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: NF9372_low_23 (Length: 272)

Name: NF9372_low_23
Description: NF9372
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9372_low_23
NF9372_low_23
[»] chr1 (17 HSPs)
chr1 (1-255)||(4322312-4322566)
chr1 (1-246)||(4334200-4334446)
chr1 (36-113)||(3379472-3379549)
chr1 (46-104)||(2012706-2012764)
chr1 (54-114)||(3341994-3342054)
chr1 (46-173)||(2007155-2007281)
chr1 (54-113)||(3362461-3362520)
chr1 (54-192)||(1793366-1793503)
chr1 (46-104)||(2011209-2011267)
chr1 (46-100)||(2020466-2020520)
chr1 (37-108)||(3193366-3193437)
chr1 (37-108)||(3202184-3202255)
chr1 (37-108)||(3211021-3211092)
chr1 (54-102)||(3373460-3373508)
chr1 (37-108)||(3217821-3217892)
chr1 (36-79)||(6601057-6601100)
chr1 (43-111)||(6591781-6591849)
[»] chr2 (3 HSPs)
chr2 (18-244)||(20953582-20953808)
chr2 (17-254)||(20935037-20935271)
chr2 (36-113)||(20924174-20924251)
[»] chr4 (1 HSPs)
chr4 (45-113)||(21238224-21238292)
[»] chr5 (1 HSPs)
chr5 (38-113)||(17970510-17970585)


Alignment Details
Target: chr1 (Bit Score: 251; Significance: 1e-139; HSPs: 17)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 251; E-Value: 1e-139
Query Start/End: Original strand, 1 - 255
Target Start/End: Original strand, 4322312 - 4322566
Alignment:
Q  1 aaatttccgccatgttatcgaagtttacgcttaaagaaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaata 100  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4322312 aaatttccgccatgttatcgaagtttacgcttaaagaaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaata 4322411  T
Q  101 ctgaagcagaacaacaaaaaaggatttaaattagaatataatgtttttaatacatacggatcaggagttgcatacacatgatcgttgttcatattagaca 200  Q
    ||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4322412 ctgaagcagaacaacaataaaggatttaaattagaatataatgtttttaatacatacggatcaggagttgcatacacatgatcgttgttcatattagaca 4322511  T
Q  201 acaataggtgagtcactcctaaagtcaaattcaaaattcagatgctcaagctttt 255  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4322512 acaataggtgagtcactcctaaagtcaaattcaaaattcagatgctcaagctttt 4322566  T

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Target: chr1; HSP #2
Raw Score: 163; E-Value: 4e-87
Query Start/End: Original strand, 1 - 246
Target Start/End: Original strand, 4334200 - 4334446
Alignment:
Q  1 aaatttccgccatgttatcgaagtttacgcttaaagaaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaata 100  Q
    |||||||| |||||||||||||||||| | |||| |||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||    
T  4334200 aaatttcctccatgttatcgaagtttatggttaaggaaagaaaacttagattaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaata 4334299  T
Q  101 ctgaagcagaacaacaaaa-aaggatttaaattagaatataatgtttttaatacatacggatcaggagttgcatacacatgatcgttgttcatattagac 199  Q
    |||||||| |||||||||| ||||||||||||||||||||||||||||| ||||| || ||||| |||| | ||||||||||| || |||||||||| |     
T  4334300 ctgaagcataacaacaaaagaaggatttaaattagaatataatgtttttgatacacacagatcatgagtggtatacacatgattgtggttcatattaaat 4334399  T
Q  200 aacaataggtgagtcactcctaaagtcaaattcaaaattcagatgct 246  Q
    || |||||||||||| ||||| |||||||||||||||||||||||||    
T  4334400 aataataggtgagtcgctcctgaagtcaaattcaaaattcagatgct 4334446  T

