Q |
| |
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|||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||| |
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| T |
39873435 |
cccctaccatctttaatattctaaatcctactaacgaaactttttttttgaaagagcaaaacttcttaaatggtccacagttaacaatgtgcataaagaa |
39873534 |
T |
|
| Q |
108 |
cactaaaatttacgaaaactcacaattcttcttcaggttcattctcgagagcatttttggtaatacactcaaaagcagcctcaacattaaaaccctcctt |
207 |
Q |
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|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
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| T |
39873535 |
cactaaaatttacgaaaactcacaattcttcttcaggttcattctcgagagcatttttggtaatacactcaaaagcagcctcaacattaaaaccctcctt |
39873634 |
T |
|
| Q |
208 |
tgcagaggtctcaaagtatggtatattccccttggaagcacaccatgcctttgctttcttctcaaaaacctgaaacagaagcaacaaatgcagacatgaa |
307 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||| |
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| T |
39873635 |
tgcagaggtctcaaagtatggtatattccccttggaagcacaccatgcctttgctttcttctcagaaacctgaaacagaagcaacaaatgcagacatgaa |
39873734 |
T |
|
| Q |
308 |
ttaaccccgtgaacatatggtaaatcaaacccctctcaagaggaagaaaatctatcaactatatatgattgaatt |
382 |
Q |
| |
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||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
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| T |
39873735 |
ttaaccccgtgaacatatggtaaatcaaacccctctcaagaggaagaaaatctatcaactatatatgattgaatt |
39873809 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2; HSP #2
Raw Score: 218; E-Value: 1e-120
Query Start/End: Original strand, 57 - 305
Target Start/End: Original strand, 43838817 - 43839066
Alignment:
| Q |
57 |
gaaagagcaaaacttcttaaatggtccacagttaacaatgtgcataaagaa-cactaaaatttacgaaaactcacaattcttcttcaggttcattctcga |
155 |
Q |
| |
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|||||||||||||||||| ||||||||||||||||| ||||||||||| || |||||||||||| |||||||||||||||||||||||||||||||| || |
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| T |
43838817 |
gaaagagcaaaacttcttgaatggtccacagttaacgatgtgcataaaaaaacactaaaatttatgaaaactcacaattcttcttcaggttcattcttga |
43838916 |
T |
|
| Q |
156 |
gagcatttttggtaatacactcaaaagcagcctcaacattaaaaccctcctttgcagaggtctcaaagtatggtatattccccttggaagcacaccatgc |
255 |
Q |
| |
|
|||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |
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| T |
43838917 |
gagcatttttggtaatacactcaaaagcagcctcaacattaaaaccctcctttgcagaggtctcaaagtatggtatattccccttggaagcacaccatgc |
43839016 |
T |
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| Q |
256 |
ctttgctttcttctcaaaaacctgaaacagaagcaacaaatgcagacatg |
305 |
Q |
| |
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|||||||||||||||| ||||||||||||||||||||||||||||||||| |
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| T |
43839017 |
ctttgctttcttctcagaaacctgaaacagaagcaacaaatgcagacatg |
43839066 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2; HSP #3
Raw Score: 37; E-Value: 0.000000000009
Query Start/End: Original strand, 342 - 382
Target Start/End: Original strand, 43839077 - 43839117
Alignment:
| Q |
342 |
ctcaagaggaagaaaatctatcaactatatatgattgaatt |
382 |
Q |
| |
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||||||||||||||||||||||||||| ||||||||||||| |
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|
| T |
43839077 |
ctcaagaggaagaaaatctatcaactacatatgattgaatt |
43839117 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr2; HSP #4
Raw Score: 31; E-Value: 0.00000003
Query Start/End: Original strand, 8 - 42
Target Start/End: Original strand, 43838766 - 43838800
Alignment:
| Q |
8 |
cccctaccatctttaatattctaaatcctactaac |
42 |
Q |
| |
