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: NF16661_low_6 (Length: 610)

Name: NF16661_low_6
Description: NF16661
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF16661_low_6
NF16661_low_6
[»] scaffold0341 (5 HSPs)
scaffold0341 (47-594)||(11595-12142)
scaffold0341 (47-507)||(3939-4399)
scaffold0341 (529-594)||(4452-4517)
scaffold0341 (1-30)||(3893-3922)
scaffold0341 (1-30)||(11549-11578)
[»] chr1 (10 HSPs)
chr1 (47-594)||(6509915-6510462)
chr1 (232-594)||(6497114-6497479)
chr1 (254-507)||(6502468-6502721)
chr1 (236-458)||(6514468-6514690)
chr1 (265-397)||(6525879-6526011)
chr1 (529-594)||(6502773-6502838)
chr1 (255-397)||(47771525-47771667)
chr1 (255-397)||(47775677-47775819)
chr1 (512-579)||(6514779-6514846)
chr1 (1-30)||(6509869-6509898)
[»] chr5 (2 HSPs)
chr5 (245-315)||(27367905-27367975)
chr5 (320-385)||(28843804-28843869)


Alignment Details
Target: scaffold0341 (Bit Score: 528; Significance: 0; HSPs: 5)
Name: scaffold0341
Description:

Target: scaffold0341; HSP #1
Raw Score: 528; E-Value: 0
Query Start/End: Original strand, 47 - 594
Target Start/End: Original strand, 11595 - 12142
Alignment:
Q  47 ccactatttaattacaatctggtctggtatttacaacactatgaaatatatatgtattatgggtatcacggtcattccaatgattaaaattccagctagc 146  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||    
T  11595 ccactatttaattacaatctggtctggtatttacaacactatgaaatatatatgtattatgggtatcacggtcattccaatggttaaaattccagctagc 11694  T
Q  147 aaggaaatagctctgtgtttgaagcgccgttgaccgataattcttgagctgagcttggcgggttcgtatcttgaaagtcactccaatccatatgaaatgc 246  Q
    |||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  11695 aaggaaatagctctgtgtttgaggccccgttgaccgataattcttgagctgagcttggcgggttcgtatcttgaaagtcactccaatccatatgaaatgc 11794  T
Q  247 aggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagt 346  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  11795 aggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagt 11894  T
Q  347 aatccaatatggatacatcttagtatttcatttcgtgaatcattgtttaatatcgagtctatgatatttgttgcagtcccttccttccaatttctccatg 446  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  11895 aatccaatatggatacatcttagtatttcatttcgtgaatcattgtttaatgtcgagtctatgatatttgttgcagtcccttccttccaatttctccatg 11994  T
Q  447 cctgcacaaatttacccaaatgcaaatactactctttgttagatataatttcacttctaaagatgaaagatatgacgacatgaaaagtatgacttacaaa 546  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||    
T  11995 cctgcacaaatttacccaaatgcaaatactactctttgttagatataatttcacttctaaacatgaaagatatgacgacatgaaaagtatgacttacaaa 12094  T
Q  547 gcttgagagatattctgtattctccccatcacgaatgccactgttttt 594  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||    
T  12095 gcttgagagatattctgtattctccccatcacgaatgccactgttttt 12142  T

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

Target: scaffold0341; HSP #2
Raw Score: 397; E-Value: 0
Query Start/End: Original strand, 47 - 507
Target Start/End: Original strand, 3939 - 4399
Alignment:
Q  47 ccactatttaattacaatctggtctggtatttacaacactatgaaatatatatgtattatgggtatcacggtcattccaatgattaaaattccagctagc 146  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||    
T  3939 ccactatttaattacaatctggtctggtatttacaacactatgaaatatatatgtattatgggtatcacggtcattccaatggttaaaattccagctagc 4038  T
Q  147 aaggaaatagctctgtgtttgaagcgccgttgaccgataattcttgagctgagcttggcgggttcgtatcttgaaagtcactccaatccatatgaaatgc 246  Q
    |||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4039 aaggaaatagctctgtgtttgaggccccgttgaccgataattcttgagctgagcttggcgggttcgtatcttgaaagtcactccaatccatatgaaatgc 4138  T
Q  247 aggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagt 346  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4139 aggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagt 4238  T
Q  347 aatccaatatggatacatcttagtatttcatttcgtgaatcattgtttaatatcgagtctatgatatttgttgcagtcccttccttccaatttctccatg 446  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||| ||  |||||||||||||||    
T  4239 aatccaatatggatacatcttagtatttcatttcgtgaatcattgtttaatgtcgagtctatgatatttgttgcagtcccctctctccaatttctccatg 4338  T
Q  447 cctgcacaaatttacccaaatgcaaatactactctttgttagatataatttcacttctaaa 507  Q
    ||| |||||||||| ||| ||||| |||  | ||| |||||||||||||| ||||||||||    
T  4339 cctacacaaatttatccagatgcatatatcattctatgttagatataattccacttctaaa 4399  T

