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: NF5543_low_2 (Length: 629)

Name: NF5543_low_2
Description: NF5543
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF5543_low_2
NF5543_low_2
[»] chr8 (3 HSPs)
chr8 (19-622)||(14003254-14003856)
chr8 (19-622)||(5766948-5767553)
chr8 (287-332)||(17627610-17627655)
[»] chr1 (1 HSPs)
chr1 (292-366)||(19468064-19468138)
[»] chr5 (1 HSPs)
chr5 (166-393)||(38266985-38267213)
[»] chr4 (5 HSPs)
chr4 (181-312)||(641449-641580)
chr4 (288-366)||(547382-547460)
chr4 (286-384)||(55908278-55908376)
chr4 (163-223)||(1601013-1601073)
chr4 (184-309)||(3438101-3438226)
[»] scaffold0262 (1 HSPs)
scaffold0262 (292-362)||(390-460)
[»] chr2 (1 HSPs)
chr2 (286-384)||(1037214-1037312)


Alignment Details
Target: chr8 (Bit Score: 572; Significance: 0; HSPs: 3)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 572; E-Value: 0
Query Start/End: Original strand, 19 - 622
Target Start/End: Complemental strand, 14003856 - 14003254
Alignment:
Q  19 atcttgctctccgccagaaaccaacattgacttctttatccattacaggtactgttactactggtttggaacatcttacctcacatttcatcgactcctt 118  Q
    |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||    
T  14003856 atcttgctctccgccagagaccaacattgacttctttatccattacaggtactgttactactggtttggaatatcttacctcacatttcatcgactcctt 14003757  T
Q  119 gttgagtttgaagggatttgacttctcttcttttgacgggatttcgtatctcagatcaattcctctcctccattgcaatggaaagtcttcctttgaggag 218  Q
    |||||||||||||||||| |||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  14003756 gttgagtttgaagggatt-gacttctcttcttttgacgggatttcatatctcagatcaattcctctcctccattgcaatggaaagtcttcctttgaggag 14003658  T
Q  219 gcttgtactcagctattgccccggatatacttattctggaatctcatttttgttatctaagtcgaaacgtatccaacatttggatcttcaatatgctgat 318  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  14003657 gcttgtactcagctattgccccggatatacttattctggaatctcatttttgttatctaagtcgaaacgtatccaacatttggatcttcaatatgctgat 14003558  T
Q  319 tttttgaatgatcattgtgttgctgagttgtctttgtttcttggtgatctgctctctatcaaccttggtaattgtcgcttgcgcagagtttccactttct 418  Q
    ||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| || ||||||||||||||    
T  14003557 tttttgaatgatcattgtgctgctgagttgtctttgtttcttggtgatctgctctctatcaaccttggtaattgtcgcttgctcacagtttccactttct 14003458  T
Q  419 ttgctctcattaccaactgtccttcacttaccgagatcaatatgaatcgcacaaatatccagggaaccaccatacctaattctctgatggatcgtcttgt 518  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  14003457 ttgctctcattaccaactgtccttcacttaccgagatcaatatgaatcgcacaaatatccagggaaccaccatacctaattctctgatggatcgtcttgt 14003358  T
Q  519 aaaccctcaattcaagtctctctttctggctagcacttgtttacaagatcaaaatatcatcatgtttgctgcccttttccccaatctgcagcagcttcat 618  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  14003357 aaaccctcaattcaagtctctctttctggctagcacttgtttacaagatcaaaatatcatcatgtttgctgcccttttccccaatctgcagcagcttcat 14003258  T
Q  619 ctca 622  Q
    ||||    
T  14003257 ctca 14003254  T

