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: NF11040_low_5 (Length: 631)

Name: NF11040_low_5
Description: NF11040
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF11040_low_5
NF11040_low_5
[»] chr1 (6 HSPs)
chr1 (106-620)||(34591139-34591653)
chr1 (220-452)||(11853644-11853895)
chr1 (153-298)||(34589241-34589391)
chr1 (21-75)||(34591647-34591701)
chr1 (7-73)||(1514354-1514420)
chr1 (5-142)||(32088581-32088715)
[»] chr7 (3 HSPs)
chr7 (29-140)||(15050237-15050348)
chr7 (5-73)||(38123672-38123740)
chr7 (5-140)||(45004965-45005099)
[»] chr4 (4 HSPs)
chr4 (12-73)||(33843988-33844049)
chr4 (5-73)||(10185205-10185273)
chr4 (524-606)||(16866417-16866499)
chr4 (12-78)||(37439151-37439217)
[»] chr3 (4 HSPs)
chr3 (515-582)||(9579478-9579545)
chr3 (524-585)||(1374140-1374201)
chr3 (524-604)||(20545384-20545464)
chr3 (33-73)||(27499395-27499435)
[»] chr6 (2 HSPs)
chr6 (5-107)||(1485152-1485253)
chr6 (12-73)||(30926791-30926852)
[»] chr2 (3 HSPs)
chr2 (5-45)||(33502276-33502316)
chr2 (5-73)||(44439265-44439333)
chr2 (527-575)||(45345409-45345457)


Alignment Details
Target: chr1 (Bit Score: 503; Significance: 0; HSPs: 6)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 503; E-Value: 0
Query Start/End: Original strand, 106 - 620
Target Start/End: Complemental strand, 34591653 - 34591139
Alignment:
Q  106 cttcatgagagcaacacaacaagtcaaaatcaattttgtgtgagggtagtatgaaggtagaagagagattttggcgaaaatgttgaactgaatattattg 205  Q
    |||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34591653 cttcatgagagcaacaaaacaagtcaaaatcaattttgtgtgagggtagtatgaaggtagaagagagattttggcgaaaatgttgaactgaatattattg 34591554  T
Q  206 atcaacatctaaaaaggcttattgtacacgtgaaactaacatctaactaacttgcttgtgatgcaagctatataacaaactaaccaataaacagaatgat 305  Q
    ||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34591553 atcaacatctaaaaaggcttattgtacacatgaaactaacatctaactaacttgcttgtgatgcaagctatataacaaactaaccaataaacagaatgat 34591454  T
Q  306 acaactaacaattaactaacaatagatatgatgtatcacttcctacatattctcccctaaactgaccttataactagtcagtttgcacattccaagcttg 405  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34591453 acaactaacaattaactaacaatagatatgatgtatcacttcctacatattctcccctaaactgaccttataactagtcagtttgcacattccaagcttg 34591354  T
Q  406 tctctcaatttgcagaatgttactaaactcaaaaggcttggtcataatgtcagccagtttatcttgtgatgaacaatgcagaagttgaatgactctgtct 505  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||    
T  34591353 tctctcaatttgcagaatgttactaaactcaaaaggcttggtcataatgtcagccagtttatcttgtgatgaacaatgcagaagttgaatgactctatct 34591254  T
Q  506 ttggtcaagtcacgaagaaagtggaacctgacatcaatgtgtttactccttccatgcatgactggatttttcgacaactttgttgatgaactattgtcac 605  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34591253 ttggtcaagtcacgaagaaagtggaacctgacatcaatgtgtttactccttccatgcatgactggatttttcgacaactttgttgatgaactattgtcac 34591154  T
Q  606 agtgaatggtgatgc 620  Q
    |||||||||||||||    
T  34591153 agtgaatggtgatgc 34591139  T