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

Target: scaffold0341; HSP #3
Raw Score: 54; E-Value: 1e-21
Query Start/End: Original strand, 529 - 594
Target Start/End: Original strand, 4452 - 4517
Alignment:
Q  529 aaaagtatgacttacaaagcttgagagatattctgtattctccccatcacgaatgccactgttttt 594  Q
    |||| ||||||||||||||||||||||||||||||||||||||||||||||||||| ||| |||||    
T  4452 aaaattatgacttacaaagcttgagagatattctgtattctccccatcacgaatgctactattttt 4517  T

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

Target: scaffold0341; HSP #4
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 1 - 30
Target Start/End: Original strand, 3893 - 3922
Alignment:
Q  1 aaaagcaaccagttctaacggacaacatac 30  Q
    ||||||||||||||||||||||||||||||    
T  3893 aaaagcaaccagttctaacggacaacatac 3922  T

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

Target: scaffold0341; HSP #5
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 1 - 30
Target Start/End: Original strand, 11549 - 11578
Alignment:
Q  1 aaaagcaaccagttctaacggacaacatac 30  Q
    ||||||||||||||||||||||||||||||    
T  11549 aaaagcaaccagttctaacggacaacatac 11578  T

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

Target: chr1 (Bit Score: 480; Significance: 0; HSPs: 10)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 480; E-Value: 0
Query Start/End: Original strand, 47 - 594
Target Start/End: Original strand, 6509915 - 6510462
Alignment:
Q  47 ccactatttaattacaatctggtctggtatttacaacactatgaaatatatatgtattatgggtatcacggtcattccaatgattaaaattccagctagc 146  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||    
T  6509915 ccactatttaattacaatctggtctggtatttacaacactatgaaatatatatgtattatgggtatcacggtcattccaatggttaaaattccagctagc 6510014  T
Q  147 aaggaaatagctctgtgtttgaagcgccgttgaccgataattcttgagctgagcttggcgggttcgtatcttgaaagtcactccaatccatatgaaatgc 246  Q
    |||||||||||||||||||||| || ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6510015 aaggaaatagctctgtgtttgaggccccgttgaccgataattcttgagctgagcttggcgggttcgtatcttgaaagtcactccaatccatatgaaatgc 6510114  T
Q  247 aggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagt 346  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  6510115 aggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagt 6510214  T
Q  347 aatccaatatggatacatcttagtatttcatttcgtgaatcattgtttaatatcgagtctatgatatttgttgcagtcccttccttccaatttctccatg 446  Q
    ||||||||||| |||||||| |  ||||||||||||||||||||||||||  | || ||||||||| |||||||||| || ||  |||||||||||||||    
T  6510215 aatccaatatgaatacatctaaaaatttcatttcgtgaatcattgtttaaagtagaatctatgataattgttgcagtaccatcaatccaatttctccatg 6510314  T
Q  447 cctgcacaaatttacccaaatgcaaatactactctttgttagatataatttcacttctaaagatgaaagatatgacgacatgaaaagtatgacttacaaa 546  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||    
T  6510315 cctgcacaaatttacccaaatgcaaatactactctttgttagatataatttcacttctaaacatgaaagatatgacgacatgaaaagtatgacttacaaa 6510414  T
Q  547 gcttgagagatattctgtattctccccatcacgaatgccactgttttt 594  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||    
T  6510415 gcttgagagatattctgtattctccccatcacgaatgccactgttttt 6510462  T