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Target: chr8; HSP #2
Raw Score: 549; E-Value: 0
Query Start/End: Original strand, 19 - 622
Target Start/End: Original strand, 5766948 - 5767553
Alignment:
Q  19 atcttgctctccgccagaaaccaacattgacttctttatccattacaggtactgttactactggtttggaacatcttacctcacatttcatcgactcctt 118  Q
    |||||||||||| |||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5766948 atcttgctctcctccagaaaccaacattgacttctttatccattacatgtactgttactactggtttggaacatcttacctcacatttcatcgactcctt 5767047  T
Q  119 gttgagtttgaagggatttgacttctcttcttttgacgggatttcgtatctcagatcaattcctctcctccattgcaatggaaagtcttcctttgaggag 218  Q
    |||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||    
T  5767048 gttgagtttgaagggatt-gacttctcttcttttgacgggatttcgtatctcagatcaatttctctcctccattgcaatggaaagtcttcctttgaggag 5767146  T
Q  219 gcttgtactcagctattgccccggatatacttattctggaatctcatttttgttatctaagtcgaaacgtatccaacatttggatcttcaatatgctgat 318  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||    
T  5767147 gcttgtactcagctattgccccggatatacttattctggaatctcatttttgttatctaagtcgaaacgtatccaacatttggatcttcaatatactgat 5767246  T
Q  319 tttttgaatgatcattgtgttgctgagttgtctttgtttcttggtgatctgctctctatcaaccttggtaattgtcgcttgcgcagagtttccactttct 418  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||| || ||||||||||||||    
T  5767247 tttttgaatgatcattgtgttgctgagttgtctttgtttcttggtgatctgctctctctcaaccttggtaattgtcgcttgctcacagtttccactttct 5767346  T
Q  419 ttgctctcattaccaactgtccttcacttaccgagatcaatatgaatcgcacaaatatccagggaaccaccatacctaattctctgatggatcgtcttgt 518  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5767347 ttgctctcattaccaactgtccttcacttaccgagatcaatatgaatcgcacaaatatccagggaaccaccatacctaattctctgatggatcgtcttgt 5767446  T
Q  519 aaaccctcaattcaagtctctctttctggctag---cacttgtttacaagatcaaaatatcatcatgtttgctgcccttttccccaatctgcagcagctt 615  Q
    |||||||||||||||||||||||||||||||||   | |||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  5767447 aaaccctcaattcaagtctctctttctggctagcgccgcttgtttagaagatcaaaatatcatcatgtttgctgcccttttccccaatctgcagcagctt 5767546  T
Q  616 catctca 622  Q
    |||||||    
T  5767547 catctca 5767553  T

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Target: chr8; HSP #3
Raw Score: 34; E-Value: 0.0000000009
Query Start/End: Original strand, 287 - 332
Target Start/End: Original strand, 17627610 - 17627655
Alignment:
Q  287 gtatccaacatttggatcttcaatatgctgattttttgaatgatca 332  Q
    |||||||||||||||||||||| |||||| ||||||||||| ||||    
T  17627610 gtatccaacatttggatcttcagtatgcttattttttgaataatca 17627655  T

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Target: chr1 (Bit Score: 43; Significance: 0.000000000000004; HSPs: 1)
Name: chr1
Description:

Target: chr1; HSP #1
Raw Score: 43; E-Value: 0.000000000000004
Query Start/End: Original strand, 292 - 366
Target Start/End: Original strand, 19468064 - 19468138
Alignment:
Q  292 caacatttggatcttcaatatgctgattttttgaatgatcattgtgttgctgagttgtctttgtttcttggtgat 366  Q
    ||||||||||||||||||  |||||  |||||||||||||| | ||||| | |||||||||||||||||||||||    
T  19468064 caacatttggatcttcaacgtgctgggtttttgaatgatcactatgttgataagttgtctttgtttcttggtgat 19468138  T

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Target: chr5 (Bit Score: 37; Significance: 0.00000000001; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 37; E-Value: 0.00000000001
Query Start/End: Original strand, 166 - 393
Target Start/End: Original strand, 38266985 - 38267213
Alignment:
Q  166 atctcagatcaattcctctcctccattgcaatggaaagtcttcctttgaggaggcttgtactcagctattgccccggatatacttattctggaatc-tca 264  Q
    ||||| ||||| ||||| ||||| ||||||||| ||||||||||||||| ||| ||||  ||| | |||||| |||| || ||||  ||||||||| |      
T  38266985 atctccgatcacttcctttcctctattgcaatgcaaagtcttcctttgacgagccttggcctcggatattgcaccggctacactttctctggaatcttgc 38267084  T
Q  265 tttttgttatctaagtcgaaacgtatccaacatttggatcttcaatatgctgattttttgaatgatcattgtgttgctgagttgtctttgtttcttggtg 364  Q
    ||||| |||||  | |    |||||| ||||||||||| |||||| |  |||||||| | | ||||||   |||||| ||||||||||||||||||  |     
T  38267085 ttttttttatcctactgtccacgtatacaacatttggaccttcaagaaactgattttctcactgatcaccatgttgccgagttgtctttgtttcttcctc 38267184  T
Q  365 atctgctctctatcaaccttggtaattgt 393  Q
    ||||| | ||||| |||||| || |||||    
T  38267185 atctggtgtctataaaccttagttattgt 38267213  T

