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: NF13878_low_5 (Length: 562)

Name: NF13878_low_5
Description: NF13878
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF13878_low_5
NF13878_low_5
[»] chr1 (10 HSPs)
chr1 (16-562)||(48656404-48656950)
chr1 (107-499)||(48618044-48618436)
chr1 (260-562)||(48652956-48653258)
chr1 (260-549)||(48628715-48629004)
chr1 (260-497)||(11547132-11547369)
chr1 (429-532)||(48639763-48639866)
chr1 (430-532)||(48667010-48667112)
chr1 (430-522)||(48661425-48661517)
chr1 (444-505)||(48585217-48585278)
chr1 (118-199)||(11547430-11547511)
[»] chr3 (1 HSPs)
chr3 (21-505)||(19665314-19665798)
[»] chr8 (4 HSPs)
chr8 (260-358)||(27228207-27228305)
chr8 (134-346)||(27224028-27224240)
chr8 (416-532)||(27223842-27223958)
chr8 (420-532)||(27228033-27228145)
[»] chr2 (1 HSPs)
chr2 (262-312)||(44044611-44044661)


Alignment Details
Target: chr1 (Bit Score: 527; Significance: 0; HSPs: 10)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 527; E-Value: 0
Query Start/End: Original strand, 16 - 562
Target Start/End: Complemental strand, 48656950 - 48656404
Alignment:
Q  16 atttatttgacgatggtttgaaagacgatgatcccatgagaacaagtcttggtgactacacatcacagcttgagcatgtcgggaaactatatgtttccca 115  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  48656950 atttatttgacgatggtttgaaagacgatgatcccatgagaacaagtcttggtgactacacatcacagcttgagcatgtcgggaaactatatgtttccca 48656851  T
Q  116 attgatcaaaaatcatgctgagtcaaaaacaccaatttcttgcatcataaacaacattttcatttcatgggtttgtgatgtagccacagaacacaaaatt 215  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  48656850 attgatcaaaaatcatgctgagtcaaaaacaccaatttcttgcatcataaacaacattttcatttcatgggtttgtgatgtagccacagaacacaaaatt 48656751  T
Q  216 ccttttgctattttgtttaatgaatctagtgctgttgtcacttgttactataactatttccacaaactggtgcctttcccttcaaaaacagaaccttgta 315  Q
    |||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  48656750 ccttttgctattttgtttaatgaatctagtgctgttttcacttgttactataactatttccacaaactggtgcctttcccttcaaaaacagaaccttgta 48656651  T
Q  316 ttgatgttcaattgccttctgtagtccttaaacacagtgaaattcctgttcttctgcagccttctaatacagatccctttctaggcccgctcattttagg 415  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||| |||||||||||||||| |||||||||||    
T  48656650 ttgatgttcaattgccttctgtagtccttaaacacagtgaaattcctgttcttctgcatccttctaatacatatccctttctaggcccactcattttagg 48656551  T
Q  416 acaaattaagaatttgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaagtcagtcatc 515  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||    
T  48656550 acaaattaagaatttgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaagtcaatcatc 48656451  T
Q  516 ataagaccaattggtccggtgttcaacaacccaaacataataggtgc 562  Q
    |||||||||||||||||||||||||||||||||||||||||||||||    
T  48656450 ataagaccaattggtccggtgttcaacaacccaaacataataggtgc 48656404  T

