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: NF5039_low_31 (Length: 317)

Name: NF5039_low_31
Description: NF5039
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5039_low_31
NF5039_low_31
[»] chr4 (5 HSPs)
chr4 (20-308)||(48912107-48912395)
chr4 (41-297)||(48958294-48958550)
chr4 (43-308)||(48965478-48965743)
chr4 (23-165)||(48961425-48961567)
chr4 (59-186)||(48951399-48951526)
[»] scaffold0536 (2 HSPs)
scaffold0536 (20-294)||(6287-6561)
scaffold0536 (20-308)||(10257-10543)
[»] chr6 (2 HSPs)
chr6 (57-297)||(12589942-12590182)
chr6 (57-297)||(12483237-12483477)
[»] chr2 (3 HSPs)
chr2 (57-244)||(13440363-13440550)
chr2 (43-206)||(13448512-13448675)
chr2 (60-147)||(13455000-13455087)
[»] chr7 (1 HSPs)
chr7 (43-266)||(3417334-3417557)
[»] chr5 (2 HSPs)
chr5 (43-244)||(28385483-28385684)
chr5 (57-249)||(12540848-12541040)
[»] chr8 (1 HSPs)
chr8 (57-198)||(12641353-12641494)


Alignment Details
Target: chr4 (Bit Score: 281; Significance: 1e-157; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 281; E-Value: 1e-157
Query Start/End: Original strand, 20 - 308
Target Start/End: Complemental strand, 48912395 - 48912107
Alignment:
Q  20 caacccttaataatcatagccttcttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtcc 119  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||    
T  48912395 caacccttaataatcatagccttcttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcattctccgtcc 48912296  T
Q  120 gtttcttttcaggaacaacccatatgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttcc 219  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||    
T  48912295 gtttcttttcaggaacaacccatatgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacattggcttcc 48912196  T
Q  220 aaagcatatgtacaccaccgagttatcttgtttcgagttaagccaactcaaacactcgtgcacactcacaacactctcttctcctctct 308  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  48912195 aaagcatatgtacaccaccgagttatcttgtttcgagttaagccaactcaaacactcgtgcacactcacaacactctcttctcctctct 48912107  T

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

Target: chr4; HSP #2
Raw Score: 85; E-Value: 2e-40
Query Start/End: Original strand, 41 - 297
Target Start/End: Original strand, 48958294 - 48958550
Alignment:
Q  41 ttcttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaaccc 140  Q
    ||||||||||| ||  |||||||||| || || || |||||||| ||| |||||||||||||| | || |  ||  ||| |||||| |||||||||||||    
T  48958294 ttcttctttccaatgtttctctcttcgaatcctttcggcaaccactttcctttctcctcttcactctcgtcttctttccctttcttctcaggaacaaccc 48958393  T
Q  141 atatgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttccaaagcatatgtacaccaccga 240  Q
    |||  ||||||||||  |||||||| ||||| |||||||||||||||||||||||||| || |||| ||||  |||||||||||||||||||| ||| ||    
T  48958394 atacaaattcgtgacctgatgcttctatcccacacgcaatctcataaagttgtttatcagataaataacatatgcttccaaagcatatgtacaacactga 48958493  T
Q  241 gttatcttgtttcgagttaagccaactcaaacactcgtgcacactcacaacactctc 297  Q
    ||||| |   ||| |||| |||||||||| |||  | |||||||| |||||| ||||    
T  48958494 gttatgtctcttcaagttgagccaactcagacaaccatgcacactaacaacattctc 48958550  T

