Multiple sequence alignment - TraesCS6A01G012100

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Download Multiple Sequence Alignment: (Fasta) (Clustal)


BLAST Results


Shown here are the results of a BLAST search against the genome using the input sequence. The pipeline uses this to extract flanking regions for cloning. If the result of the multiple sequence alignment is not as expected, these results could be used for further investigation.

qseqid sseqid percentage.identical alignment.length no.mismatch no.gap.openings qstart qend sstart send evalue bitscore
0 TraesCS6A01G012100 chr6A 100.000 4467 0 0 1 4467 5602131 5606597 0.000000e+00 8250.0
1 TraesCS6A01G012100 chr6A 97.052 2985 43 16 114 3066 5670941 5673912 0.000000e+00 4983.0
2 TraesCS6A01G012100 chr6A 96.717 2985 42 13 114 3066 5773580 5776540 0.000000e+00 4918.0
3 TraesCS6A01G012100 chr6A 98.285 583 10 0 3062 3644 5785310 5785892 0.000000e+00 1022.0
4 TraesCS6A01G012100 chr6A 97.804 592 10 2 3639 4229 5688812 5689401 0.000000e+00 1018.0
5 TraesCS6A01G012100 chr6A 97.770 583 12 1 3062 3644 5682682 5683263 0.000000e+00 1003.0
6 TraesCS6A01G012100 chr6A 95.860 314 12 1 1641 1954 129352667 129352979 1.430000e-139 507.0
7 TraesCS6A01G012100 chr6A 98.596 285 4 0 3639 3923 5791278 5791562 5.160000e-139 505.0
8 TraesCS6A01G012100 chr6A 99.167 240 2 0 4228 4467 5689642 5689881 2.470000e-117 433.0
9 TraesCS6A01G012100 chr6A 99.167 240 2 0 4228 4467 5791942 5792181 2.470000e-117 433.0
10 TraesCS6A01G012100 chr6A 95.775 142 3 2 4089 4229 5791562 5791701 4.500000e-55 226.0
11 TraesCS6A01G012100 chr6A 93.333 45 3 0 616 660 29651294 29651250 2.880000e-07 67.6
12 TraesCS6A01G012100 chr6B 90.245 2163 166 26 2091 4229 11538723 11540864 0.000000e+00 2784.0
13 TraesCS6A01G012100 chr6B 88.782 1141 61 37 392 1487 11537523 11538641 0.000000e+00 1336.0
14 TraesCS6A01G012100 chr6B 92.083 240 19 0 4228 4467 11541101 11541340 5.530000e-89 339.0
15 TraesCS6A01G012100 chr6B 89.130 46 4 1 2928 2973 213237314 213237358 6.240000e-04 56.5
16 TraesCS6A01G012100 chr6D 88.899 2225 162 36 1955 4128 6275115 6277305 0.000000e+00 2662.0
17 TraesCS6A01G012100 chr6D 91.739 1150 60 8 392 1524 6273943 6275074 0.000000e+00 1565.0
18 TraesCS6A01G012100 chr6D 94.650 243 10 3 4228 4467 6305716 6305958 1.520000e-99 374.0
19 TraesCS6A01G012100 chr6D 89.130 46 4 1 2928 2973 121167784 121167828 6.240000e-04 56.5
20 TraesCS6A01G012100 chr4A 95.312 320 15 0 1638 1957 613414526 613414207 3.990000e-140 508.0
21 TraesCS6A01G012100 chr5A 95.046 323 15 1 1634 1956 441172398 441172719 1.430000e-139 507.0
22 TraesCS6A01G012100 chr5A 95.031 322 15 1 1633 1954 228894947 228895267 5.160000e-139 505.0
23 TraesCS6A01G012100 chr3A 94.753 324 16 1 1638 1961 9301039 9301361 1.850000e-138 503.0
24 TraesCS6A01G012100 chr2D 94.984 319 16 0 1639 1957 36275112 36275430 6.670000e-138 501.0
25 TraesCS6A01G012100 chr1A 94.984 319 15 1 1639 1957 90160374 90160057 2.400000e-137 499.0
26 TraesCS6A01G012100 chr7A 87.755 49 4 2 2926 2973 644844625 644844578 6.240000e-04 56.5


These results show the homologous regions that are presented in the multiple sequence alignment. HSPs from the BLAST search that are within 2000 bases of each other have been grouped together. Homologous regions that are purely upstream or downstream may be removed if they don't overlap both primers.

