Multiple sequence alignment - TraesCS5A01G365900

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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 TraesCS5A01G365900 chr5A 100.000 3773 0 0 1 3773 565713062 565716834 0.000000e+00 6968.0
1 TraesCS5A01G365900 chr5A 78.234 1144 165 25 748 1839 675450352 675451463 0.000000e+00 656.0
2 TraesCS5A01G365900 chr5A 74.667 300 56 11 296 593 675450234 675450515 8.560000e-22 115.0
3 TraesCS5A01G365900 chr7D 92.709 3511 191 30 296 3773 557953271 557956749 0.000000e+00 5005.0
4 TraesCS5A01G365900 chr7D 93.149 905 48 3 4 908 557952860 557953750 0.000000e+00 1315.0
5 TraesCS5A01G365900 chr7D 94.049 689 40 1 4 691 574811591 574810903 0.000000e+00 1044.0
6 TraesCS5A01G365900 chr7D 80.357 280 48 7 490 765 574811134 574810858 4.940000e-49 206.0
7 TraesCS5A01G365900 chr7D 78.680 197 39 3 96 290 98667646 98667841 1.100000e-25 128.0
8 TraesCS5A01G365900 chr6D 86.279 1618 74 45 2248 3773 317121262 317122823 0.000000e+00 1622.0
9 TraesCS5A01G365900 chr6D 95.833 240 10 0 1911 2150 317121023 317121262 4.570000e-104 388.0
10 TraesCS5A01G365900 chr6D 94.915 59 3 0 1850 1908 317120910 317120968 4.010000e-15 93.5
11 TraesCS5A01G365900 chr1B 80.189 1166 129 59 2658 3766 549711115 549709995 0.000000e+00 780.0
12 TraesCS5A01G365900 chr1B 78.253 1122 160 37 767 1839 593784329 593785415 0.000000e+00 643.0
13 TraesCS5A01G365900 chr1B 74.333 300 57 11 296 593 593784192 593784473 3.980000e-20 110.0
14 TraesCS5A01G365900 chr1B 77.640 161 32 3 45 205 549712403 549712247 1.120000e-15 95.3
15 TraesCS5A01G365900 chr1B 80.612 98 17 2 907 1002 9637506 9637603 1.450000e-09 75.0
16 TraesCS5A01G365900 chr5B 78.183 1123 160 37 767 1839 691744494 691745581 4.110000e-179 638.0
17 TraesCS5A01G365900 chr5B 75.000 300 55 11 296 593 691744357 691744638 1.840000e-23 121.0
18 TraesCS5A01G365900 chr5B 82.569 109 17 2 33 140 61160698 61160805 1.120000e-15 95.3
19 TraesCS5A01G365900 chr5B 82.143 112 16 4 32 140 61165696 61165806 4.010000e-15 93.5
20 TraesCS5A01G365900 chr3B 80.193 828 96 33 1067 1839 60391899 60391085 3.290000e-155 558.0
21 TraesCS5A01G365900 chr3B 82.361 703 58 16 1180 1839 132086750 132086071 5.510000e-153 551.0
22 TraesCS5A01G365900 chr3B 78.419 329 66 5 59 386 60394477 60394153 3.820000e-50 209.0
23 TraesCS5A01G365900 chr3B 89.333 75 8 0 800 874 60394044 60393970 1.120000e-15 95.3
24 TraesCS5A01G365900 chrUn 85.870 552 34 17 3266 3773 444449290 444448739 7.130000e-152 547.0
25 TraesCS5A01G365900 chrUn 85.688 552 35 18 3266 3773 83176021 83176572 3.320000e-150 542.0
26 TraesCS5A01G365900 chrUn 85.507 552 36 17 3266 3773 83147373 83147924 1.540000e-148 536.0