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

Target: chr1; HSP #2
Raw Score: 179; E-Value: 3e-96
Query Start/End: Original strand, 232 - 594
Target Start/End: Original strand, 6497114 - 6497479
Alignment:
Q  232 atccatatgaaatgcaggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattc 331  Q
    |||||||||||||||||||||||||||||||||||||||||| ||||||||||| ||||||||||| |||| ||||||||||||||||||||||||||||    
T  6497114 atccatatgaaatgcaggttccaaaggcattgggagagtaactgaatcactatttagcatcactactacagtagccatgcttggcctgctagctacattc 6497213  T
Q  332 tcttgaacacaaagtaatccaatatggatacatcttagtatttcatttcgtgaatcattgtttaatatcgagtctatgatatttgttgcagtcccttcct 431  Q
    |||||||||||||||||||||||||| |||||||| |  ||||||||||||||||||||||||||  | |  ||||||||| |||||||||| || ||||    
T  6497214 tcttgaacacaaagtaatccaatatgtatacatctcaacatttcatttcgtgaatcattgtttaacgtgggatctatgatacttgttgcagttccctcct 6497313  T
Q  432 tccaatttctccatgcctgcacaaatttacccaaatgcaaatactactctttgttagatataatttcacttctaaagatgaaagatat------gacgac 525  Q
    ||||||| ||||||||||||||||||||  ||||| |||||||  |  ||  ||||||||||| | |||||||  | |||||| ||||      || |||    
T  6497314 tccaattcctccatgcctgcacaaatttgtccaaacgcaaataaaatactaggttagatataa-tacacttct--acatgaaatatatgatgacgatgac 6497410  T
Q  526 atgaaaagtatgacttacaaagcttgagagatattctgtattctccccatcacgaatgccactgttttt 594  Q
    || ||||||||||||||||||||| || ||||| || ||||||||| |||| |||||||||||||||||    
T  6497411 ataaaaagtatgacttacaaagctcgatagatactcagtattctcctcatcgcgaatgccactgttttt 6497479  T

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

Target: chr1; HSP #3
Raw Score: 158; E-Value: 9e-84
Query Start/End: Original strand, 254 - 507
Target Start/End: Original strand, 6502468 - 6502721
Alignment:
Q  254 aaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagtaatccaa 353  Q
    ||||||||||| ||||||||||| || ||||||||||||||||||| |||||||||| |||| ||  |  ||| ||||||||||||||||||||||||||    
T  6502468 aaaggcattggaagagtaacagagtcgctattaagcatcactacaatagaagccatggttggtctatttactatattctcttgaacacaaagtaatccaa 6502567  T
Q  354 tatggatacatcttagtatttcatttcgtgaatcattgtttaatatcgagtctatgatatttgttgcagtcccttccttccaatttctccatgcctgcac 453  Q
    |||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||| ||  |||||||||||||||||| |||    
T  6502568 tatggatacatcttagtatttcatttcgtgaatcattgtttaatgtcgagtctatgatatttgttgcagtcccctctctccaatttctccatgcctacac 6502667  T
Q  454 aaatttacccaaatgcaaatactactctttgttagatataatttcacttctaaa 507  Q
    ||||||| ||| ||||| |||  | ||| |||||||||||||| ||||||||||    
T  6502668 aaatttatccagatgcatatatcattctatgttagatataattccacttctaaa 6502721  T

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

Target: chr1; HSP #4
Raw Score: 143; E-Value: 8e-75
Query Start/End: Original strand, 236 - 458
Target Start/End: Original strand, 6514468 - 6514690
Alignment:
Q  236 atatgaaatgcaggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctctt 335  Q
    |||||||||||||||| |||||| ||||||||||||||||||   ||||||||| |||||||||||||||||||| |||| |||||||||||||||||||    
T  6514468 atatgaaatgcaggttgcaaaggaattgggagagtaacagaagggctattaagcgtcactacaacagaagccatggttggtctgctagctacattctctt 6514567  T
Q  336 gaacacaaagtaatccaatatggatacatcttagtatttcatttcgtgaatcattgtttaatatcgagtctatgatatttgttgcagtcccttccttcca 435  Q
    ||||||||||||||||||||||||||||||| | ||| |||||| |||| |||||||||||| | |  ||||||||||||| ||||||||| ||||||||    
T  6514568 gaacacaaagtaatccaatatggatacatctcattatctcatttagtgagtcattgtttaatgttggatctatgatatttgctgcagtcccctccttcca 6514667  T
Q  436 atttctccatgcctgcacaaatt 458  Q
    |||||||||||||| ||||||||    
T  6514668 atttctccatgcctacacaaatt 6514690  T

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

Target: chr1; HSP #5
Raw Score: 57; E-Value: 2e-23
Query Start/End: Original strand, 265 - 397
Target Start/End: Complemental strand, 6526011 - 6525879
Alignment:
Q  265 gagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagtaatccaatatggatacat 364  Q
    |||||| | ||||| |||||||||||| | ||||| |||||||||  |||||||||||||| |||| ||||||||||||||||| ||||| ||||| |||    
T  6526011 gagagtgagagaatgactattaagcattagtacaatagaagccatagttggcctgctagctgcattttcttgaacacaaagtaacccaatgtggatgcat 6525912  T
Q  365 cttagtatttcatttcgtgaatcattgtttaat 397  Q
    || | |||||| ||   ||||||||||||||||    
T  6525911 ctcattatttcgttcactgaatcattgtttaat 6525879  T