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

Target: chr4; HSP #3
Raw Score: 58; E-Value: 2e-24
Query Start/End: Original strand, 43 - 308
Target Start/End: Original strand, 48965478 - 48965743
Alignment:
Q  43 cttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccat 142  Q
    ||||||||| ||  |||||||||| || |||||||| ||||| ||||  |||||||||||| | |||| |||  |||  || ||    |||| |||||||    
T  48965478 cttctttccaatgtttctctcttcgaatccctttggtaaccacttttgcttctcctcttcactctcatcctctttcccgttattaaggggaataacccat 48965577  T
Q  143 atgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttccaaagcatatgtacaccaccgagt 242  Q
    || || || |||| ||||||||| ||  | ||||||||||||||||| |||||||||  | || ||||  |||||||||||| |||||||| ||| ||||    
T  48965578 ataaaatcatgacccgatgcttctattgcacacgcaatctcataaagctgtttatcctgataacgacagaggcttccaaagcttatgtacaacactgagt 48965677  T
Q  243 tatcttgtttcgagttaagccaactcaaacactcgtgcacactcacaacactctcttctcctctct 308  Q
    ||| | | || || || ||||||||||||||||| ||||| |||||  ||||||||| ||| ||||    
T  48965678 tatgtcgcttggaattgagccaactcaaacactcttgcacgctcactgcactctcttgtcccctct 48965743  T

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

Target: chr4; HSP #4
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 23 - 165
Target Start/End: Original strand, 48961425 - 48961567
Alignment:
Q  23 cccttaataatcatagccttcttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtt 122  Q
    |||||||| |||| | ||||||||||| | ||  ||||||||||||| || || |||||||| || ||||||||||||||  | |||| | |  ||| ||    
T  48961425 cccttaatgatcaaacccttcttcttttcaatgtttctctcttcaaatcctttcggcaaccacttgtctttctcctcttcgctctcatccactttccctt 48961524  T
Q  123 tcttttcaggaacaacccatatgaattcgtgactcgatgcttc 165  Q
    | || ||||||||||||||||  |||||||||| |||||||||    
T  48961525 ttttctcaggaacaacccatacaaattcgtgacccgatgcttc 48961567  T

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

Target: chr4; HSP #5
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 59 - 186
Target Start/End: Original strand, 48951399 - 48951526
Alignment:
Q  59 ctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccatatgaattcgtgactcg 158  Q
    |||||||||||| || | || ||||||||||| |||||||| ||| | || | |||| |||  |||||||| || ||||||||||||||||| | ||  |    
T  48951399 ctctcttcaaactccctgggtaaccatttttccttctcctcatcactctcgttctccttccccttcttttctgggacaacccatatgaattcataacctg 48951498  T
Q  159 atgcttcaatcccgcacgcaatctcata 186  Q
    || |||| ||| |||  |||||||||||    
T  48951499 attcttctatcgcgcttgcaatctcata 48951526  T

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

Target: scaffold0536 (Bit Score: 135; Significance: 2e-70; HSPs: 2)
Name: scaffold0536
Description:

Target: scaffold0536; HSP #1
Raw Score: 135; E-Value: 2e-70
Query Start/End: Original strand, 20 - 294
Target Start/End: Complemental strand, 6561 - 6287
Alignment:
Q  20 caacccttaataatcatagccttcttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtcc 119  Q
    |||||| ||||||||| | ||||||||||||||||| |||||||||| || |||||||||||||||||| |||||||||||||| | ||||  ||  |||    
T  6561 caacccctaataatcaaacccttcttctttccgatatttctctcttcgaatccctttggcaaccattttcctttctcctcttcactctcatcttctttcc 6462  T
Q  120 gtttcttttcaggaacaacccatatgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttcc 219  Q
     |||||| |||||||||||||||||||||| ||||| ||||||||| ||||| || |||||||| ||||||||||||||||  ||| | |||  ||||||    
T  6461 ctttcttctcaggaacaacccatatgaatttgtgacccgatgcttctatcccacatgcaatctcgtaaagttgtttatccgggaaaaggcataagcttcc 6362  T
Q  220 aaagcatatgtacaccaccgagttatcttgtttcgagttaagccaactcaaacactcgtgcacactcacaacact 294  Q
    |||||||||||||| ||| ||||||||| | |||||||  |||||||||| |||||| |||||||||||||||||    
T  6361 aaagcatatgtacaacactgagttatctggcttcgagtctagccaactcagacactcatgcacactcacaacact 6287  T