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

Target: chr1; HSP #2
Raw Score: 77; E-Value: 2e-35
Query Start/End: Original strand, 107 - 499
Target Start/End: Original strand, 48618044 - 48618436
Alignment:
Q  107 tgtttcccaattgatcaaaaatcatgctgagtcaaaaacaccaatttcttgcatcataaacaacattttcatttcatgggtttgtgatgtagccacagaa 206  Q
    |||||| ||| ||||||| ||||||||||| ||||| | |||| |||| || |||||||||||   |||  || |||||||||||||||||||    |||    
T  48618044 tgtttctcaaatgatcaagaatcatgctgattcaaacaaaccattttcatgtatcataaacaatccttttgttccatgggtttgtgatgtagctgatgaa 48618143  T
Q  207 cacaaaattccttttgctattttgtttaatgaatctagtgctgttgtcacttgttactataactatttccacaaactggtgcctttcccttcaaaaacag 306  Q
    ||    ||||||| |||| | || |  | | |||| | ||||||| |  ||  ||||||||||||||||||||||||||| | |||||||||| ||||||    
T  48618144 catggtattccttctgctttgttatggattcaatcaactgctgttttttctgcttactataactatttccacaaactggtacgtttcccttcacaaacag 48618243  T
Q  307 aaccttgtattgatgttcaattgccttctgtagtccttaaacacagtgaaattcctgttcttctgcagccttctaatacagatccctttctaggcccgct 406  Q
    |||||| ||||||||||||||| |||| |  ||| |||||| ||| |||||| || | | |||| || |||| || |  |  ||| ||||||||  | ||    
T  48618244 aaccttatattgatgttcaattaccttttcaagttcttaaatacaatgaaatcccagattttcttcatccttttagtcaatttccatttctagggacact 48618343  T
Q  407 cattttaggacaaattaagaatttgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttc 499  Q
    ||| |||| |||  |||||||||||||||||| ||| ||||| || || || ||||||||||||||||||| |||||| || || ||||||||    
T  48618344 catcttagaacagtttaagaatttgtctaaagtattttgtgttttagtagaaacctatgaagaactagagcatgatttcattgactatatttc 48618436  T

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

Target: chr1; HSP #3
Raw Score: 75; E-Value: 3e-34
Query Start/End: Original strand, 260 - 562
Target Start/End: Complemental strand, 48653258 - 48652956
Alignment:
Q  260 ttactataactatttccacaaactggtgcctttcccttcaaaaacagaaccttgtattgatgttcaattgccttctgtagtccttaaacacagtgaaatt 359  Q
    |||||| |||||||||||||||||||| | ||||||||||||   |||||||| ||||||||||||||| |||| |||||| |||||||| | ||||||     
T  48653258 ttactacaactatttccacaaactggtacgtttcccttcaaatgaagaaccttatattgatgttcaattaccttttgtagttcttaaacataatgaaatc 48653159  T
Q  360 cctgttcttctgcagccttctaatacagatccctttctaggcccgctcattttaggacaaattaagaatttgtctaaagcattgtgtgtatttgtggata 459  Q
    || | | ||||||| |||| || ||||  ||  |   | ||  | ||| | |||| ||||||||||||||| ||||||| ||| ||||| || || || |    
T  48653158 ccagattttctgcatccttttagtacatttctatcatttgggacactcgtcttagaacaaattaagaatttatctaaagtattttgtgttttagtagaaa 48653059  T
Q  460 cctatgaagaactagagcctgattttatcgattatatttcggaaaagtcagtcatcataagaccaattggtccggtgttcaacaacccaaacataatagg 559  Q
    |||||||||||||||||| |||||| || || ||||||||  | || ||| || |||||||||| ||||||||  |||| |||||| ||||||| | |||    
T  48653058 cctatgaagaactagagcatgatttcattgactatatttcaaacaaatcaatcctcataagacccattggtccattgtttaacaactcaaacattaaagg 48652959  T
Q  560 tgc 562  Q
    |||    
T  48652958 tgc 48652956  T

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

Target: chr1; HSP #4
Raw Score: 62; E-Value: 2e-26
Query Start/End: Original strand, 260 - 549
Target Start/End: Complemental strand, 48629004 - 48628715
Alignment:
Q  260 ttactataactatttccacaaactggtgcctttcccttcaaaaacagaaccttgtattgatgttcaattgccttctgtagtccttaaacacagtgaaatt 359  Q
    ||||||||||||| |||||||||| || ||||| |||||| |||||||||||| |||||||||||| ||||||| | ||||||||||| ||| ||||||     
T  48629004 ttactataactatgtccacaaacttgtaccttttccttcagaaacagaaccttatattgatgttcatttgccttttatagtccttaaatacaatgaaatc 48628905  T
Q  360 cctgttcttctgcagccttctaatacagatccctttctaggcccgctcattttaggacaaattaagaatttgtctaaagcattgtgtgtatttgtggata 459  Q
    || | | |    || |||| |||| |  ||||  |||||||  | |||||      ||| || || || ||||| |||  ||| |||||||| | |||||    
T  48628904 ccagatttaacacatccttttaatccctatccaattctagggacactcatcacgtcacatatgaataacttgtccaaaatattttgtgtattagcggata 48628805  T
Q  460 cctatgaagaactagagcctgattttatcgattatatttcggaaaagtcagtcatcataagaccaattggtccggtgttcaacaacccaa 549  Q
    |||||||||||||||||| |||||| ||||||||| ||||  |||| |||||| |||| ||||| ||||||||  ||||||| |||||||    
T  48628804 cctatgaagaactagagcatgatttcatcgattatctttccaaaaaatcagtcctcattagacccattggtcctctgttcaagaacccaa 48628715  T