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Target: chr1; HSP #3
Raw Score: 50; E-Value: 1e-19
Query Start/End: Original strand, 36 - 113
Target Start/End: Complemental strand, 3379549 - 3379472
Alignment:
Q  36 gaaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaaca 113  Q
    |||||| |||||||||| |||||||||||||||||||||||||  | | |||||||||||||||||||||||| ||||    
T  3379549 gaaagataacttagatcgatacaaggtgtaggaagctttactgatacatcacctgcagccaaatactgaagcaaaaca 3379472  T

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Target: chr1; HSP #4
Raw Score: 47; E-Value: 7e-18
Query Start/End: Original strand, 46 - 104
Target Start/End: Complemental strand, 2012764 - 2012706
Alignment:
Q  46 ttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactga 104  Q
    |||||| ||||||||||||||||||||||||||||| |||||||||||| |||||||||    
T  2012764 ttagattaatacaaggtgtaggaagctttactggcacaacacctgcagctaaatactga 2012706  T

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Target: chr1; HSP #5
Raw Score: 45; E-Value: 1e-16
Query Start/End: Original strand, 54 - 114
Target Start/End: Complemental strand, 3342054 - 3341994
Alignment:
Q  54 atacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaacaa 114  Q
    |||||||||||||||||||||||||||| || ||||||||||||||||||| ||| |||||    
T  3342054 atacaaggtgtaggaagctttactggcacaatacctgcagccaaatactgaggcaaaacaa 3341994  T

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Target: chr1; HSP #6
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 46 - 173
Target Start/End: Complemental strand, 2007281 - 2007155
Alignment:
Q  46 ttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaacaacaaaaaaggatttaaattagaatataatgtt 145  Q
    |||||| ||||||||||||||||||||||||||| | | |||||||||||||||||||| | | ||| | |||||    | ||||| |||||||||||||    
T  2007281 ttagattaatacaaggtgtaggaagctttactggaacagcacctgcagccaaatactgatgtacaac-ataaaaatttctctaaatcagaatataatgtt 2007183  T
Q  146 tttaatacatacggatcaggagttgcat 173  Q
    || ||||| | | ||||| |||||||||    
T  2007182 ttaaatacttgcagatcaagagttgcat 2007155  T

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Target: chr1; HSP #7
Raw Score: 44; E-Value: 4e-16
Query Start/End: Original strand, 54 - 113
Target Start/End: Complemental strand, 3362520 - 3362461
Alignment:
Q  54 atacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaaca 113  Q
    ||||||||||| |||||||||| ||||| |||||||||||||||||||||||||| ||||    
T  3362520 atacaaggtgtgggaagctttattggcacaacacctgcagccaaatactgaagcaaaaca 3362461  T

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Target: chr1; HSP #8
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 54 - 192
Target Start/End: Complemental strand, 1793503 - 1793366
Alignment:
Q  54 atacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaacaacaaaaaaggatttaaattagaatataatgtttttaatac 153  Q
    |||||||||||||||||| ||  ||||| |||||||||||  ||||||||||| |||| || |||||  | | ||||| |||||||||||||| ||||||    
T  1793503 atacaaggtgtaggaagcattgttggcacaacacctgcagataaatactgaagtagaa-aagaaaaattgctataaatcagaatataatgtttataatac 1793405  T
Q  154 atacggatcaggagttgcatacacatgatcgttgttcat 192  Q
     | | ||||| ||||||||||| ||| || || ||||||    
T  1793404 ttgcagatcaagagttgcatactcattattgtagttcat 1793366  T

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Target: chr1; HSP #9
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 46 - 104
Target Start/End: Complemental strand, 2011267 - 2011209
Alignment:
Q  46 ttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactga 104  Q
    |||||| ||||||||||||||||||||||| ||||| |||||||||||| |||||||||    
T  2011267 ttagattaatacaaggtgtaggaagctttagtggcacaacacctgcagctaaatactga 2011209  T

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Target: chr1; HSP #10
Raw Score: 39; E-Value: 0.0000000000004
Query Start/End: Original strand, 46 - 100
Target Start/End: Complemental strand, 2020520 - 2020466
Alignment:
Q  46 ttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaata 100  Q
    |||||| ||||||||||||||||||||||||||| | |||||||||||| |||||    
T  2020520 ttagattaatacaaggtgtaggaagctttactggaacaacacctgcagctaaata 2020466  T

