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: NF9669_low_42 (Length: 238)

Name: NF9669_low_42
Description: NF9669
Algorithm: BLASTN 2.2.26 [Sep-21-2011]
Database: JCVI.Medtr.v4.20130313.fasta (1949 entries, 411831487 letters)


[»] NF9669_low_42
NF9669_low_42
[»] chr3 (13 HSPs)
chr3 (1-224)||(30489761-30489986)
chr3 (4-218)||(30520583-30520799)
chr3 (99-224)||(30516364-30516489)
chr3 (24-208)||(30485824-30486006)
chr3 (8-167)||(30505646-30505807)
chr3 (99-164)||(30491920-30491985)
chr3 (99-161)||(30450115-30450177)
chr3 (99-161)||(30508872-30508934)
chr3 (104-184)||(30487632-30487713)
chr3 (104-162)||(31830043-31830101)
chr3 (106-152)||(30453846-30453892)
chr3 (61-90)||(30483900-30483929)
chr3 (61-90)||(30503986-30504015)
[»] chr4 (1 HSPs)
chr4 (61-167)||(17856367-17856469)
[»] chr6 (2 HSPs)
chr6 (105-157)||(10594641-10594693)
chr6 (107-155)||(6175932-6175980)
[»] chr5 (1 HSPs)
chr5 (47-90)||(38511963-38512004)


Alignment Details
Target: chr3 (Bit Score: 170; Significance: 2e-91; HSPs: 13)
Name: chr3
Description:

Target: chr3; HSP #1
Raw Score: 170; E-Value: 2e-91
Query Start/End: Original strand, 1 - 224
Target Start/End: Complemental strand, 30489986 - 30489761
Alignment:
Q  1 aatagaaattacatcaaaatgaa-aattaaatttaattaggagataccaaataagaaaaattgtgagatggaattagtagaatggtgagacnnnnnnnn- 98  Q
    ||||| ||||||||||||||||| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||             
T  30489986 aatagtaattacatcaaaatgaacaattaaatttaattaggagataccaaataagaaaaattgtgagatggaattagtagaatggtgagacaaaaaaaaa 30489887  T
Q  99 ctcaacatctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatccaccatattgtttcggaaaaacatgttcaccagaaaataa 198  Q
    ||||||||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||| ||    
T  30489886 ctcaacatctgtggattccatctctacggttgtctggccaatgcccaattacaacaaatccaccatattgtttcggaaaaacatgttcaccagaaaacaa 30489787  T
Q  199 gcagtagctaatacaatcaagctttt 224  Q
    |||||||||| |||||||||||||||    
T  30489786 gcagtagctactacaatcaagctttt 30489761  T

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Target: chr3; HSP #2
Raw Score: 149; E-Value: 8e-79
Query Start/End: Original strand, 4 - 218
Target Start/End: Complemental strand, 30520799 - 30520583
Alignment:
Q  4 agaaattacatcaaaatgaa-aattaaatttaattaggagataccaaataagaaaaattgtgagatggaattagtagaatggtgagacnnnnnnnnc-tc 101  Q
    ||||||||| |||||||||| |||||||||||||||||||||| ||||||||||||||||||||||||||||||||||||||||||||        | ||    
T  30520799 agaaattacgtcaaaatgaacaattaaatttaattaggagataacaaataagaaaaattgtgagatggaattagtagaatggtgagacaagaaaaacctc 30520700  T
Q  102 aacatctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatccaccatattgtttcggaaaaacatgttcaccagaaaataagca 201  Q
    |||||||||||||||||||||||| |||||||||||| ||||||||||||||||||||||||||||||||| |||||||||||||||||||||| |||||    
T  30520699 aacatctgtggattccatctctacggttgtctggccactgcccaattacaacaaatccaccatattgtttctgaaaaacatgttcaccagaaaacaagca 30520600  T
Q  202 gtagctaatacaatcaa 218  Q
    ||||||| |||||||||    
T  30520599 gtagctactacaatcaa 30520583  T

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Target: chr3; HSP #3
Raw Score: 94; E-Value: 5e-46
Query Start/End: Original strand, 99 - 224
Target Start/End: Complemental strand, 30516489 - 30516364
Alignment:
Q  99 ctcaacatctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatccaccatattgtttcggaaaaacatgttcaccagaaaataa 198  Q
    ||||||||||||||||||||||||||| |||||||||||  || |||||||||||||||||||||||||||||| |||||||||||||||||||||| ||    
T  30516489 ctcaacatctgtggattccatctctacggttgtctggccgctgtccaattacaacaaatccaccatattgtttctgaaaaacatgttcaccagaaaacaa 30516390  T
Q  199 gcagtagctaatacaatcaagctttt 224  Q
    |||||||||| | |||||||||||||    
T  30516389 gcagtagctactgcaatcaagctttt 30516364  T