query scaffold start end length rev.comp avg.bitscore max.bitscore avg.percent.identical query.start query.end num_hsp groupid homo_length
0 TraesCS6A01G012100 chr6A 5602131 5606597 4466 False 8250.000000 8250 100.0000 1 4467 1 chr6A.!!$F1 4466
1 TraesCS6A01G012100 chr6A 5670941 5673912 2971 False 4983.000000 4983 97.0520 114 3066 1 chr6A.!!$F2 2952
2 TraesCS6A01G012100 chr6A 5773580 5776540 2960 False 4918.000000 4918 96.7170 114 3066 1 chr6A.!!$F4 2952
3 TraesCS6A01G012100 chr6A 5785310 5785892 582 False 1022.000000 1022 98.2850 3062 3644 1 chr6A.!!$F5 582
4 TraesCS6A01G012100 chr6A 5682682 5683263 581 False 1003.000000 1003 97.7700 3062 3644 1 chr6A.!!$F3 582
5 TraesCS6A01G012100 chr6A 5688812 5689881 1069 False 725.500000 1018 98.4855 3639 4467 2 chr6A.!!$F7 828
6 TraesCS6A01G012100 chr6A 5791278 5792181 903 False 388.000000 505 97.8460 3639 4467 3 chr6A.!!$F8 828
7 TraesCS6A01G012100 chr6B 11537523 11541340 3817 False 1486.333333 2784 90.3700 392 4467 3 chr6B.!!$F2 4075
8 TraesCS6A01G012100 chr6D 6273943 6277305 3362 False 2113.500000 2662 90.3190 392 4128 2 chr6D.!!$F3 3736

AutoCloner calculated primer pairs

These primer pairs were selected by Autocloner to minimize primer penalty (calculated by Primer3), whilst remaining within the specified product range where possible.

Download AutoCloner chosen primers as CSV: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
78 79 2.552743 TGTGAGACTAGTGTTGGACTCG 59.447 50.000 0.00 0.00 35.96 4.18 F
79 80 2.812591 GTGAGACTAGTGTTGGACTCGA 59.187 50.000 0.00 0.00 35.96 4.04 F
80 81 3.075148 TGAGACTAGTGTTGGACTCGAG 58.925 50.000 11.84 11.84 35.96 4.04 F
81 82 3.075884 GAGACTAGTGTTGGACTCGAGT 58.924 50.000 20.18 20.18 35.96 4.18 F
1655 1734 3.313791 ACATTAAGGGCCTGTTTGGTTT 58.686 40.909 6.92 0.00 38.35 3.27 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1743 1822 0.472925 TGGGAAGGTGTGCTCAGGTA 60.473 55.000 0.00 0.00 0.00 3.08 R
1792 1871 1.229145 TCACCCCCTTTTGCATGGG 60.229 57.895 11.68 11.68 44.03 4.00 R
1850 1929 8.491958 CCTAACTTATAAGTCACCCCAACTTAT 58.508 37.037 18.28 11.86 46.48 1.73 R
2092 2171 1.669795 CGCTGACATGCTCTACACACA 60.670 52.381 0.00 0.00 0.00 3.72 R
3564 3686 1.368641 TGGTTGCATCTCGAAATCGG 58.631 50.000 2.63 0.00 40.29 4.18 R

All possible primers

Listed here are all possible primers based on the multiple sequence alignment and SNPs generated previously. A lower penalty score indicates a better primer. If the AutoCloner primers did not work during PCR or sequencing, these could be used as alternatives.