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Target: chr1; HSP #11
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 37 - 108
Target Start/End: Original strand, 3193366 - 3193437
Alignment:
Q  37 aaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagca 108  Q
    |||||||||||||||  |||||| |||| ||||||||||| |||| | |||||||| ||||||||| |||||    
T  3193366 aaagaaaacttagattgatacaacgtgtcggaagctttacgggcacatcacctgcatccaaatacttaagca 3193437  T

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Target: chr1; HSP #12
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 37 - 108
Target Start/End: Original strand, 3202184 - 3202255
Alignment:
Q  37 aaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagca 108  Q
    |||||||||||||||  |||||| |||| ||||||||||| |||| | |||||||| ||||||||| |||||    
T  3202184 aaagaaaacttagattgatacaacgtgtcggaagctttacgggcacatcacctgcatccaaatacttaagca 3202255  T

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Target: chr1; HSP #13
Raw Score: 36; E-Value: 0.00000000002
Query Start/End: Original strand, 37 - 108
Target Start/End: Original strand, 3211021 - 3211092
Alignment:
Q  37 aaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagca 108  Q
    |||||||||||||||  |||||| |||| ||||||||||| |||| | |||||||| ||||||||| |||||    
T  3211021 aaagaaaacttagattgatacaacgtgtcggaagctttacgggcacatcacctgcatccaaatacttaagca 3211092  T

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Target: chr1; HSP #14
Raw Score: 33; E-Value: 0.000000002
Query Start/End: Original strand, 54 - 102
Target Start/End: Complemental strand, 3373508 - 3373460
Alignment:
Q  54 atacaaggtgtaggaagctttactggcaaaacacctgcagccaaatact 102  Q
    |||||||||| ||||||||||||||||| | || |||||||||||||||    
T  3373508 atacaaggtgcaggaagctttactggcacatcatctgcagccaaatact 3373460  T

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Target: chr1; HSP #15
Raw Score: 32; E-Value: 0.000000006
Query Start/End: Original strand, 37 - 108
Target Start/End: Original strand, 3217821 - 3217892
Alignment:
Q  37 aaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagca 108  Q
    ||||| |||||| ||  ||||||||||| ||||| ||||| |||| | |||||||| |||||||||||||||    
T  3217821 aaagagaacttaaattgatacaaggtgtcggaagttttaccggcacatcacctgcatccaaatactgaagca 3217892  T

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Target: chr1; HSP #16
Raw Score: 32; E-Value: 0.000000006
Query Start/End: Original strand, 36 - 79
Target Start/End: Original strand, 6601057 - 6601100
Alignment:
Q  36 gaaagaaaacttagatcaatacaaggtgtaggaagctttactgg 79  Q
    |||||| ||||||||||||| ||||| |||||||||||||||||    
T  6601057 gaaagataacttagatcaatgcaaggggtaggaagctttactgg 6601100  T

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Target: chr1; HSP #17
Raw Score: 29; E-Value: 0.0000004
Query Start/End: Original strand, 43 - 111
Target Start/End: Original strand, 6591781 - 6591849
Alignment:
Q  43 aacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaa 111  Q
    ||||||||||||| ||  | |||||||||| |||||||| ||| |||  |||||||||||| |||||||    
T  6591781 aacttagatcaatgcaccgggtaggaagctctactggcacaacccctaaagccaaatactggagcagaa 6591849  T