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|||||||||||||||||| |||||||||||||||| |
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| T |
43838766 |
cccctaccatctttaatactctaaatcctactaac |
43838800 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr4 (Bit Score: 91; Significance: 5e-44; HSPs: 1)
Name: chr4
Description:
Target: chr4; HSP #1
Raw Score: 91; E-Value: 5e-44
Query Start/End: Original strand, 121 - 279
Target Start/End: Complemental strand, 3468776 - 3468618
Alignment:
| Q |
121 |
gaaaactcacaattcttcttcaggttcattctcgagagcatttttggtaatacactcaaaagcagcctcaacattaaaaccctcctttgcagaggtctca |
220 |
Q |
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||||||||||| |||||||||||||||||||| ||| |||||||| | ||||||| |||||||| ||||||||||| || || ||||| ||||||||| |
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| T |
3468776 |
gaaaactcacatttcttcttcaggttcattcttgagtgcattttttgctatacactggaaagcagcttcaacattaaatccttcttttgcggaggtctca |
3468677 |
T |
|
| Q |
221 |
aagtatggtatattccccttggaagcacaccatgcctttgctttcttctcaaaaacctg |
279 |
Q |
| |
|
||||||||||| || ||||| |||||||||||||||||||||||||||||| ||||||| |
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|
| T |
3468676 |
aagtatggtatgtttccctttgaagcacaccatgcctttgctttcttctcagaaacctg |
3468618 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr1 (Bit Score: 38; Significance: 0.000000000002; HSPs: 1)
Name: chr1
Description:
Target: chr1; HSP #1
Raw Score: 38; E-Value: 0.000000000002
Query Start/End: Original strand, 182 - 279
Target Start/End: Complemental strand, 43948956 - 43948859
Alignment:
| Q |
182 |
gcagcctcaacattaaaaccctcctttgcagaggtctcaaagtatggtatattccccttggaagcacaccatgcctttgctttcttctcaaaaacctg |
279 |
Q |
| |
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||||| |||||||| || |||| |||||||| ||||||||||| || |||||||| || ||||||||||| | |||||||||||||| ||||||| |
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| T |
43948956 |
gcagcatcaacattgtaatcctcttttgcagatgtctcaaagtagggaatattcccttttgaagcacaccagtcatttgctttcttctcggaaacctg |
43948859 |
T |
|
Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: chr6 (Bit Score: 32; Significance: 0.000000009; HSPs: 1)
Name: chr6
Description:
Target: chr6; HSP #1
Raw Score: 32; E-Value: 0.000000009
Query Start/End: Original strand, 188 - 271
Target Start/End: Original strand, 14292528 - 14292611
Alignment:
| Q |
188 |
tcaacattaaaaccctcctttgcagaggtctcaaagtatggtatattccccttggaagcacaccatgcctttgctttcttctca |
271 |
Q |
| |
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|||||||| || |||| |||||||| ||||||||||| || |||||||| || || || |||||| |||||||||||||||| |
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| T |
14292528 |
tcaacattgaagtcctcttttgcagaagtctcaaagtagggaatattcccttttgaggcgcaccatttctttgctttcttctca |
14292611 |
T |
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Back To:
[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
Target: scaffold1663 (Bit Score: 29; Significance: 0.0000005; HSPs: 1)
Name: scaffold1663
Description:
Target: scaffold1663; HSP #1
Raw Score: 29; E-Value: 0.0000005
Query Start/End: Original strand, 203 - 279
Target Start/End: Original strand, 215 - 291
Alignment:
| Q |
203 |
tcctttgcagaggtctcaaagtatggtatattccccttggaagcacaccatgcctttgctttcttctcaaaaacctg |
279 |
Q |
| |
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|||||| |||| ||||||||||| || | |||||| || || |||||||| ||||||||||||| ||| ||||||| |
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| T |
215 |
tcctttacagatgtctcaaagtaaggaacattcccttttgaggcacaccagtcctttgctttcttatcagaaacctg |
291 |
T |
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[ HSP Overview ] [ Target Overview ] [ Alignment Overview ]
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