Download all possible primers: (Forward) (Reverse)
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
23 24 6.890979 CACATATCTAGGTCAGAGTCATCA 57.109 41.667 0.00 0.00 36.48 3.07
24 25 7.282332 CACATATCTAGGTCAGAGTCATCAA 57.718 40.000 0.00 0.00 36.48 2.57
25 26 7.144661 CACATATCTAGGTCAGAGTCATCAAC 58.855 42.308 0.00 0.00 36.48 3.18
26 27 6.836007 ACATATCTAGGTCAGAGTCATCAACA 59.164 38.462 0.00 0.00 36.48 3.33
27 28 7.508636 ACATATCTAGGTCAGAGTCATCAACAT 59.491 37.037 0.00 0.00 36.48 2.71
28 29 9.018582 CATATCTAGGTCAGAGTCATCAACATA 57.981 37.037 0.00 0.00 36.48 2.29
29 30 6.951062 TCTAGGTCAGAGTCATCAACATAG 57.049 41.667 0.00 0.00 33.00 2.23
30 31 5.830457 TCTAGGTCAGAGTCATCAACATAGG 59.170 44.000 0.00 0.00 32.78 2.57
31 32 4.614475 AGGTCAGAGTCATCAACATAGGA 58.386 43.478 0.00 0.00 0.00 2.94
32 33 4.648762 AGGTCAGAGTCATCAACATAGGAG 59.351 45.833 0.00 0.00 0.00 3.69
33 34 4.404073 GGTCAGAGTCATCAACATAGGAGT 59.596 45.833 0.00 0.00 0.00 3.85
34 35 5.105146 GGTCAGAGTCATCAACATAGGAGTT 60.105 44.000 0.00 0.00 0.00 3.01
35 36 6.096987 GGTCAGAGTCATCAACATAGGAGTTA 59.903 42.308 0.00 0.00 0.00 2.24
36 37 7.201956 GGTCAGAGTCATCAACATAGGAGTTAT 60.202 40.741 0.00 0.00 0.00 1.89
37 38 8.851145 GTCAGAGTCATCAACATAGGAGTTATA 58.149 37.037 0.00 0.00 0.00 0.98
38 39 9.593565 TCAGAGTCATCAACATAGGAGTTATAT 57.406 33.333 0.00 0.00 0.00 0.86
61 62 9.719355 ATATACAAACATGAGTAACTGTTGTGA 57.281 29.630 0.00 0.00 35.82 3.58
62 63 6.363577 ACAAACATGAGTAACTGTTGTGAG 57.636 37.500 0.00 0.00 35.82 3.51
63 64 6.112734 ACAAACATGAGTAACTGTTGTGAGA 58.887 36.000 0.00 0.00 35.82 3.27
64 65 6.037172 ACAAACATGAGTAACTGTTGTGAGAC 59.963 38.462 0.00 0.00 35.82 3.36
65 66 5.537300 ACATGAGTAACTGTTGTGAGACT 57.463 39.130 0.00 0.00 0.00 3.24
66 67 6.650427 ACATGAGTAACTGTTGTGAGACTA 57.350 37.500 0.00 0.00 0.00 2.59
67 68 6.682746 ACATGAGTAACTGTTGTGAGACTAG 58.317 40.000 0.00 0.00 0.00 2.57
68 69 6.265649 ACATGAGTAACTGTTGTGAGACTAGT 59.734 38.462 0.00 0.00 0.00 2.57
69 70 6.073327 TGAGTAACTGTTGTGAGACTAGTG 57.927 41.667 0.00 0.00 0.00 2.74
70 71 5.593095 TGAGTAACTGTTGTGAGACTAGTGT 59.407 40.000 0.00 0.00 0.00 3.55
71 72 6.096423 TGAGTAACTGTTGTGAGACTAGTGTT 59.904 38.462 0.00 0.00 0.00 3.32
72 73 6.273825 AGTAACTGTTGTGAGACTAGTGTTG 58.726 40.000 0.00 0.00 0.00 3.33
73 74 4.060038 ACTGTTGTGAGACTAGTGTTGG 57.940 45.455 0.00 0.00 0.00 3.77