27 TraesCS5A01G365900 chrUn 85.603 257 36 1 1028 1284 83147008 83147263 6.210000e-68 268.0
28 TraesCS5A01G365900 chrUn 87.783 221 26 1 1064 1284 444449619 444449400 1.340000e-64 257.0
29 TraesCS5A01G365900 chrUn 84.436 257 38 2 1028 1284 83175654 83175908 6.260000e-63 252.0
30 TraesCS5A01G365900 chrUn 92.661 109 8 0 2727 2835 83147269 83147377 1.400000e-34 158.0
31 TraesCS5A01G365900 chr7A 85.507 552 36 20 3266 3773 695150049 695149498 1.540000e-148 536.0
32 TraesCS5A01G365900 chr7A 85.326 552 37 22 3266 3773 695035295 695034744 7.180000e-147 531.0
33 TraesCS5A01G365900 chr7A 84.783 552 40 20 3266 3773 694881873 694881322 7.230000e-142 514.0
34 TraesCS5A01G365900 chr7A 86.434 258 34 1 1028 1284 694882238 694881981 7.980000e-72 281.0
35 TraesCS5A01G365900 chr7A 88.688 221 25 0 1064 1284 695150379 695150159 1.730000e-68 270.0
36 TraesCS5A01G365900 chr7A 88.265 196 22 1 1064 1259 695035597 695035403 2.270000e-57 233.0
37 TraesCS5A01G365900 chr7A 92.523 107 8 0 2729 2835 695035397 695035291 1.810000e-33 154.0
38 TraesCS5A01G365900 chr7A 91.743 109 9 0 2727 2835 695150153 695150045 6.530000e-33 152.0
39 TraesCS5A01G365900 chr7A 100.000 28 0 0 2450 2477 352907232 352907259 7.000000e-03 52.8
40 TraesCS5A01G365900 chr2D 90.093 323 24 4 1517 1839 29092431 29092745 2.710000e-111 412.0
41 TraesCS5A01G365900 chr2D 83.636 110 17 1 32 140 29091247 29091356 6.670000e-18 102.0
42 TraesCS5A01G365900 chr2D 82.353 102 16 2 774 874 29092009 29092109 1.870000e-13 87.9
43 TraesCS5A01G365900 chr4D 89.769 303 23 3 1537 1839 85848244 85848538 7.650000e-102 381.0
44 TraesCS5A01G365900 chr4D 77.153 569 120 8 574 1138 85833897 85834459 4.700000e-84 322.0
45 TraesCS5A01G365900 chr4D 80.000 355 39 18 1207 1545 85836339 85836677 2.270000e-57 233.0
46 TraesCS5A01G365900 chr4D 84.314 102 14 2 774 874 85834068 85834168 8.620000e-17 99.0
47 TraesCS5A01G365900 chr7B 87.616 323 20 11 1517 1839 228805349 228805047 1.290000e-94 357.0
48 TraesCS5A01G365900 chr7B 83.333 102 15 2 774 874 228806138 228806038 4.010000e-15 93.5
49 TraesCS5A01G365900 chr7B 80.808 99 17 2 99 196 54319240 54319337 4.040000e-10 76.8
50 TraesCS5A01G365900 chr2B 87.560 209 26 0 574 782 134343938 134343730 3.770000e-60 243.0
51 TraesCS5A01G365900 chr2B 90.244 82 7 1 31 111 134344561 134344480 5.150000e-19 106.0
52 TraesCS5A01G365900 chr5D 87.778 90 9 2 32 120 57177615 57177527 1.850000e-18 104.0
53 TraesCS5A01G365900 chr4B 90.244 41 4 0 318 358 637343691 637343731 2.000000e-03 54.7


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 TraesCS5A01G365900 chr5A 565713062 565716834 3772 False 6968.000000 6968 100.000000 1 3773 1 chr5A.!!$F1 3772
1 TraesCS5A01G365900 chr5A 675450234 675451463 1229 False 385.500000 656 76.450500 296 1839 2 chr5A.!!$F2 1543