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

Target: chr1; HSP #5
Raw Score: 54; E-Value: 9e-22
Query Start/End: Original strand, 260 - 497
Target Start/End: Complemental strand, 11547369 - 11547132
Alignment:
Q  260 ttactataactatttccacaaactggtgcctttcccttcaaaaacagaaccttgtattgatgttcaattgccttctgtagtccttaaacacagtgaaatt 359  Q
    |||||||||||||||| |||||||||| | ||| ||||   ||| |||||||| ||||||||||||||| |||| |  |||||||||| ||| ||||||     
T  11547369 ttactataactatttcaacaaactggtacattttcctttggaaaaagaaccttatattgatgttcaattaccttttcaagtccttaaatacaatgaaatc 11547270  T
Q  360 cctgttcttctgcagccttctaatacagatccctttctaggcccgctcattttaggacaaattaagaatttgtctaaagcattgtgtgtatttgtggata 459  Q
    || | | |||| || |||| || | || |||| ||||||||  | ||||| |||| |||  |||||||||| |||||||  || ||||| || || || |    
T  11547269 ccagattttcttcatccttttagtccatatccatttctagggacactcatcttagaacagtttaagaatttatctaaagtgttttgtgttttagtagaaa 11547170  T
Q  460 cctatgaagaactagagcctgattttatcgattatatt 497  Q
    |||||||||||||||| | |||||| || || ||||||    
T  11547169 cctatgaagaactagaacatgatttcattgactatatt 11547132  T

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

Target: chr1; HSP #6
Raw Score: 52; E-Value: 1e-20
Query Start/End: Original strand, 429 - 532
Target Start/End: Complemental strand, 48639866 - 48639763
Alignment:
Q  429 ttgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaagtcagtcatcataagaccaattg 528  Q
    ||||||||||  || |||||||| ||||||||||||||||||||||||| |||||| || |||||||||||  |||| ||| ||| ||||||||| ||||    
T  48639866 ttgtctaaagtgttttgtgtattagtggatacctatgaagaactagagcatgatttcatagattatatttcaaaaaaatcaatcaccataagacctattg 48639767  T
Q  529 gtcc 532  Q
    ||||    
T  48639766 gtcc 48639763  T

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

Target: chr1; HSP #7
Raw Score: 47; E-Value: 1e-17
Query Start/End: Original strand, 430 - 532
Target Start/End: Complemental strand, 48667112 - 48667010
Alignment:
Q  430 tgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaagtcagtcatcataagaccaattgg 529  Q
    |||||||||  || |||||||| |||||||||| ||||||| |||||| |||||| |||||||||||||||||||| ||| ||  |||||||||  ||||    
T  48667112 tgtctaaagtgttttgtgtattagtggatacctttgaagaattagagcatgatttcatcgattatatttcggaaaaatcaatcgccataagacccgttgg 48667013  T
Q  530 tcc 532  Q
    |||    
T  48667012 tcc 48667010  T

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

Target: chr1; HSP #8
Raw Score: 41; E-Value: 0.00000000000005
Query Start/End: Original strand, 430 - 522
Target Start/End: Complemental strand, 48661517 - 48661425
Alignment:
Q  430 tgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaagtcagtcatcataagac 522  Q
    |||||||||  || |||||||| |||||||||| ||||||| |||||| |||||| ||||||||||||||  |||| ||| ||| ||||||||    
T  48661517 tgtctaaagtgttttgtgtattagtggatacctttgaagaattagagcatgatttcatcgattatatttcaaaaaaatcaatcaccataagac 48661425  T

