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: NF13003_low_6 (Length: 405)

Name: NF13003_low_6
Description: NF13003
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF13003_low_6
NF13003_low_6
[»] chr3 (10 HSPs)
chr3 (12-389)||(4582094-4582471)
chr3 (12-171)||(46478431-46478590)
chr3 (25-205)||(5155422-5155601)
chr3 (37-182)||(16024113-16024258)
chr3 (87-171)||(46490248-46490332)
chr3 (23-113)||(47398186-47398276)
chr3 (67-171)||(46469886-46469990)
chr3 (38-169)||(47414774-47414905)
chr3 (43-158)||(46550106-46550221)
chr3 (44-170)||(45901069-45901195)
[»] chr8 (2 HSPs)
chr8 (34-185)||(9693178-9693328)
chr8 (34-171)||(9677450-9677587)
[»] chr4 (3 HSPs)
chr4 (25-172)||(15555224-15555371)
chr4 (34-170)||(35160682-35160818)
chr4 (94-168)||(35154351-35154425)
[»] chr2 (2 HSPs)
chr2 (47-117)||(20143686-20143756)
chr2 (47-117)||(20169754-20169824)


Alignment Details
Target: chr3 (Bit Score: 309; Significance: 1e-174; HSPs: 10)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 309; E-Value: 1e-174
Query Start/End: Original strand, 12 - 389
Target Start/End: Complemental strand, 4582471 - 4582094
Alignment:
Q  12 catcatctccaatgctgctccctccggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaa 111  Q
    |||||||||||||||||||||||||||||||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4582471 catcatctccaatgctgctccctccggtggtccttgcctctctttccttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaa 4582372  T
Q  112 atagtatctaatgattataaggccaccttgtcttctgttgatttcaagaacaaggtatgtattttatatctccctcttttcattgcaatccatgctctac 211  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||    
T  4582371 atagtatctaatgattataaggccaccttgtcttctgttgatttcaagaacaaggtatgtattttatatctccctcttttcattgcaatccatgctctac 4582272  T
Q  212 tttgatttcttgctaatgaattaaagtttctaccttcacaaacaattagnnnnnnnnnnnnnnnnnnncacttacattagagagtgcactagttctggtg 311  Q
    |||||||||||||||||||||||||||||||||||||||||||||||||                   |||||||||||||||||||||| |||||||||    
T  4582271 tttgatttcttgctaatgaattaaagtttctaccttcacaaacaattagttttatttttattttatttcacttacattagagagtgcactggttctggtg 4582172  T
Q  312 tagagagtaggttcttattttaaagataaatagtcatcgttgtcgccttttaataaaaaattacgaactgtttatttc 389  Q
    ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||||||||||||||    
T  4582171 tagagagtaggttcttattttaaagataaatagtcatcgttgtcgccttttaataaaaaattaggaactgtttatttc 4582094  T

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Target: chr3; HSP #2
Raw Score: 52; E-Value: 1e-20
Query Start/End: Original strand, 12 - 171
Target Start/End: Original strand, 46478431 - 46478590
Alignment:
Q  12 catcatctccaatgctgctccctccggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaa 111  Q
    |||| ||||| | ||| ||||| |||||||||||  ||||||||||||  | || || ||||||||||||| || |||||| ||||||||||||||||||    
T  46478431 catcctctccgacgcttctcccgccggtggtcctctcctctctttcgtcgacggtgtttgggttgatcaaaccctttctcttcaaccttccttccaacaa 46478530  T
Q  112 atagtatctaatgattataaggccaccttgtcttctgttgatttcaagaacaaggtatgt 171  Q
    || || || | | ||| ||| ||  | |||||||| ||||||||| ||||||||||||||    
T  46478531 atcgtgtccactcattttaaagcagctttgtcttccgttgatttccagaacaaggtatgt 46478590  T