2 TraesCS5A01G365900 chr7D 557952860 557956749 3889 False 3160.000000 5005 92.929000 4 3773 2 chr7D.!!$F2 3769
3 TraesCS5A01G365900 chr7D 574810858 574811591 733 True 625.000000 1044 87.203000 4 765 2 chr7D.!!$R1 761
4 TraesCS5A01G365900 chr6D 317120910 317122823 1913 False 701.166667 1622 92.342333 1850 3773 3 chr6D.!!$F1 1923
5 TraesCS5A01G365900 chr1B 549709995 549712403 2408 True 437.650000 780 78.914500 45 3766 2 chr1B.!!$R1 3721
6 TraesCS5A01G365900 chr1B 593784192 593785415 1223 False 376.500000 643 76.293000 296 1839 2 chr1B.!!$F2 1543
7 TraesCS5A01G365900 chr5B 691744357 691745581 1224 False 379.500000 638 76.591500 296 1839 2 chr5B.!!$F3 1543
8 TraesCS5A01G365900 chr3B 132086071 132086750 679 True 551.000000 551 82.361000 1180 1839 1 chr3B.!!$R1 659
9 TraesCS5A01G365900 chr3B 60391085 60394477 3392 True 287.433333 558 82.648333 59 1839 3 chr3B.!!$R2 1780
10 TraesCS5A01G365900 chrUn 444448739 444449619 880 True 402.000000 547 86.826500 1064 3773 2 chrUn.!!$R1 2709
11 TraesCS5A01G365900 chrUn 83175654 83176572 918 False 397.000000 542 85.062000 1028 3773 2 chrUn.!!$F2 2745
12 TraesCS5A01G365900 chrUn 83147008 83147924 916 False 320.666667 536 87.923667 1028 3773 3 chrUn.!!$F1 2745
13 TraesCS5A01G365900 chr7A 694881322 694882238 916 True 397.500000 514 85.608500 1028 3773 2 chr7A.!!$R1 2745
14 TraesCS5A01G365900 chr7A 695149498 695150379 881 True 319.333333 536 88.646000 1064 3773 3 chr7A.!!$R3 2709
15 TraesCS5A01G365900 chr7A 695034744 695035597 853 True 306.000000 531 88.704667 1064 3773 3 chr7A.!!$R2 2709
16 TraesCS5A01G365900 chr2D 29091247 29092745 1498 False 200.633333 412 85.360667 32 1839 3 chr2D.!!$F1 1807
17 TraesCS5A01G365900 chr4D 85833897 85836677 2780 False 218.000000 322 80.489000 574 1545 3 chr4D.!!$F2 971
18 TraesCS5A01G365900 chr7B 228805047 228806138 1091 True 225.250000 357 85.474500 774 1839 2 chr7B.!!$R1 1065

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
323 793 0.333312 TTTTACACATCCGGGCCCAT 59.667 50.000 24.92 5.49 0.00 4.00 F
1588 5941 1.069823 CCGATGCCACTGCTCTTCTAT 59.930 52.381 0.00 0.00 38.71 1.98 F
2357 6765 1.185618 TTCTGCTACTCCTGCCACGT 61.186 55.000 0.00 0.00 0.00 4.49 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1753 6106 0.108186 CCAGAGTTGGCAGCGACATA 60.108 55.000 0.0 0.0 37.73 2.29 R
2571 6985 1.344953 ACTGCTGGGTCAGGTTGTGA 61.345 55.000 0.0 0.0 38.36 3.58 R
3643 8243 1.987855 GTGACGGAGGGGATGGTGA 60.988 63.158 0.0 0.0 0.00 4.02 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
28 29 7.014326 CCCATAGTGCTAGTAGTAGAATTGACA 59.986 40.741 8.87 0.00 0.00 3.58
290 620 7.387265 ACCCATGGTATTATTAGTGTGATCA 57.613 36.000 11.73 0.00 32.11 2.92