74 75 3.704566 ACTGTTGTGAGACTAGTGTTGGA 59.295 43.478 0.00 0.00 0.00 3.53
75 76 4.051922 CTGTTGTGAGACTAGTGTTGGAC 58.948 47.826 0.00 0.00 0.00 4.02
76 77 3.704566 TGTTGTGAGACTAGTGTTGGACT 59.295 43.478 0.00 0.00 38.88 3.85
77 78 4.202121 TGTTGTGAGACTAGTGTTGGACTC 60.202 45.833 0.00 0.00 35.96 3.36
78 79 2.552743 TGTGAGACTAGTGTTGGACTCG 59.447 50.000 0.00 0.00 35.96 4.18
79 80 2.812591 GTGAGACTAGTGTTGGACTCGA 59.187 50.000 0.00 0.00 35.96 4.04
80 81 3.075148 TGAGACTAGTGTTGGACTCGAG 58.925 50.000 11.84 11.84 35.96 4.04
81 82 3.075884 GAGACTAGTGTTGGACTCGAGT 58.924 50.000 20.18 20.18 35.96 4.18
82 83 4.252073 GAGACTAGTGTTGGACTCGAGTA 58.748 47.826 20.09 0.00 35.96 2.59
83 84 4.002316 AGACTAGTGTTGGACTCGAGTAC 58.998 47.826 21.47 21.47 35.96 2.73
84 85 4.002316 GACTAGTGTTGGACTCGAGTACT 58.998 47.826 27.57 22.84 35.96 2.73
85 86 5.046735 AGACTAGTGTTGGACTCGAGTACTA 60.047 44.000 27.57 22.74 35.96 1.82
86 87 4.934602 ACTAGTGTTGGACTCGAGTACTAC 59.065 45.833 28.68 28.68 35.96 2.73
87 88 4.018484 AGTGTTGGACTCGAGTACTACT 57.982 45.455 32.66 26.23 35.95 2.57
88 89 4.396522 AGTGTTGGACTCGAGTACTACTT 58.603 43.478 32.66 22.18 35.95 2.24
89 90 4.215827 AGTGTTGGACTCGAGTACTACTTG 59.784 45.833 32.66 2.70 35.95 3.16
90 91 4.023365 GTGTTGGACTCGAGTACTACTTGT 60.023 45.833 32.66 5.94 35.95 3.16
91 92 4.023450 TGTTGGACTCGAGTACTACTTGTG 60.023 45.833 32.66 1.48 35.95 3.33
92 93 4.011966 TGGACTCGAGTACTACTTGTGA 57.988 45.455 27.57 2.56 31.48 3.58
93 94 4.392047 TGGACTCGAGTACTACTTGTGAA 58.608 43.478 27.57 1.78 31.48 3.18
94 95 5.008331 TGGACTCGAGTACTACTTGTGAAT 58.992 41.667 27.57 0.00 31.48 2.57
95 96 6.175471 TGGACTCGAGTACTACTTGTGAATA 58.825 40.000 27.57 0.45 31.48 1.75
96 97 6.656270 TGGACTCGAGTACTACTTGTGAATAA 59.344 38.462 27.57 0.23 31.48 1.40
97 98 6.966066 GGACTCGAGTACTACTTGTGAATAAC 59.034 42.308 21.00 0.50 31.48 1.89
98 99 7.148272 GGACTCGAGTACTACTTGTGAATAACT 60.148 40.741 21.00 0.00 31.48 2.24
99 100 7.750769 ACTCGAGTACTACTTGTGAATAACTC 58.249 38.462 18.46 0.00 31.48 3.01
101 102 6.541086 CGAGTACTACTTGTGAATAACTCGT 58.459 40.000 12.06 0.00 45.96 4.18
102 103 7.679144 CGAGTACTACTTGTGAATAACTCGTA 58.321 38.462 12.06 0.00 45.96 3.43
103 104 8.333908 CGAGTACTACTTGTGAATAACTCGTAT 58.666 37.037 12.06 0.00 45.96 3.06
110 111 8.420374 ACTTGTGAATAACTCGTATATGTTGG 57.580 34.615 0.00 0.00 0.00 3.77
111 112 6.838198 TGTGAATAACTCGTATATGTTGGC 57.162 37.500 0.00 0.00 0.00 4.52