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Target: chr3; HSP #3
Raw Score: 49; E-Value: 6e-19
Query Start/End: Original strand, 25 - 205
Target Start/End: Original strand, 5155422 - 5155601
Alignment:
Q  25 gctgctccctccggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatg 124  Q
    ||||||||| | ||||| ||| |  |||| ||||| ||||| || |||||||| |||| || |||||| |||||||||||| || |||| || ||   ||    
T  5155422 gctgctcccacaggtggacctcgattctccttcgtcaatggtgtatgggttgaacaaaccctttctcttcaaccttccttcaaagaaatcgtgtcctctg 5155521  T
Q  125 attataaggccaccttgtcttctgttgatttcaagaacaaggtatgtattttatatctccctcttttcattgcaatccatg 205  Q
    ||||||||||||| |||  ||||||||||||||| | |||||||||| || |||||| |||||||||   |||||||||||    
T  5155522 attataaggccactttgctttctgttgatttcaaaaccaaggtatgt-ttgtatatccccctctttttgctgcaatccatg 5155601  T

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Target: chr3; HSP #4
Raw Score: 46; E-Value: 4e-17
Query Start/End: Original strand, 37 - 182
Target Start/End: Original strand, 16024113 - 16024258
Alignment:
Q  37 ggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatgattataaggcca 136  Q
    ||||||||| ||||||| ||| |||||||  ||||| ||||||||  || ||||||  |||| |||||| ||||||| || || |||||||| ||||| |    
T  16024113 ggtggtcctcgcctctcattctttaatggtttgtggtttgatcaagccctttctcttaaaccctccttcgaacaaattgtgtccaatgattacaaggcta 16024212  T
Q  137 ccttgtcttctgttgatttcaagaacaaggtatgtattttatatct 182  Q
    | ||   ||||||||||||  ||||||||||||||||| |||||||    
T  16024213 ctttagattctgttgattttcagaacaaggtatgtattgtatatct 16024258  T

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Target: chr3; HSP #5
Raw Score: 45; E-Value: 2e-16
Query Start/End: Original strand, 87 - 171
Target Start/End: Original strand, 46490248 - 46490332
Alignment:
Q  87 ttctctgcaaccttccttccaacaaatagtatctaatgattataaggccaccttgtcttctgttgatttcaagaacaaggtatgt 171  Q
    |||||| |||||||||||| ||||||| || |||||||||||||| || |  ||||||||||||||||||||||| ||| |||||    
T  46490248 ttctcttcaaccttccttcaaacaaattgtgtctaatgattataaagcaaatttgtcttctgttgatttcaagaataagatatgt 46490332  T

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Target: chr3; HSP #6
Raw Score: 43; E-Value: 0.000000000000002
Query Start/End: Original strand, 23 - 113
Target Start/End: Complemental strand, 47398276 - 47398186
Alignment:
Q  23 atgctgctccctccggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaat 113  Q
    ||||| ||||| ||| ||| ||| ||||||||||||| ||||| ||||||||||| |||| || |||||| |||||||||||| |||||||    
T  47398276 atgcttctcccaccgatggacctcgcctctctttcgtcaatggcgtgtgggttgaacaaaccctttctcttcaaccttccttcaaacaaat 47398186  T

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Target: chr3; HSP #7
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 67 - 171
Target Start/End: Original strand, 46469886 - 46469990
Alignment:
Q  67 gtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatgattataaggccaccttgtcttctgttgatttcaagaacaagg 166  Q
    |||||||||||||||| || |||||| |||||||||||| || ||| | |   || ||||||||| ||||| ||| |||| ||||||||| |||||||||    
T  46469886 gtgtgggttgatcaaaccctttctcttcaaccttccttcaaagaaacaatggttactgattataaagccactttggcttccgttgatttccagaacaagg 46469985  T
Q  167 tatgt 171  Q
    |||||    
T  46469986 tatgt 46469990  T