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

Target: scaffold0536; HSP #2
Raw Score: 122; E-Value: 1e-62
Query Start/End: Original strand, 20 - 308
Target Start/End: Complemental strand, 10543 - 10257
Alignment:
Q  20 caacccttaataatcatagccttcttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtcc 119  Q
    |||||||||||||||| | ||||||||||| | |||| ||| |||||||| || || || | |||||||||||||||||||| | | |||| |||  |||    
T  10543 caacccttaataatcaaacccttcttctttgcaataactctttcttcaaatcctttcggtagccatttttctttctcctcttgactctcattctctttcc 10444  T
Q  120 gtttcttttcaggaacaacccatatgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttcc 219  Q
     |||||| ||||||||||| ||||  ||||||| || ||||||||| | || ||||||||||||||||||||||||||| ||||||| |||| |||||||    
T  10443 ctttcttctcaggaacaactcatacaaattcgtaacccgatgcttctaccctgcacgcaatctcataaagttgtttatctgaaaaataacataggcttcc 10344  T
Q  220 aaagcatatgtacaccaccgagttatcttgtttcgagttaagccaactcaaacactcgtgcacactcacaacactctcttctcctctct 308  Q
    |||||| ||||||| ||| ||  ||||| | ||| ||||||||||||||| |||||| ||||||||||||||||||| |||||||||||    
T  10343 aaagcaaatgtacaacactga--tatctcgcttcaagttaagccaactcagacactcatgcacactcacaacactctgttctcctctct 10257  T

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

Target: chr6 (Bit Score: 77; Significance: 1e-35; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 77; E-Value: 1e-35
Query Start/End: Original strand, 57 - 297
Target Start/End: Complemental strand, 12590182 - 12589942
Alignment:
Q  57 ttctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccatatgaattcgtgact 156  Q
    ||||||||||||| ||  | ||||||||||||| ||| ||||| ||| | ||||  ||| ||| ||| || || |||| |||||||| ||||||||| |     
T  12590182 ttctctcttcaaatccactaggcaaccatttttgtttatcctcatcactctcatcttccttcccttttttctcgggaataacccatacgaattcgtggcc 12590083  T
Q  157 cgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttccaaagcatatgtacaccaccgagttatcttgtttcgag 256  Q
     |||||||| || || |||| ||||||||||||||||||||| || ||||  |||  ||| |||||||||||||||| ||| ||||||||| | ||||||    
T  12590082 tgatgcttctatgccacacgaaatctcataaagttgtttatctgagaaatagcatatgctcccaaagcatatgtacaacacagagttatctcgcttcgag 12589983  T
Q  257 ttaagccaactcaaacactcgtgcacactcacaacactctc 297  Q
    || |||||||||| |||||| |||||  |||||||||||||    
T  12589982 tttagccaactcagacactcttgcacgttcacaacactctc 12589942  T

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

Target: chr6; HSP #2
Raw Score: 69; E-Value: 6e-31
Query Start/End: Original strand, 57 - 297
Target Start/End: Complemental strand, 12483477 - 12483237
Alignment:
Q  57 ttctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccatatgaattcgtgact 156  Q
    ||||||| ||||| ||||| |||||||| |||||||||||||| ||  | ||||  ||| ||| ||| || ||||||||||||||||||||||  | ||     
T  12483477 ttctctcctcaaatcccttcggcaaccacttttctttctcctcatcgctctcatcttccttcccttttttctcaggaacaacccatatgaattttttacc 12483378  T
Q  157 cgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttccaaagcatatgtacaccaccgagttatcttgtttcgag 256  Q
    ||||||||| || ||||| | ||| || ||||| |||||||| || ||||  ||| |||| |||||||||||||||| ||| || || ||||| || |||    
T  12483377 cgatgcttctattccgcatgaaatttcgtaaagctgtttatcagagaaattgcataggctcccaaagcatatgtacaacactgaattttcttgctttgag 12483278  T
Q  257 ttaagccaactcaaacactcgtgcacactcacaacactctc 297  Q
    || ||||||||   |||||| ||||| ||||||||||||||    
T  12483277 tttagccaactttgacactcatgcacgctcacaacactctc 12483237  T