112 113 6.578944 TGTGAATAACTCGTATATGTTGGCT 58.421 36.000 0.00 0.00 0.00 4.75
116 117 9.602568 TGAATAACTCGTATATGTTGGCTAAAA 57.397 29.630 0.00 0.00 0.00 1.52
368 383 6.428385 AAGAAAGGATAAGAGTTCATTGCG 57.572 37.500 0.00 0.00 0.00 4.85
690 705 3.449632 GGCTCGACCTTCTCTGATAAAC 58.550 50.000 0.00 0.00 34.51 2.01
1655 1734 3.313791 ACATTAAGGGCCTGTTTGGTTT 58.686 40.909 6.92 0.00 38.35 3.27
1743 1822 8.403236 GTTTGTTTGTCACCTGACTTATAAGTT 58.597 33.333 18.96 0.63 44.99 2.66
1792 1871 6.408107 TTTTTAATGTAAAGGTGGTGGGAC 57.592 37.500 0.00 0.00 0.00 4.46
1850 1929 4.042311 TGGGGTGAAGCAACTTATGACTTA 59.958 41.667 0.00 0.00 0.00 2.24
2092 2171 5.518865 ACACATGGGCTAATGATTTAACCT 58.481 37.500 0.00 0.00 0.00 3.50
2154 2233 2.750807 GCAGATGATACAGCAATGGGGT 60.751 50.000 0.00 0.00 0.00 4.95
2449 2528 3.270027 CGTTCAATTCAGGTATCTGCCA 58.730 45.455 0.00 0.00 40.69 4.92
3017 3104 7.833285 TTTTGCAAAGAGGGAATAACTAACT 57.167 32.000 12.41 0.00 0.00 2.24
3018 3105 6.817765 TTGCAAAGAGGGAATAACTAACTG 57.182 37.500 0.00 0.00 0.00 3.16
3019 3106 5.876357 TGCAAAGAGGGAATAACTAACTGT 58.124 37.500 0.00 0.00 0.00 3.55
3020 3107 5.705441 TGCAAAGAGGGAATAACTAACTGTG 59.295 40.000 0.00 0.00 0.00 3.66
3021 3108 5.938125 GCAAAGAGGGAATAACTAACTGTGA 59.062 40.000 0.00 0.00 0.00 3.58
3022 3109 6.128254 GCAAAGAGGGAATAACTAACTGTGAC 60.128 42.308 0.00 0.00 0.00 3.67
3023 3110 5.326200 AGAGGGAATAACTAACTGTGACG 57.674 43.478 0.00 0.00 0.00 4.35
3024 3111 3.858247 AGGGAATAACTAACTGTGACGC 58.142 45.455 0.00 0.00 0.00 5.19
3197 3302 3.071023 ACATCGAGACAAGGAAGTTTGGA 59.929 43.478 0.00 0.00 32.32 3.53
3519 3625 6.316140 TCATTGTAGCGCATGAGAGTAAATTT 59.684 34.615 11.47 0.00 0.00 1.82
3564 3686 7.650504 TGCTTATGGTACGACATTCTACATAAC 59.349 37.037 0.00 0.00 32.39 1.89
3571 3693 6.823678 ACGACATTCTACATAACCGATTTC 57.176 37.500 0.00 0.00 0.00 2.17
3601 3724 5.597806 CAACCAATTATGCATGCAGAGATT 58.402 37.500 26.69 20.34 0.00 2.40
3619 3742 9.547753 GCAGAGATTATATCAACTTGGAGTAAA 57.452 33.333 0.00 0.00 0.00 2.01
3629 3752 6.285224 TCAACTTGGAGTAAAAGACGAATCA 58.715 36.000 0.00 0.00 0.00 2.57
3692 3815 6.878923 TGTAGTTGTGATGTTAAGATGGAAGG 59.121 38.462 0.00 0.00 0.00 3.46
3934 4057 1.224592 GGGAGCCATTCACCGTGAT 59.775 57.895 1.09 0.00 0.00 3.06
4181 4312 8.924303 AGGTACAGCTGTATTAACTTGATATGA 58.076 33.333 28.37 0.00 32.54 2.15