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Target: chr3; HSP #4
Raw Score: 66; E-Value: 3e-29
Query Start/End: Original strand, 24 - 208
Target Start/End: Complemental strand, 30486006 - 30485824
Alignment:
Q  24 aattaaatttaattaggagataccaaataagaaaaat-tgtgagatggaattagtagaatggtgagacnnnnnnnn-ctcaacatctgtggattccatct 121  Q
    |||||||| |||  || ||||| |||||||||||||  |||||||||||||||||||||  |||||||         |||||||||||||||||||||||    
T  30486006 aattaaatctaaccagcagataacaaataagaaaaaaatgtgagatggaattagtagaagtgtgagacaagaaaaaactcaacatctgtggattccatct 30485907  T
Q  122 ctacagttgtctggccaatgcccaattacaacaaatccaccatattgtttcggaaaaacatgttcaccagaaaataagcagtagcta 208  Q
    |||| |||||||||||  ||||||||||||||||||||||||||    ||| |||||||||||||  ||||||| ||| ||||||||    
T  30485906 ctacggttgtctggccgctgcccaattacaacaaatccaccata----ttctgaaaaacatgttcgtcagaaaacaagaagtagcta 30485824  T

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Target: chr3; HSP #5
Raw Score: 58; E-Value: 2e-24
Query Start/End: Original strand, 8 - 167
Target Start/End: Complemental strand, 30505807 - 30505646
Alignment:
Q  8 attacatcaaaatgaaaattaaatttaattaggagataccaaataagaaaaat-tgtgagatggaattagtagaatggtgagacnnnnnnnn-ctcaaca 105  Q
    |||||||| ||||||| | | ||||||||||| ||||| |||||||||||||  |||||||||||||||||||||  |||||||         |||||||    
T  30505807 attacatccaaatgaacaattaatttaattagcagataacaaataagaaaaaaatgtgagatggaattagtagaagtgtgagacaagaaaaaactcaaca 30505708  T
Q  106 tctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatccaccatatt 167  Q
    ||||||||||||||||| || ||||||  |||  |||| |||||||||||||||||||||||    
T  30505707 tctgtggattccatctccacggttgtcgagccgctgccgaattacaacaaatccaccatatt 30505646  T

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Target: chr3; HSP #6
Raw Score: 46; E-Value: 2e-17
Query Start/End: Original strand, 99 - 164
Target Start/End: Complemental strand, 30491985 - 30491920
Alignment:
Q  99 ctcaacatctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatccaccat 164  Q
    ||||| ||||||||||||||||||||| |||||||||||  ||||||||||||||||| |||||||    
T  30491985 ctcaagatctgtggattccatctctacggttgtctggccgctgcccaattacaacaaacccaccat 30491920  T

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

Target: chr3; HSP #7
Raw Score: 39; E-Value: 0.0000000000003
Query Start/End: Original strand, 99 - 161
Target Start/End: Complemental strand, 30450177 - 30450115
Alignment:
Q  99 ctcaacatctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatccac 161  Q
    ||||||||||||||||||||||||||| |||||||||||  ||| ||||| ||||| ||||||    
T  30450177 ctcaacatctgtggattccatctctacggttgtctggccgctgctcaatttcaacagatccac 30450115  T

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Target: chr3; HSP #8
Raw Score: 39; E-Value: 0.0000000000003
Query Start/End: Original strand, 99 - 161
Target Start/End: Complemental strand, 30508934 - 30508872
Alignment:
Q  99 ctcaacatctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatccac 161  Q
    ||||| ||||||||||||||||||||| |||||||||||  | ||||||||||||||| ||||    
T  30508934 ctcaagatctgtggattccatctctacggttgtctggccgcttcccaattacaacaaacccac 30508872  T

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Target: chr3; HSP #9
Raw Score: 38; E-Value: 0.000000000001
Query Start/End: Original strand, 104 - 184
Target Start/End: Complemental strand, 30487713 - 30487632
Alignment:
Q  104 catctgtggattccatctctacagttgtctggccaatgcccaattacaacaaat-ccaccatattgtttcggaaaaacatgt 184  Q
    ||||||||||||||||||| || |||||| |||   ||||| |||||||||||| |||||||||||||||  ||||||||||    
T  30487713 catctgtggattccatctccacggttgtcgggctgctgccctattacaacaaatcccaccatattgtttctaaaaaacatgt 30487632  T