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Target: chr3; HSP #8
Raw Score: 40; E-Value: 0.0000000000002
Query Start/End: Original strand, 38 - 169
Target Start/End: Complemental strand, 47414905 - 47414774
Alignment:
Q  38 gtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatgattataaggccac 137  Q
    |||| |||||| ||||||| || |||||  | |||||||| |||  || ||||||  ||||||||||| ||||||| || | |  ||||||||||||| |    
T  47414905 gtgggccttgcgtctcttttgtcaatggcctatgggttgaacaatccctttctcttaaaccttccttcaaacaaatcgtctatcctgattataaggccgc 47414806  T
Q  138 cttgtcttctgttgatttcaagaacaaggtat 169  Q
     |||||||| || |||||||||||||||||||    
T  47414805 tttgtcttccgtagatttcaagaacaaggtat 47414774  T

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Target: chr3; HSP #9
Raw Score: 36; E-Value: 0.00000000004
Query Start/End: Original strand, 43 - 158
Target Start/End: Complemental strand, 46550221 - 46550106
Alignment:
Q  43 ccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatgattataaggccaccttgt 142  Q
    ||||||||||||||||| ||||| | |||| |||| |||| || |||||| |||||||||||  || |||   |  ||| ||||||||||||||| |||     
T  46550221 ccttgcctctctttcgtcaatggtgcgtggattgaacaaaccctttctcttcaaccttcctttgaaaaaactatggctactgattataaggccactttgg 46550122  T
Q  143 cttctgttgatttcaa 158  Q
    |||| |||||||||||    
T  46550121 cttcagttgatttcaa 46550106  T

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Target: chr3; HSP #10
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 44 - 170
Target Start/End: Original strand, 45901069 - 45901195
Alignment:
Q  44 cttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatgattataaggccaccttgtc 143  Q
    ||||||||||| | |  ||||| |||| |||||||||||  | |||||| |||||||||||||||||||| || ||||| |||| ||| |||||  ||      
T  45901069 cttgcctctctgttgccaatggtgtgttggttgatcaaacactttctcttcaaccttccttccaacaaattgtgtctaacgattttaaagccactctggt 45901168  T
Q  144 ttctgttgatttcaagaacaaggtatg 170  Q
    || ||||||||||  ||| ||||||||    
T  45901169 ttatgttgatttccggaagaaggtatg 45901195  T

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Target: chr8 (Bit Score: 48; Significance: 3e-18; HSPs: 2)
Name: chr8
Description:

Target: chr8; HSP #1
Raw Score: 48; E-Value: 3e-18
Query Start/End: Original strand, 34 - 185
Target Start/End: Complemental strand, 9693328 - 9693178
Alignment:
Q  34 tccggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatgattataagg 133  Q
    ||||||||||||  |||||||||||  ||||| |||||||| ||  ||| || |||||| |||||||||||| || |||   | |||| |||||||||||    
T  9693328 tccggtggtcctcacctctctttcgccaatggtgtgtgggtagagaaaaccctttctcttcaaccttccttcaaagaaaccatgtctactgattataagg 9693229  T
Q  134 ccaccttgtcttctgttgatttcaagaacaaggtatgtattttatatctccc 185  Q
    |  | ||||||||||||||||||  ||||||||||||| || ||||||||||    
T  9693228 ctgctttgtcttctgttgatttccggaacaaggtatgt-ttgtatatctccc 9693178  T

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Target: chr8; HSP #2
Raw Score: 42; E-Value: 0.00000000000001
Query Start/End: Original strand, 34 - 171
Target Start/End: Complemental strand, 9677587 - 9677450
Alignment:
Q  34 tccggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatgattataagg 133  Q
    |||||||||||| ||||||||||||  ||||| || ||||| ||  ||| || |||||| ||||||||||||||| |||   | ||||  ||||||||||    
T  9677587 tccggtggtcctcgcctctctttcgccaatggtgtatgggtggagaaaaacctttctcttcaaccttccttccaagaaaccatgtctaccgattataagg 9677488  T
Q  134 ccaccttgtcttctgttgatttcaagaacaaggtatgt 171  Q
    ||||  |  |||||||||||||||  ||||||||||||    
T  9677487 ccactctcgcttctgttgatttcataaacaaggtatgt 9677450  T