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

Target: chr1; HSP #2
Raw Score: 64; E-Value: 1e-27
Query Start/End: Original strand, 220 - 452
Target Start/End: Complemental strand, 11853895 - 11853644
Alignment:
Q  220 aggcttattgtacacgtgaaactaacatctaactaacttgcttgtgatgcaagctatataaca------aactaaccaataaacagaatgatacaactaa 313  Q
    |||||||||||||| | ||||||| ||||||||||||||||||||||||||||| || || ||      ||||||| || |||||||||||| |||||||    
T  11853895 aggcttattgtacaagagaaactaccatctaactaacttgcttgtgatgcaagccatctaccattaccaaactaactaacaaacagaatgattcaactaa 11853796  T
Q  314 caattaactaacaatagatatgatgtatcacttccta-catattctcccctaaactgaccttataactagtc--------------agtttgcacattcc 398  Q
    ||||||||||||||  || |   |  || |||||||| ||||| |||||||||||||| |||||||| ||||              |||||||||| |||    
T  11853795 caattaactaacaacggacaaagttaat-acttcctaacatatcctcccctaaactgaacttataacaagtctatttagcaattccagtttgcacagtcc 11853697  T
Q  399 aagcttgtctctcaatttgcagaatgttactaaactcaaaaggcttggtcataa 452  Q
    |||||||||||||||| || |||||||| |||||||| ||||||||||||||||    
T  11853696 aagcttgtctctcaatctggagaatgtttctaaactc-aaaggcttggtcataa 11853644  T

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

Target: chr1; HSP #3
Raw Score: 55; E-Value: 3e-22
Query Start/End: Original strand, 153 - 298
Target Start/End: Complemental strand, 34589391 - 34589241
Alignment:
Q  153 agtatgaaggtagaagagagattttggcgaaaatgttgaactgaatattattgatcaacatct-----aaaaaggcttattgtacacgtgaaactaacat 247  Q
    ||||||||||||||||| ||||||||| ||||||||| ||||||||||| || |||||  | |     | | || || |||||||| ||||||||| |||    
T  34589391 agtatgaaggtagaagaaagattttggtgaaaatgttcaactgaatattttttatcaagttatggcttatatagactaattgtacaagtgaaactaccat 34589292  T
Q  248 ctaactaacttgcttgtgatgcaagctatataacaaactaaccaataaaca 298  Q
    | |||||| ||||||||| |||||||||| ||||||||||||||| |||||    
T  34589291 caaactaatttgcttgtgttgcaagctatctaacaaactaaccaacaaaca 34589241  T

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

Target: chr1; HSP #4
Raw Score: 55; E-Value: 3e-22
Query Start/End: Original strand, 21 - 75
Target Start/End: Complemental strand, 34591701 - 34591647
Alignment:
Q  21 aatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttcatg 75  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  34591701 aatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttcatg 34591647  T

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Target: chr1; HSP #5
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 7 - 73
Target Start/End: Complemental strand, 1514420 - 1514354
Alignment:
Q  7 tgagatgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttca 73  Q
    |||| |||||||||||| || ||||||||||||||| |||||| ||| ||| ||| | |||||||||    
T  1514420 tgagttgaacaataaatttgtgtgtaaaaatcaattatataataaaaagctacaaatcctagcttca 1514354  T

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Target: chr1; HSP #6
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 5 - 142
Target Start/End: Original strand, 32088581 - 32088715
Alignment:
Q  5 agtgagatgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttcatgtattaatcaattctgtacgcaaaatcaat 104  Q
    |||||| |||||||||||| |  |||||||||||| |||||  || ||| |||  || | ||||||||| ||   |||||||| |||| | |||||||||    
T  32088581 agtgagttgaacaataaatttcagtgtaaaaatcactttta--atcaaaagctcgaaatcctagcttcaagttagaatcaattttgtagg-aaaatcaat 32088677  T
Q  105 tcttcatgagagcaacacaacaagtcaaaatcaatttt 142  Q
    ||| | ||||||||||  |||| |||||||||||||||    
T  32088678 tctacttgagagcaaccaaacatgtcaaaatcaatttt 32088715  T

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

Target: chr7 (Bit Score: 40; Significance: 0.0000000000002; HSPs: 3)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 29 - 140
Target Start/End: Complemental strand, 15050348 - 15050237
Alignment:
Q  29 tgtaaaaatcaattttataattaaatgcttcaatttctagcttcatgtattaatcaattctgtacgcaaaatcaattcttcatgagagcaacacaacaag 128  Q
    ||||||||||||||||| |||  || |||  |||||||||||||| |  | ||||||||||  | |||||||||||||| |||||||| |||  |||| |    
T  15050348 tgtaaaaatcaattttagaatggaaagctctaatttctagcttcaagattaaatcaattctacaagcaaaatcaattctacatgagagtaaccaaacagg 15050249  T
Q  129 tcaaaatcaatt 140  Q
    ||||||||||||    
T  15050248 tcaaaatcaatt 15050237  T