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 6.890979 TGATGACTCTGACCTAGATATGTG 57.109 41.667 0.00 0.00 34.21 3.21
1 2 6.836007 TGTTGATGACTCTGACCTAGATATGT 59.164 38.462 0.00 0.00 34.21 2.29
2 3 7.282332 TGTTGATGACTCTGACCTAGATATG 57.718 40.000 0.00 0.00 34.21 1.78
3 4 9.241919 CTATGTTGATGACTCTGACCTAGATAT 57.758 37.037 0.00 0.00 34.21 1.63
4 5 7.667635 CCTATGTTGATGACTCTGACCTAGATA 59.332 40.741 0.00 0.00 34.21 1.98
5 6 6.493115 CCTATGTTGATGACTCTGACCTAGAT 59.507 42.308 0.00 0.00 34.21 1.98
6 7 5.830457 CCTATGTTGATGACTCTGACCTAGA 59.170 44.000 0.00 0.00 0.00 2.43
7 8 5.830457 TCCTATGTTGATGACTCTGACCTAG 59.170 44.000 0.00 0.00 0.00 3.02
8 9 5.766590 TCCTATGTTGATGACTCTGACCTA 58.233 41.667 0.00 0.00 0.00 3.08
9 10 4.614475 TCCTATGTTGATGACTCTGACCT 58.386 43.478 0.00 0.00 0.00 3.85
10 11 4.404073 ACTCCTATGTTGATGACTCTGACC 59.596 45.833 0.00 0.00 0.00 4.02
11 12 5.590530 ACTCCTATGTTGATGACTCTGAC 57.409 43.478 0.00 0.00 0.00 3.51
12 13 7.904558 ATAACTCCTATGTTGATGACTCTGA 57.095 36.000 0.00 0.00 0.00 3.27
35 36 9.719355 TCACAACAGTTACTCATGTTTGTATAT 57.281 29.630 0.00 0.00 37.54 0.86
36 37 9.203421 CTCACAACAGTTACTCATGTTTGTATA 57.797 33.333 0.00 0.00 37.54 1.47
37 38 7.931407 TCTCACAACAGTTACTCATGTTTGTAT 59.069 33.333 0.00 0.00 37.54 2.29
38 39 7.223971 GTCTCACAACAGTTACTCATGTTTGTA 59.776 37.037 0.00 0.00 37.54 2.41
39 40 6.037172 GTCTCACAACAGTTACTCATGTTTGT 59.963 38.462 0.00 0.00 37.54 2.83
40 41 6.258727 AGTCTCACAACAGTTACTCATGTTTG 59.741 38.462 0.00 0.00 37.54 2.93
41 42 6.349300 AGTCTCACAACAGTTACTCATGTTT 58.651 36.000 0.00 0.00 37.54 2.83
42 43 5.918608 AGTCTCACAACAGTTACTCATGTT 58.081 37.500 0.00 0.00 40.18 2.71
43 44 5.537300 AGTCTCACAACAGTTACTCATGT 57.463 39.130 0.00 0.00 0.00 3.21
44 45 6.584184 CACTAGTCTCACAACAGTTACTCATG 59.416 42.308 0.00 0.00 0.00 3.07
45 46 6.265649 ACACTAGTCTCACAACAGTTACTCAT 59.734 38.462 0.00 0.00 0.00 2.90
46 47 5.593095 ACACTAGTCTCACAACAGTTACTCA 59.407 40.000 0.00 0.00 0.00 3.41
47 48 6.074544 ACACTAGTCTCACAACAGTTACTC 57.925 41.667 0.00 0.00 0.00 2.59
48 49 6.273825 CAACACTAGTCTCACAACAGTTACT 58.726 40.000 0.00 0.00 0.00 2.24
49 50 5.462398 CCAACACTAGTCTCACAACAGTTAC 59.538 44.000 0.00 0.00 0.00 2.50
50 51 5.361571 TCCAACACTAGTCTCACAACAGTTA 59.638 40.000 0.00 0.00 0.00 2.24
51 52 4.161565 TCCAACACTAGTCTCACAACAGTT 59.838 41.667 0.00 0.00 0.00 3.16
52 53 3.704566 TCCAACACTAGTCTCACAACAGT 59.295 43.478 0.00 0.00 0.00 3.55