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

Target: chr2 (Bit Score: 60; Significance: 1e-25; HSPs: 3)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 60; E-Value: 1e-25
Query Start/End: Original strand, 57 - 244
Target Start/End: Original strand, 13440363 - 13440550
Alignment:
Q  57 ttctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccatatgaattcgtgact 156  Q
    |||||||||| || |||||||||||||| ||||||||||| || ||| | ||||  ||  ||| |||||| |||||||||||||||||||||  ||||||    
T  13440363 ttctctcttcgaatccctttggcaaccacttttctttctcttcctcactctcatcttctttccctttcttctcaggaacaacccatatgaatgggtgact 13440462  T
Q  157 cgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttccaaagcatatgtacaccaccgagtta 244  Q
     |||||||| ||  ||||||| |||||||| ||||||||||| || ||||       ||||||||| |||||||||| ||||||||||    
T  13440463 agatgcttctattgcgcacgccatctcatatagttgtttatcagagaaatagttgatgcttccaaaacatatgtacaacaccgagtta 13440550  T

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

Target: chr2; HSP #2
Raw Score: 52; E-Value: 8e-21
Query Start/End: Original strand, 43 - 206
Target Start/End: Original strand, 13448512 - 13448675
Alignment:
Q  43 cttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccat 142  Q
    |||||| |||||| ||||||||||||| ||||| || ||||| ||||||||||| |||||  | ||||  ||  ||| |||||| |||||||||||||||    
T  13448512 cttcttcccgatatttctctcttcaaatcccttcggtaaccacttttctttctcttcttcgctctcatcttctttccctttcttctcaggaacaacccat 13448611  T
Q  143 atgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaat 206  Q
    ||||||  |||||  |||||||| ||| | || || ||||| || ||||||||||| |||||||    
T  13448612 atgaatgggtgaccggatgcttctatcgcacatgccatctcgtatagttgtttatcagaaaaat 13448675  T

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

Target: chr2; HSP #3
Raw Score: 32; E-Value: 0.000000007
Query Start/End: Original strand, 60 - 147
Target Start/End: Original strand, 13455000 - 13455087
Alignment:
Q  60 tctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccatatgaa 147  Q
    |||||||||| ||||| |||||||| |||| ||||||||||||  | ||||  ||  ||| |||||| || |||||||||||||||||    
T  13455000 tctcttcaaatcccttcggcaaccacttttgtttctcctcttcgctctcatcttctttccctttcttctccggaacaacccatatgaa 13455087  T

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

Target: chr7 (Bit Score: 56; Significance: 3e-23; HSPs: 1)
Name: chr7
Description:

Target: chr7; HSP #1
Raw Score: 56; E-Value: 3e-23
Query Start/End: Original strand, 43 - 266
Target Start/End: Complemental strand, 3417557 - 3417334
Alignment:
Q  43 cttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccat 142  Q
    ||||||||| ||  ||||||| ||||| ||||| |||||||| ||||||||||| ||||| || ||||  ||  | | |||||| ||| |||||||||||    
T  3417557 cttctttccaatgtttctctcctcaaatcccttcggcaaccacttttctttctcttcttcgttctcatcttcttttcctttcttctcaagaacaacccat 3417458  T
Q  143 atgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttccaaagcatatgtacaccaccgagt 242  Q
    ||||||  ||||| ||||||||| ||  || | ||||||||||| ||||||||||| || ||||    |  ||||||||| |||||||||| ||| ||||    
T  3417457 atgaatgggtgacccgatgcttctattgcgtatgcaatctcatatagttgtttatcagagaaatagtttaagcttccaaaacatatgtacaacactgagt 3417358  T
Q  243 tatcttgtttcgagttaagccaac 266  Q
    || ||||||  ||||| |||||||    
T  3417357 taacttgttgtgagttgagccaac 3417334  T