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

Target: chr7; HSP #2
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 5 - 73
Target Start/End: Original strand, 38123672 - 38123740
Alignment:
Q  5 agtgagatgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttca 73  Q
    |||||| ||| |||||||| || ||||||||||||||| || ||||| | ||| |||||||||||||||    
T  38123672 agtgagttgaccaataaatttgagtgtaaaaatcaattctagaattagaagctacaatttctagcttca 38123740  T

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Target: chr7; HSP #3
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 5 - 140
Target Start/End: Complemental strand, 45005099 - 45004965
Alignment:
Q  5 agtgagatgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttcatgtattaatcaattctgtacgcaaaatcaat 104  Q
    |||||| |||| ||||||| || |||  || ||||||| |||||| |||  || |||||| |||||||| |||  ||||||||||| | |||||||||||    
T  45005099 agtgagttgaataataaatttgagtgctaagatcaattctataatcaaagcctccaatttttagcttcaagtag-aatcaattctgaaggcaaaatcaat 45005001  T
Q  105 tcttcatgagagcaacacaacaagtcaaaatcaatt 140  Q
    |||    |||||||||  |||| |||||||||||||    
T  45005000 tctattcgagagcaaccaaacatgtcaaaatcaatt 45004965  T

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

Target: chr4 (Bit Score: 34; Significance: 0.0000000009; HSPs: 4)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 34; E-Value: 0.0000000009
Query Start/End: Original strand, 12 - 73
Target Start/End: Complemental strand, 33844049 - 33843988
Alignment:
Q  12 tgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttca 73  Q
    |||||||||||| || |||| ||||||||||||| ||| ||| ||| |||||||||||||||    
T  33844049 tgaacaataaatttgagtgttaaaatcaattttagaatcaaaagctccaatttctagcttca 33843988  T

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

Target: chr4; HSP #2
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 5 - 73
Target Start/End: Complemental strand, 10185273 - 10185205
Alignment:
Q  5 agtgagatgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttca 73  Q
    |||||| | |||||||||| || ||||||| |||||||||| ||| ||| ||||||||||||| |||||    
T  10185273 agtgagttaaacaataaatttgagtgtaaagatcaattttagaatcaaaagcttcaatttctaccttca 10185205  T

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Target: chr4; HSP #3
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 524 - 606
Target Start/End: Complemental strand, 16866499 - 16866417
Alignment:
Q  524 aagtggaacctgacatcaatgtgtttactccttccatgcatgactggatttttcgacaactttgttgatgaactattgtcaca 606  Q
    ||||| ||||||| ||| |||||||| |  |||||||||||||||||||| || || | |||| ||||||| ||||| |||||    
T  16866499 aagtgaaacctgagatctatgtgtttgcatcttccatgcatgactggattcttagatagctttattgatgagctattatcaca 16866417  T

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

Target: chr4; HSP #4
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 12 - 78
Target Start/End: Complemental strand, 37439217 - 37439151
Alignment:
Q  12 tgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttcatgtat 78  Q
    |||||||||||  || ||||||||||||||| || ||||||| |||  |||||||||||||| ||||    
T  37439217 tgaacaataaaattgagtgtaaaaatcaattatagaattaaaagctataatttctagcttcaagtat 37439151  T

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Target: chr3 (Bit Score: 32; Significance: 0.00000001; HSPs: 4)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 32; E-Value: 0.00000001
Query Start/End: Original strand, 515 - 582
Target Start/End: Original strand, 9579478 - 9579545
Alignment:
Q  515 tcacgaagaaagtggaacctgacatcaatgtgtttactccttccatgcatgactggatttttcgacaa 582  Q
    ||||| ||||| || ||||| ||||||||||||||||| |||||||| |  ||||||||||| |||||    
T  9579478 tcacggagaaaatgaaacctcacatcaatgtgtttacttcttccatgtagaactggattttttgacaa 9579545  T