53 54 4.051922 GTCCAACACTAGTCTCACAACAG 58.948 47.826 0.00 0.00 0.00 3.16
54 55 3.704566 AGTCCAACACTAGTCTCACAACA 59.295 43.478 0.00 0.00 31.37 3.33
55 56 4.299978 GAGTCCAACACTAGTCTCACAAC 58.700 47.826 0.00 0.00 34.41 3.32
56 57 3.004419 CGAGTCCAACACTAGTCTCACAA 59.996 47.826 0.00 0.00 34.41 3.33
57 58 2.552743 CGAGTCCAACACTAGTCTCACA 59.447 50.000 0.00 0.00 34.41 3.58
58 59 2.812591 TCGAGTCCAACACTAGTCTCAC 59.187 50.000 0.00 0.00 34.41 3.51
59 60 3.075148 CTCGAGTCCAACACTAGTCTCA 58.925 50.000 3.62 0.00 34.41 3.27
60 61 3.075884 ACTCGAGTCCAACACTAGTCTC 58.924 50.000 13.58 0.00 34.41 3.36
61 62 3.143211 ACTCGAGTCCAACACTAGTCT 57.857 47.619 13.58 0.00 34.41 3.24
62 63 4.002316 AGTACTCGAGTCCAACACTAGTC 58.998 47.826 23.89 0.00 34.41 2.59
63 64 4.018484 AGTACTCGAGTCCAACACTAGT 57.982 45.455 23.89 1.32 34.41 2.57
64 65 5.177326 AGTAGTACTCGAGTCCAACACTAG 58.823 45.833 23.89 0.00 34.41 2.57
65 66 5.157940 AGTAGTACTCGAGTCCAACACTA 57.842 43.478 23.89 19.83 34.41 2.74
66 67 4.018484 AGTAGTACTCGAGTCCAACACT 57.982 45.455 23.89 20.90 38.45 3.55
67 68 4.023365 ACAAGTAGTACTCGAGTCCAACAC 60.023 45.833 23.89 14.41 0.00 3.32
68 69 4.023450 CACAAGTAGTACTCGAGTCCAACA 60.023 45.833 23.89 0.00 0.00 3.33
69 70 4.214971 TCACAAGTAGTACTCGAGTCCAAC 59.785 45.833 23.89 15.21 0.00 3.77
70 71 4.392047 TCACAAGTAGTACTCGAGTCCAA 58.608 43.478 23.89 0.83 0.00 3.53
71 72 4.011966 TCACAAGTAGTACTCGAGTCCA 57.988 45.455 23.89 1.74 0.00 4.02
72 73 5.564048 ATTCACAAGTAGTACTCGAGTCC 57.436 43.478 23.89 11.44 0.00 3.85
73 74 7.750769 AGTTATTCACAAGTAGTACTCGAGTC 58.249 38.462 23.89 13.74 0.00 3.36
74 75 7.684937 AGTTATTCACAAGTAGTACTCGAGT 57.315 36.000 23.66 23.66 0.00 4.18
84 85 9.524106 CCAACATATACGAGTTATTCACAAGTA 57.476 33.333 0.00 0.00 0.00 2.24
85 86 7.011109 GCCAACATATACGAGTTATTCACAAGT 59.989 37.037 0.00 0.00 0.00 3.16
86 87 7.224753 AGCCAACATATACGAGTTATTCACAAG 59.775 37.037 0.00 0.00 0.00 3.16
87 88 7.045416 AGCCAACATATACGAGTTATTCACAA 58.955 34.615 0.00 0.00 0.00 3.33
88 89 6.578944 AGCCAACATATACGAGTTATTCACA 58.421 36.000 0.00 0.00 0.00 3.58
89 90 8.583810 TTAGCCAACATATACGAGTTATTCAC 57.416 34.615 0.00 0.00 0.00 3.18
90 91 9.602568 TTTTAGCCAACATATACGAGTTATTCA 57.397 29.630 0.00 0.00 0.00 2.57
95 96 9.998106 ATCTATTTTAGCCAACATATACGAGTT 57.002 29.630 0.00 0.00 0.00 3.01
116 117 8.958119 TCAAGCGACAAACCTTATTTATCTAT 57.042 30.769 0.00 0.00 0.00 1.98