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Target: chr4 (Bit Score: 44; Significance: 6e-16; HSPs: 3)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 44; E-Value: 6e-16
Query Start/End: Original strand, 25 - 172
Target Start/End: Original strand, 15555224 - 15555371
Alignment:
Q  25 gctgctccctccggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatg 124  Q
    |||||||||||||| || |||||||||||| |||  ||||| ||||||||||| |||| || |||||| ||| ||||||||||| | || || |||  ||    
T  15555224 gctgctccctccggcgggccttgcctctctgtcgccaatggtgtgtgggttgagcaaaccctttctcttcaaacttccttccaaaagattgtttcttctg 15555323  T
Q  125 attataaggccaccttgtcttctgttgatttcaagaacaaggtatgta 172  Q
    |||   | ||||  ||| |||| ||||||||| |||||||||||||||    
T  15555324 atttccaagccaagttggcttccgttgatttccagaacaaggtatgta 15555371  T

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

Target: chr4; HSP #2
Raw Score: 41; E-Value: 0.00000000000004
Query Start/End: Original strand, 34 - 170
Target Start/End: Original strand, 35160682 - 35160818
Alignment:
Q  34 tccggtggtccttgcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagtatctaatgattataagg 133  Q
    ||||||||||||  ||||||||||||  | || || ||| | ||  ||| || |||||| ||| |||||||| ||||||| || ||| | ||||||||||    
T  35160682 tccggtggtcctcacctctctttcgtcgacggtgtttggctggaaaaaaccctttctcttcaatcttccttcaaacaaatcgtgtctgaagattataagg 35160781  T
Q  134 ccaccttgtcttctgttgatttcaagaacaaggtatg 170  Q
    |||| ||||||   |||||||||||||||||||||||    
T  35160782 ccactttgtctgaagttgatttcaagaacaaggtatg 35160818  T

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

Target: chr4; HSP #3
Raw Score: 35; E-Value: 0.0000000001
Query Start/End: Original strand, 94 - 168
Target Start/End: Original strand, 35154351 - 35154425
Alignment:
Q  94 caaccttccttccaacaaatagtatctaatgattataaggccaccttgtcttctgttgatttcaagaacaaggta 168  Q
    |||||||||||| |||| || ||  |||  ||||| |||||||| |||||||||||||||||| |||||||||||    
T  35154351 caaccttccttcaaacatatcgtgactaccgattacaaggccactttgtcttctgttgatttccagaacaaggta 35154425  T

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Target: chr2 (Bit Score: 31; Significance: 0.00000004; HSPs: 2)
Name: chr2
Description:

Target: chr2; HSP #1
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 47 - 117
Target Start/End: Original strand, 20143686 - 20143756
Alignment:
Q  47 gcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagta 117  Q
    |||||||||| ||  |||| || |||||||| |||| || |||||| |||||||||||| |||||||||||    
T  20143686 gcctctcttttgtcgatggtgtatgggttgaacaaaccctttctcttcaaccttccttcaaacaaatagta 20143756  T

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

Target: chr2; HSP #2
Raw Score: 31; E-Value: 0.00000004
Query Start/End: Original strand, 47 - 117
Target Start/End: Complemental strand, 20169824 - 20169754
Alignment:
Q  47 gcctctctttcgttaatggagtgtgggttgatcaaagccgttctctgcaaccttccttccaacaaatagta 117  Q
    |||||||||| ||  |||| || |||||||| |||| || |||||| |||||||||||| |||||||||||    
T  20169824 gcctctcttttgtcgatggtgtatgggttgaacaaaccctttctcttcaaccttccttcaaacaaatagta 20169754  T

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