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

Target: chr3; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 524 - 585
Target Start/End: Complemental strand, 1374201 - 1374140
Alignment:
Q  524 aagtggaacctgacatcaatgtgtttactccttccatgcatgactggatttttcgacaactt 585  Q
    ||||||||||| ||||| |||||||| || ||||| ||||| || |||||||| ||||||||    
T  1374201 aagtggaacctcacatcgatgtgtttgcttcttccgtgcataacaggatttttggacaactt 1374140  T

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

Target: chr3; HSP #3
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 524 - 604
Target Start/End: Complemental strand, 20545464 - 20545384
Alignment:
Q  524 aagtggaacctgacatcaatgtgtttactccttccatgcatgactggatttttcgacaactttgttgatgaactattgtca 604  Q
    ||||| ||||||||||| || ||||| |  || ||||||||||||||||| || || | |||| ||||||| |||||||||    
T  20545464 aagtgaaacctgacatctatatgtttgcatctaccatgcatgactggattcttagatagctttattgatgagctattgtca 20545384  T

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

Target: chr3; HSP #4
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 33 - 73
Target Start/End: Original strand, 27499395 - 27499435
Alignment:
Q  33 aaaatcaattttataattaaatgcttcaatttctagcttca 73  Q
    ||||||||||||| ||||||| ||||||||||||| |||||    
T  27499395 aaaatcaattttagaattaaaagcttcaatttctaacttca 27499435  T

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

Target: chr6 (Bit Score: 31; Significance: 0.00000006; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 31; E-Value: 0.00000006
Query Start/End: Original strand, 5 - 107
Target Start/End: Original strand, 1485152 - 1485253
Alignment:
Q  5 agtgagatgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttcatgtattaatcaattctgtacgcaaaatcaat 104  Q
    |||||| |||||||||||| || |||| |||||||||| || ||| ||| ||| |||||||||| |||| |||  ||||||||||  | ||||||| |||    
T  1485152 agtgagttgaacaataaatttgagtgttaaaatcaattctagaatcaaaagctccaatttctagattcaagta-gaatcaattctaaaggcaaaattaat 1485250  T
Q  105 tct 107  Q
    |||    
T  1485251 tct 1485253  T

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

Target: chr6; HSP #2
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 12 - 73
Target Start/End: Original strand, 30926791 - 30926852
Alignment:
Q  12 tgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttca 73  Q
    |||||||||||| || ||||||||||||||| || ||| |||  || |||||||||||||||    
T  30926791 tgaacaataaatttgagtgtaaaaatcaattctagaataaaaaactccaatttctagcttca 30926852  T

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

Target: chr2 (Bit Score: 29; Significance: 0.0000009; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 5 - 45
Target Start/End: Complemental strand, 33502316 - 33502276
Alignment:
Q  5 agtgagatgaacaataaatatgggtgtaaaaatcaatttta 45  Q
    |||||| ||||| ||||||||| ||||||||||||||||||    
T  33502316 agtgagttgaactataaatatgtgtgtaaaaatcaatttta 33502276  T

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

Target: chr2; HSP #2
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 5 - 73
Target Start/End: Complemental strand, 44439333 - 44439265
Alignment:
Q  5 agtgagatgaacaataaatatgggtgtaaaaatcaattttataattaaatgcttcaatttctagcttca 73  Q
    |||||| |||||||||||| || |||| ||||||||||||| ||| ||| ||| ||| || ||||||||    
T  44439333 agtgagttgaacaataaatttgagtgttaaaatcaattttagaatcaaaagctccaaattttagcttca 44439265  T

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

Target: chr2; HSP #3
Raw Score: 29; E-Value: 0.0000009
Query Start/End: Original strand, 527 - 575
Target Start/End: Complemental strand, 45345457 - 45345409
Alignment:
Q  527 tggaacctgacatcaatgtgtttactccttccatgcatgactggatttt 575  Q
    |||||||| ||||| || |||||||| || |||||||||||||||||||    
T  45345457 tggaaccttacatctatatgtttacttctaccatgcatgactggatttt 45345409  T

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