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Target: chr3; HSP #10
Raw Score: 35; E-Value: 0.00000000008
Query Start/End: Original strand, 104 - 162
Target Start/End: Complemental strand, 31830101 - 31830043
Alignment:
Q  104 catctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatccacc 162  Q
    |||||||||||||||||||||| |||||||||||  |||| ||||| |||||| |||||    
T  31830101 catctgtggattccatctctacggttgtctggccgctgcctaattataacaaacccacc 31830043  T

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Target: chr3; HSP #11
Raw Score: 31; E-Value: 0.00000002
Query Start/End: Original strand, 106 - 152
Target Start/End: Complemental strand, 30453892 - 30453846
Alignment:
Q  106 tctgtggattccatctctacagttgtctggccaatgcccaattacaa 152  Q
    |||||||||||||||||||| |||||||||||  |||||| ||||||    
T  30453892 tctgtggattccatctctacggttgtctggccgctgcccacttacaa 30453846  T

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Target: chr3; HSP #12
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 61 - 90
Target Start/End: Complemental strand, 30483929 - 30483900
Alignment:
Q  61 tgtgagatggaattagtagaatggtgagac 90  Q
    ||||||||||||||||||||||||||||||    
T  30483929 tgtgagatggaattagtagaatggtgagac 30483900  T

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Target: chr3; HSP #13
Raw Score: 30; E-Value: 0.00000008
Query Start/End: Original strand, 61 - 90
Target Start/End: Complemental strand, 30504015 - 30503986
Alignment:
Q  61 tgtgagatggaattagtagaatggtgagac 90  Q
    ||||||||||||||||||||||||||||||    
T  30504015 tgtgagatggaattagtagaatggtgagac 30503986  T

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Target: chr4 (Bit Score: 50; Significance: 9e-20; HSPs: 1)
Name: chr4
Description:

Target: chr4; HSP #1
Raw Score: 50; E-Value: 9e-20
Query Start/End: Original strand, 61 - 167
Target Start/End: Original strand, 17856367 - 17856469
Alignment:
Q  61 tgtgagatggaattagtagaatggtgagacnnnnnnnnctcaacatctgtggattccatctctacagttgtctggccaatgcccaattacaacaaatcca 160  Q
    ||||||||||||||||||||||||||||||        |||| |||||||||||||||||||||| |||||||||||  ||||||||||| ||||||| |    
T  17856367 tgtgagatggaattagtagaatggtgagacaaaaa---ctcagcatctgtggattccatctctacggttgtctggccgctgcccaattac-acaaatcta 17856462  T
Q  161 ccatatt 167  Q
    |||||||    
T  17856463 ccatatt 17856469  T

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Target: chr6 (Bit Score: 41; Significance: 0.00000000000002; HSPs: 2)
Name: chr6
Description:

Target: chr6; HSP #1
Raw Score: 41; E-Value: 0.00000000000002
Query Start/End: Original strand, 105 - 157
Target Start/End: Complemental strand, 10594693 - 10594641
Alignment:
Q  105 atctgtggattccatctctacagttgtctggccaatgcccaattacaacaaat 157  Q
    ||||||||||||||||||||| |||||||||||  ||||||||||||||||||    
T  10594693 atctgtggattccatctctacggttgtctggccgctgcccaattacaacaaat 10594641  T

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Target: chr6; HSP #2
Raw Score: 37; E-Value: 0.000000000005
Query Start/End: Original strand, 107 - 155
Target Start/End: Complemental strand, 6175980 - 6175932
Alignment:
Q  107 ctgtggattccatctctacagttgtctggccaatgcccaattacaacaa 155  Q
    |||||||||||||||||||||||||||  ||| ||||||||||||||||    
T  6175980 ctgtggattccatctctacagttgtctacccattgcccaattacaacaa 6175932  T

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

Target: chr5 (Bit Score: 29; Significance: 0.0000003; HSPs: 1)
Name: chr5
Description:

Target: chr5; HSP #1
Raw Score: 29; E-Value: 0.0000003
Query Start/End: Original strand, 47 - 90
Target Start/End: Complemental strand, 38512004 - 38511963
Alignment:
Q  47 caaataagaaaaattgtgagatggaattagtagaatggtgagac 90  Q
    ||||||||||||  ||||||||||||||| ||||||||||||||    
T  38512004 caaataagaaaa--tgtgagatggaattaatagaatggtgagac 38511963  T

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