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Target: chr4 (Bit Score: 36; Significance: 0.00000000006; HSPs: 5)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 36; E-Value: 0.00000000006
Query Start/End: Original strand, 181 - 312
Target Start/End: Complemental strand, 641580 - 641449
Alignment:
Q  181 ctctcctccattgcaatggaaagtcttcctttgaggaggcttgtactcagctattgccccggatatacttattctggaatctcatttttgttatctaagt 280  Q
    |||||||| ||||||||| || | |||||||||| ||| ||||| ||| || ||||| |||| |||||||||  ||||||||  | ||||||||| |||     
T  641580 ctctcctctattgcaatgaaaggccttcctttgacgagacttgtcctctgcaattgcaccggctatacttatgatggaatcttgtgtttgttatccaaga 641481  T
Q  281 cgaaacgtatccaacatttggatcttcaatat 312  Q
      ||| || | |||||| ||||||||||||||    
T  641480 gtaaatgtttacaacatctggatcttcaatat 641449  T

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Target: chr4; HSP #2
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 288 - 366
Target Start/End: Complemental strand, 547460 - 547382
Alignment:
Q  288 tatccaacatttggatcttcaatatgctgattttttgaatgatcattgtgttgctgagttgtctttgtttcttggtgat 366  Q
    |||||||||||| ||||||||| |||||| |||||||| | ||||   ||||  ||| |||||||||||||||||||||    
T  547460 tatccaacatttagatcttcaaaatgctgtttttttgactaatcaacatgttcttgacttgtctttgtttcttggtgat 547382  T

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Target: chr4; HSP #3
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 286 - 384
Target Start/End: Original strand, 55908278 - 55908376
Alignment:
Q  286 cgtatccaacatttggatcttcaatatgctgattttttgaatgatcattgtgttgctgagttgtctttgtttcttggtgatctgctctctatcaacctt 384  Q
    ||||| |||||||||||||||||| ||||    ||| ||||||||||   ||| || |||||||||||||||||||||||| || | ||||| ||||||    
T  55908278 cgtatacaacatttggatcttcaaaatgccacgtttatgaatgatcacgatgtcgcagagttgtctttgtttcttggtgatttggtgtctataaacctt 55908376  T

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Target: chr4; HSP #4
Raw Score: 33; E-Value: 0.000000004
Query Start/End: Original strand, 163 - 223
Target Start/End: Complemental strand, 1601073 - 1601013
Alignment:
Q  163 cgtatctcagatcaattcctctcctccattgcaatggaaagtcttcctttgaggaggcttg 223  Q
    |||||||| ||||| || |||||||| ||||||| ||||| || |||||||||||||||||    
T  1601073 cgtatctcggatcagttgctctcctctattgcaaaggaaaatcctcctttgaggaggcttg 1601013  T

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Target: chr4; HSP #5
Raw Score: 30; E-Value: 0.0000002
Query Start/End: Original strand, 184 - 309
Target Start/End: Original strand, 3438101 - 3438226
Alignment:
Q  184 tcctccattgcaatggaaagtcttcctttgaggaggcttgtactcagctattgccccggatatacttattctggaatctcatttttgttatctaagtcga 283  Q
    ||||| |||||||| | | ||||||||||||| |||||||| |||  | ||||| |||| |||| |||| ||| |||||  | | ||||||| ||||       
T  3438101 tcctctattgcaattggaggtcttcctttgagaaggcttgtcctccacaattgcaccggctatagttatgctgaaatcttttctctgttatccaagtgtc 3438200  T
Q  284 aacgtatccaacatttggatcttcaa 309  Q
    || |||| ||||||||||||||||||    
T  3438201 aatgtatacaacatttggatcttcaa 3438226  T

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Target: scaffold0262 (Bit Score: 35; Significance: 0.0000000002; HSPs: 1)
Name: scaffold0262
Description:

Target: scaffold0262; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 292 - 362
Target Start/End: Complemental strand, 460 - 390
Alignment:
Q  292 caacatttggatcttcaatatgctgattttttgaatgatcattgtgttgctgagttgtctttgtttcttgg 362  Q
    |||||||||||||||||| ||||    ||| |||||||||||  |||||| ||||||||||||||||||||    
T  460 caacatttggatcttcaaaatgccatgtttatgaatgatcatgatgttgcagagttgtctttgtttcttgg 390  T

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Target: chr2 (Bit Score: 35; Significance: 0.0000000002; HSPs: 1)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 35; E-Value: 0.0000000002
Query Start/End: Original strand, 286 - 384
Target Start/End: Original strand, 1037214 - 1037312
Alignment:
Q  286 cgtatccaacatttggatcttcaatatgctgattttttgaatgatcattgtgttgctgagttgtctttgtttcttggtgatctgctctctatcaacctt 384  Q
    ||||| |||||||||||||||||| ||||    ||| ||||||||||   ||| || |||||||||||||||||||||||| || | ||||| ||||||    
T  1037214 cgtatacaacatttggatcttcaaaatgccacgtttatgaatgatcacgatgtcgcagagttgtctttgtttcttggtgatttggtgtctataaacctt 1037312  T

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