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

Target: chr5 (Bit Score: 54; Significance: 5e-22; HSPs: 2)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 54; E-Value: 5e-22
Query Start/End: Original strand, 43 - 244
Target Start/End: Original strand, 28385483 - 28385684
Alignment:
Q  43 cttctttccgataattctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccat 142  Q
    ||||||||| ||  ||||||| ||||| |||||||||| ||| ||||||||||| |||||  | ||||  ||  ||| |||||| |||||||||||||||    
T  28385483 cttctttccaatgtttctctcctcaaatccctttggcagccacttttctttctcttcttcgatctcatcttctttccctttcttctcaggaacaacccat 28385582  T
Q  143 atgaattcgtgactcgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttccaaagcatatgtacaccaccgagt 242  Q
    ||||||  |||||  |||||||| |   |||| ||||||||||| ||||||||||| || |||||   |  ||||||||| ||||||||||| || ||||    
T  28385583 atgaatgggtgacctgatgcttctactgcgcatgcaatctcatatagttgtttatcagagaaatggtttatgcttccaaaacatatgtacacaactgagt 28385682  T
Q  243 ta 244  Q
    ||    
T  28385683 ta 28385684  T

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

Target: chr5; HSP #2
Raw Score: 37; E-Value: 0.000000000007
Query Start/End: Original strand, 57 - 249
Target Start/End: Original strand, 12540848 - 12541040
Alignment:
Q  57 ttctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccatatgaattcgtgact 156  Q
    ||||||| ||||| ||||| |||| ||| ||||||||||| |||||| | ||||  ||  ||| | |||| |||||||||||||||||||||  |||||     
T  12540848 ttctctcctcaaatcccttcggcatccacttttctttctcttcttcagtctcatcttctttccctctcttctcaggaacaacccatatgaatgggtgacc 12540947  T
Q  157 cgatgcttcaatcccgcacgcaatctcataaagttgtttatccgaaaaatgacatcggcttccaaagcatatgtacaccaccgagttatcttg 249  Q
    |  | |||| |   | || ||||||||||| |||||||| ||  | ||||||  |  ||||||||| |||||||||||||| |||||| ||||    
T  12540948 cattccttctactgcacatgcaatctcatatagttgtttgtcaaagaaatgatttatgcttccaaaacatatgtacaccactgagttaacttg 12541040  T

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Target: chr8 (Bit Score: 42; Significance: 0.000000000000008; HSPs: 1)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 42; E-Value: 0.000000000000008
Query Start/End: Original strand, 57 - 198
Target Start/End: Complemental strand, 12641494 - 12641353
Alignment:
Q  57 ttctctcttcaaacccctttggcaaccatttttctttctcctcttcattgtcatgctccgtccgtttcttttcaggaacaacccatatgaattcgtgact 156  Q
    |||||||||| || || || |||||||| |||||||||||||||||| | ||||  |   ||| |||||| ||||||||||||||||  ||||||||||     
T  12641494 ttctctcttcgaatcctttaggcaaccacttttctttctcctcttcactctcatcttttttccctttcttctcaggaacaacccatacaaattcgtgacc 12641395  T
Q  157 cgatgcttcaatcccgcacgcaatctcataaagttgtttatc 198  Q
     ||   ||| || |||| ||||||||| ||||||||||||||    
T  12641394 tgaattttctattccgctcgcaatctcgtaaagttgtttatc 12641353  T

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