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Target: chr2 (Bit Score: 80; Significance: 1e-37; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 80; E-Value: 1e-37
Query Start/End: Original strand, 18 - 244
Target Start/End: Complemental strand, 20953808 - 20953582
Alignment:
Q  18 tcgaagtttacgcttaaagaaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaacaacaa 117  Q
    |||||||||| || ||| |||||| | ||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||  || | ||    
T  20953808 tcgaagtttatgcataaggaaagatagcttagataaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagca-caccagaa 20953710  T
Q  118 aaaaggatttaaattagaatataatgtttttaatacatacggatcaggagttgcatac-acatgatcgttgttcatattagacaacaataggtgagtcac 216  Q
    ||| |  | ||||| |||||| || ||||||||| ||||  |||||||||||| |||| | ||||| ||  ||||||||| | |  ||||||  ||||||    
T  20953709 aaatgactctaaatcagaatacaaggtttttaatgcataaagatcaggagttgaatacaaaatgattgtgattcatattaaatagtaataggcaagtcac 20953610  T
Q  217 tcctaaagtcaaattcaaaattcagatg 244  Q
    | | |||||||||||||| |||||||||    
T  20953609 tacaaaagtcaaattcaatattcagatg 20953582  T

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Target: chr2; HSP #2
Raw Score: 79; E-Value: 5e-37
Query Start/End: Original strand, 17 - 254
Target Start/End: Complemental strand, 20935271 - 20935037
Alignment:
Q  17 atcgaagtttacgcttaaagaaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaacaaca 116  Q
    ||||||||||| ||| || ||||||  ||||||||| |||||||||||||||||||||  ||||||||||||||||| || |||||||||| |||  | |    
T  20935271 atcgaagtttatgctcaaggaaagatgacttagatccatacaaggtgtaggaagcttttttggcaaaacacctgcagtcagatactgaagc-gaaacaga 20935173  T
Q  117 aaaaaggatttaaattagaatataatgtttttaatacatacggatcaggagttgcatacacatgatcgttgttcatattagacaacaataggtgagtcac 216  Q
    |||| ||  |||| | ||||||| | ||||||||||||||| |||||| |||||| |||||||||   |  ||||||||| | |  | |||||||||||     
T  20935172 aaaatggcattaattcagaatattaagtttttaatacatacagatcagaagttgcttacacatga--atgattcatattaaatagtattaggtgagtcag 20935075  T
Q  217 tcctaaagtcaaattcaaaattcagatgctcaagcttt 254  Q
    |||||||||||||||||| ||||||||| || ||||||    
T  20935074 tcctaaagtcaaattcaatattcagatgttcgagcttt 20935037  T

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

Target: chr2; HSP #3
Raw Score: 50; E-Value: 1e-19
Query Start/End: Original strand, 36 - 113
Target Start/End: Complemental strand, 20924251 - 20924174
Alignment:
Q  36 gaaagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaaca 113  Q
    ||||||||  |||||| ||||||| |||||||||||||||||||||  ||||||||||||||||||||||||| ||||    
T  20924251 gaaagaaatgttagattaatacaaagtgtaggaagctttactggcaccacacctgcagccaaatactgaagcaaaaca 20924174  T

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Target: chr4 (Bit Score: 53; Significance: 2e-21; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 53; E-Value: 2e-21
Query Start/End: Original strand, 45 - 113
Target Start/End: Complemental strand, 21238292 - 21238224
Alignment:
Q  45 cttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaaca 113  Q
    ||||||| ||||||||||||||||||||||||||| |  ||||||||||||||||||||||||||||||    
T  21238292 cttagatgaatacaaggtgtaggaagctttactggaacgacacctgcagccaaatactgaagcagaaca 21238224  T

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Target: chr5 (Bit Score: 32; Significance: 0.000000006; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 32; E-Value: 0.000000006
Query Start/End: Original strand, 38 - 113
Target Start/End: Complemental strand, 17970585 - 17970510
Alignment:
Q  38 aagaaaacttagatcaatacaaggtgtaggaagctttactggcaaaacacctgcagccaaatactgaagcagaaca 113  Q
    |||| |||| |||||||||  |||||| ||||||| |||||| | || ||||||||||||||||| ||||| ||||    
T  17970585 aagagaactaagatcaataataggtgtcggaagctctactggaacaatacctgcagccaaatactaaagcaaaaca 17970510  T

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