368 383 8.311650 ACAAAATTCTACATAGAGTGTGACAC 57.688 34.615 7.83 7.83 42.24 3.67
1714 1793 3.420839 GTCAGGTGACAAACAAACAGG 57.579 47.619 5.21 0.00 44.18 4.00
1743 1822 0.472925 TGGGAAGGTGTGCTCAGGTA 60.473 55.000 0.00 0.00 0.00 3.08
1792 1871 1.229145 TCACCCCCTTTTGCATGGG 60.229 57.895 11.68 11.68 44.03 4.00
1850 1929 8.491958 CCTAACTTATAAGTCACCCCAACTTAT 58.508 37.037 18.28 11.86 46.48 1.73
2092 2171 1.669795 CGCTGACATGCTCTACACACA 60.670 52.381 0.00 0.00 0.00 3.72
2154 2233 2.813754 GTTGCTTTGGTGTATCTGCTCA 59.186 45.455 0.00 0.00 0.00 4.26
2276 2355 0.101399 CAAGACGATGACCTCCTCGG 59.899 60.000 5.21 0.00 39.16 4.63
2449 2528 1.554042 CGTGCAAGTTACGCCGAGTT 61.554 55.000 0.00 0.00 34.56 3.01
3016 3103 3.484229 GCTGCATAAGTTAAGCGTCACAG 60.484 47.826 5.70 0.00 0.00 3.66
3017 3104 2.415168 GCTGCATAAGTTAAGCGTCACA 59.585 45.455 5.70 0.00 0.00 3.58
3018 3105 2.673368 AGCTGCATAAGTTAAGCGTCAC 59.327 45.455 1.02 0.00 40.63 3.67
3019 3106 2.972625 AGCTGCATAAGTTAAGCGTCA 58.027 42.857 1.02 0.00 40.63 4.35
3020 3107 3.863424 TGTAGCTGCATAAGTTAAGCGTC 59.137 43.478 0.00 0.51 40.63 5.19
3021 3108 3.617263 GTGTAGCTGCATAAGTTAAGCGT 59.383 43.478 8.05 0.00 40.63 5.07
3022 3109 3.616821 TGTGTAGCTGCATAAGTTAAGCG 59.383 43.478 8.05 2.49 40.63 4.68
3023 3110 5.504665 CCATGTGTAGCTGCATAAGTTAAGC 60.505 44.000 8.05 3.15 35.86 3.09
3024 3111 5.586243 ACCATGTGTAGCTGCATAAGTTAAG 59.414 40.000 8.05 0.00 0.00 1.85
3564 3686 1.368641 TGGTTGCATCTCGAAATCGG 58.631 50.000 2.63 0.00 40.29 4.18
3571 3693 3.696281 TGCATAATTGGTTGCATCTCG 57.304 42.857 8.05 0.00 43.54 4.04
3619 3742 9.046296 GTATTTGTATCCAAGATGATTCGTCTT 57.954 33.333 14.16 14.16 39.93 3.01
3629 3752 8.579850 TTCTTGCTTGTATTTGTATCCAAGAT 57.420 30.769 0.00 0.00 37.75 2.40
3692 3815 1.356527 GGTACCACCAACGACATCGC 61.357 60.000 7.15 0.00 39.74 4.58
3934 4057 2.680841 GTGATGGTGCGTAATTTGCCTA 59.319 45.455 0.54 0.00 0.00 3.93
3985 4108 4.510167 AGCCTACCAAGCATTATTCACT 57.490 40.909 0.00 0.00 0.00 3.41
4222 4353 3.756434 GCCCAATAGCTTCGCCATTTATA 59.244 43.478 0.00 0.00 0.00 0.98
4223 4354 2.558359 GCCCAATAGCTTCGCCATTTAT 59.442 45.455 0.00 0.00 0.00 1.40
4224 4355 1.953686 GCCCAATAGCTTCGCCATTTA 59.046 47.619 0.00 0.00 0.00 1.40


Based at the University of Bristol with support from BBSRC. BBSRC icon Bristol icon

AutoCloner maintained by Alex Coulton.