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

Target: chr1; HSP #9
Raw Score: 38; E-Value: 0.000000000003
Query Start/End: Original strand, 444 - 505
Target Start/End: Complemental strand, 48585278 - 48585217
Alignment:
Q  444 tgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaa 505  Q
    |||||||| ||||||||||||||||||||||||| ||| || || |||||||||||| ||||    
T  48585278 tgtgtattagtggatacctatgaagaactagagcatgaattcatagattatatttcgaaaaa 48585217  T

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

Target: chr1; HSP #10
Raw Score: 34; E-Value: 0.0000000008
Query Start/End: Original strand, 118 - 199
Target Start/End: Complemental strand, 11547511 - 11547430
Alignment:
Q  118 tgatcaaaaatcatgctgagtcaaaaacaccaatttcttgcatcataaacaacattttcatttcatgggtttgtgatgtagc 199  Q
    ||||||| ||||||| ||||||||| | |||||||||||| |||||||||||   |||  || | |||||||||||||||||    
T  11547511 tgatcaagaatcatgttgagtcaaacaaaccaatttcttgtatcataaacaatccttttgttccttgggtttgtgatgtagc 11547430  T

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

Target: chr3 (Bit Score: 74; Significance: 1e-33; HSPs: 1)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 74; E-Value: 1e-33
Query Start/End: Original strand, 21 - 505
Target Start/End: Original strand, 19665314 - 19665798
Alignment:
Q  21 tttgacgatggtttgaaagacgatgatcccatgagaacaagtcttggtgactacacatcacagcttgagcatgtcgggaaactatatgtttcccaattga 120  Q
    ||||| ||||||||  |||| ||||||||||| ||| ||||||||||||  ||| || |||||||||||| ||| |||| |   | | |||| ||| |||    
T  19665314 tttgatgatggtttagaagatgatgatcccattagagcaagtcttggtggatactcaacacagcttgagcttgttgggacaaagtttctttctcaaatga 19665413  T
Q  121 tcaaaaatcatgctgagtcaaaaacaccaatttcttgcatcataaacaa-cattttcatttcatgggtttgtgatgtagccacagaacacaaaattcctt 219  Q
    | || ||||||  ||||||||| | ||| |||||||||||||||||||| | ||||| || |||||||||||||||||||  |  ||||  | |||||||    
T  19665414 ttaagaatcataatgagtcaaacaaacctatttcttgcatcataaacaatccttttc-ttccatgggtttgtgatgtagcttctcaacatgatattcctt 19665512  T
Q  220 ttgctattttgtttaatgaatctagtgctgttgtcacttgttactataactatttccacaaactggtgcctttcccttcaaaaacagaaccttgtattga 319  Q
     |||| | || |  | | |||| | ||||||| |||||  ||||||||||||||| || |||  ||| | |||||||||  ||| |||||||| ||||||    
T  19665513 ctgctttgttatggattcaatccactgctgttttcactgcttactataactattttcataaaacggtacgtttcccttcggaaaaagaaccttatattga 19665612  T
Q  320 tgttcaattgccttctgtagtccttaaacacagtgaaattcctgttcttctgcagccttctaatacagatccctttctaggcccgctcattttaggacaa 419  Q
    || |||||| ||||  ||||  |||||||| |  ||||| || | | |||| || |||| || || | || | ||||||||  | |||||||||| |||     
T  19665613 tgctcaattacctttcgtagctcttaaacataacgaaataccggattttctacatccttttagtaaatattcatttctagggacactcattttagaacag 19665712  T
Q  420 attaagaatttgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaa 505  Q
     |||||||||| |||||||  || |||||||| |||||||  ||||| |||||||||| |||||  ||||| ||||||||| ||||    
T  19665713 tttaagaatttatctaaagtgttttgtgtattggtggatagttatgatgaactagagcatgattacatcgactatatttcgaaaaa 19665798  T