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

Target: chr1; HSP #6
Raw Score: 54; E-Value: 1e-21
Query Start/End: Original strand, 529 - 594
Target Start/End: Original strand, 6502773 - 6502838
Alignment:
Q  529 aaaagtatgacttacaaagcttgagagatattctgtattctccccatcacgaatgccactgttttt 594  Q
    |||| ||||||||||||||||||||||||||||||||||||||||||||||||||| ||| |||||    
T  6502773 aaaattatgacttacaaagcttgagagatattctgtattctccccatcacgaatgctactattttt 6502838  T

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

Target: chr1; HSP #7
Raw Score: 51; E-Value: 6e-20
Query Start/End: Original strand, 255 - 397
Target Start/End: Complemental strand, 47771667 - 47771525
Alignment:
Q  255 aaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagtaatccaat 354  Q
    |||| |||| |||||| | ||||| |||||||||||| | | |||||| ||||||| |||| |||  | ||||||| ||||||||||||||||| |||||    
T  47771667 aaggtattgagagagtgagagaataactattaagcatgagtgcaacagtagccatggttggtctgtcaactacattttcttgaacacaaagtaagccaat 47771568  T
Q  355 atggatacatcttagtatttcatttcgtgaatcattgtttaat 397  Q
    |||||| ||||| | ||||||||||  ||||  ||||||||||    
T  47771567 atggatgcatctcattatttcatttgctgaaatattgtttaat 47771525  T

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

Target: chr1; HSP #8
Raw Score: 51; E-Value: 6e-20
Query Start/End: Original strand, 255 - 397
Target Start/End: Complemental strand, 47775819 - 47775677
Alignment:
Q  255 aaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttggcctgctagctacattctcttgaacacaaagtaatccaat 354  Q
    |||| |||| |||||| | ||||| |||||||||||| | | |||||| ||||||| |||| |||  | ||||||| |||||||||||||||||  ||||    
T  47775819 aaggtattgagagagtgagagaataactattaagcatgagtgcaacagcagccatggttggtctgtcaactacattttcttgaacacaaagtaaggcaat 47775720  T
Q  355 atggatacatcttagtatttcatttcgtgaatcattgtttaat 397  Q
    |||||||||||| | ||||||||||  ||||  ||||||||||    
T  47775719 atggatacatctcattatttcatttgctgaaatattgtttaat 47775677  T

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

Target: chr1; HSP #9
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 512 - 579
Target Start/End: Original strand, 6514779 - 6514846
Alignment:
Q  512 aaagatatgacgacatgaaaagtatgacttacaaagcttgagagatattctgtattctccccatcacg 579  Q
    ||||||||||   ||||| || |||||||||||||||| ||||||||||| |||||||||||||||||    
T  6514779 aaagatatgattgcatgacaattatgacttacaaagctcgagagatattccgtattctccccatcacg 6514846  T

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

Target: chr1; HSP #10
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 1 - 30
Target Start/End: Original strand, 6509869 - 6509898
Alignment:
Q  1 aaaagcaaccagttctaacggacaacatac 30  Q
    ||||||||||||||||||||||||||||||    
T  6509869 aaaagcaaccagttctaacggacaacatac 6509898  T

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

Target: chr5 (Bit Score: 31; Significance: 0.00000005; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 245 - 315
Target Start/End: Original strand, 27367905 - 27367975
Alignment:
Q  245 gcaggttccaaaggcattgggagagtaacagaatcactattaagcatcactacaacagaagccatgcttgg 315  Q
    ||||||| | |||| |||| ||||| || ||||| |||||||||||| ||| |||||||||||||| ||||    
T  27367905 gcaggtttcgaaggtattgagagagcaagagaataactattaagcatgactgcaacagaagccatggttgg 27367975  T

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

Target: chr5; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 320 - 385
Target Start/End: Original strand, 28843804 - 28843869
Alignment:
Q  320 ctagctacattctcttgaacacaaagtaatccaatatggatacatcttagtatttcatttcgtgaa 385  Q
    ||||||||||| ||||| ||||||||||| |||||||| || ||||| |  |||||||||| ||||    
T  28843804 ctagctacattgtcttgcacacaaagtaacccaatatgaatgcatctcatgatttcatttcttgaa 28843869  T

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



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