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

Target: chr8 (Bit Score: 55; Significance: 2e-22; HSPs: 4)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 55; E-Value: 2e-22
Query Start/End: Original strand, 260 - 358
Target Start/End: Complemental strand, 27228305 - 27228207
Alignment:
Q  260 ttactataactatttccacaaactggtgcctttcccttcaaaaacagaaccttgtattgatgttcaattgccttctgtagtccttaaacacagtgaaat 358  Q
    ||||||||||||||| ||||||||||| | ||||||||| ||  ||||||||| |||||||||||||||| ||||| ||||||||||| ||| ||||||    
T  27228305 ttactataactattttcacaaactggtacgtttcccttcgaatgcagaaccttatattgatgttcaattgtcttctctagtccttaaatacaatgaaat 27228207  T

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

Target: chr8; HSP #2
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 134 - 346
Target Start/End: Complemental strand, 27224240 - 27224028
Alignment:
Q  134 tgagtcaaaaacaccaatttcttgcatcataaacaa-cattttcatttcatgggtttgtgatgtagccacagaacacaaaattccttttgctattttgtt 232  Q
    ||||||||| ||||| |||||||| ||||||||||| | ||||| || |||||||||||||||||||    ||| |  | ||||||| |||| | || |     
T  27224240 tgagtcaaatacaccgatttcttgtatcataaacaatccttttc-ttccatgggtttgtgatgtagctgttgaaaatgagattccttctgctttattatg 27224142  T
Q  233 taatgaatctagtgctgttgtcacttgttactataactatttccacaaactggtgcctttcccttcaaaaacagaaccttgtattgatgttcaattgcct 332  Q
       | |||||||||||||| || |   ||||||||||||||||||||||||||| | |||||||||      |||||| | |||||||||||||||| ||    
T  27224141 ggttcaatctagtgctgttttcgccgcttactataactatttccacaaactggtacgtttcccttcggttgaagaaccatatattgatgttcaattgtct 27224042  T
Q  333 tctgtagtccttaa 346  Q
    |||||||| |||||    
T  27224041 tctgtagttcttaa 27224028  T

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

Target: chr8; HSP #3
Raw Score: 41; E-Value: 0.00000000000005
Query Start/End: Original strand, 416 - 532
Target Start/End: Complemental strand, 27223958 - 27223842
Alignment:
Q  416 acaaattaagaatttgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaagtcagtcatc 515  Q
    |||||||||||| ||||||||||  || |||||||| || ||||| ||||| |||||||| | |||||| ||||| ||| ||||  |||| |||||||      
T  27223958 acaaattaagaacttgtctaaagtgttttgtgtattggttgatacgtatgaggaactagaacatgatttcatcgactatgtttctaaaaattcagtcaaa 27223859  T
Q  516 ataagaccaattggtcc 532  Q
    |||||||| ||||||||    
T  27223858 ataagacctattggtcc 27223842  T

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

Target: chr8; HSP #4
Raw Score: 29; E-Value: 0.0000008
Query Start/End: Original strand, 420 - 532
Target Start/End: Complemental strand, 27228145 - 27228033
Alignment:
Q  420 attaagaatttgtctaaagcattgtgtgtatttgtggatacctatgaagaactagagcctgattttatcgattatatttcggaaaagtcagtcatcataa 519  Q
    |||||||| ||||||||||  || |||||||| |||||||||||||| ||| | || | |||||| ||  ||||||||||  || | || ||| | ||||    
T  27228145 attaagaacttgtctaaagtgttttgtgtattggtggatacctatgaggaattggaacatgatttcataaattatatttcaaaatattctgtcttaataa 27228046  T
Q  520 gaccaattggtcc 532  Q
    |||| ||||||||    
T  27228045 gacccattggtcc 27228033  T

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

Target: chr2 (Bit Score: 31; Significance: 0.00000005; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.00000005
Query Start/End: Original strand, 262 - 312
Target Start/End: Original strand, 44044611 - 44044661
Alignment:
Q  262 actataactatttccacaaactggtgcctttcccttcaaaaacagaacctt 312  Q
    ||||||||||||| |||||||||||   |||||||||| ||||||||||||    
T  44044611 actataactattttcacaaactggtatgtttcccttcagaaacagaacctt 44044661  T

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