312 782 1.865970 CGCAAGTACCGGTTTTACACA 59.134 47.619 15.04 0.00 0.00 3.72
323 793 0.333312 TTTTACACATCCGGGCCCAT 59.667 50.000 24.92 5.49 0.00 4.00
345 815 3.272574 ACTACCGATCTTAGTCGTCCA 57.727 47.619 0.00 0.00 39.89 4.02
417 887 6.269315 CAGCTCACTACAATCGATCTTACTT 58.731 40.000 0.00 0.00 0.00 2.24
505 975 6.098409 ACCCACAAGTATCGATCTTAGTCATT 59.902 38.462 0.00 0.00 0.00 2.57
527 997 2.802057 CGGACCCACAAGTATCGATTCC 60.802 54.545 1.71 0.00 0.00 3.01
563 1033 5.184287 CCCACAATACCGGTTTTACTCATTT 59.816 40.000 15.04 0.00 0.00 2.32
653 1123 1.262640 ATTGGTCTTAGTCGGCGGGT 61.263 55.000 7.21 0.00 0.00 5.28
732 1202 4.081972 GGCTCACTACTTCAATCTCAGTCA 60.082 45.833 0.00 0.00 0.00 3.41
736 1206 7.232118 TCACTACTTCAATCTCAGTCATTCA 57.768 36.000 0.00 0.00 0.00 2.57
891 1478 8.082852 TCGATCTTACTCATTTAGGCTCATTAC 58.917 37.037 0.00 0.00 0.00 1.89
979 3419 5.099042 ACTCATACAGGTCCACAAATACC 57.901 43.478 0.00 0.00 35.91 2.73
1077 3525 5.854010 ACCTTAAGTATCGATCTTGCTCA 57.146 39.130 0.00 0.00 0.00 4.26
1087 3535 2.748605 GATCTTGCTCATACTGACCCG 58.251 52.381 0.00 0.00 0.00 5.28
1130 3578 4.341235 TCCAGAACCATAAGTATCGGTCTG 59.659 45.833 4.51 4.51 32.43 3.51
1148 5377 2.722201 GGCTCGTTCCGACCCTCAT 61.722 63.158 0.00 0.00 29.91 2.90
1379 5672 2.204013 GCTCCTATCCCCTCCCCC 60.204 72.222 0.00 0.00 0.00 5.40
1485 5811 2.037367 CCACGACCCTCTCCTCCA 59.963 66.667 0.00 0.00 0.00 3.86
1499 5825 2.031012 TCCACTGCCAAGTCTGCG 59.969 61.111 0.00 0.00 32.98 5.18
1588 5941 1.069823 CCGATGCCACTGCTCTTCTAT 59.930 52.381 0.00 0.00 38.71 1.98
1681 6034 2.962859 AGAAGCTGTGGGTGGAAATTT 58.037 42.857 0.00 0.00 0.00 1.82
1758 6111 6.108097 TCGATATGCGAGTATGTCTATGTC 57.892 41.667 0.00 0.00 45.59 3.06
1798 6151 5.065218 GGTGTGTTCACAGGATGATTCATAC 59.935 44.000 5.85 0.11 45.45 2.39
1861 6214 2.409948 AGAGGAAATGTGGCTACTGC 57.590 50.000 0.64 0.00 38.76 4.40
2286 6694 7.862873 TGTTATGTGTGCGTTTTCATTCAATTA 59.137 29.630 0.00 0.00 0.00 1.40
2357 6765 1.185618 TTCTGCTACTCCTGCCACGT 61.186 55.000 0.00 0.00 0.00 4.49
2575 6989 1.737735 CTGAGCGGCGAACATCACA 60.738 57.895 12.98 0.00 0.00 3.58
2672 7117 1.582502 GCTGCAACGACGACTACATAC 59.417 52.381 0.00 0.00 0.00 2.39
2735 7180 8.908903 AGATATAGCATTAGAAAGGAGATACGG 58.091 37.037 0.00 0.00 0.00 4.02
2791 7236 2.184533 ACGTGTTCTCCCCATGACATA 58.815 47.619 0.00 0.00 0.00 2.29
2856 7306 3.848272 TCGCCCTTTGTTTCATTGATC 57.152 42.857 0.00 0.00 0.00 2.92
2884 7334 4.871871 TTGGCTTACCCTCCATTATTCA 57.128 40.909 0.00 0.00 33.59 2.57
3226 7741 7.716560 TGATGAGAAACCAACATGATATTCGAT 59.283 33.333 0.00 0.00 0.00 3.59
3227 7742 9.208022 GATGAGAAACCAACATGATATTCGATA 57.792 33.333 0.00 0.00 0.00 2.92
3228 7743 8.956533 TGAGAAACCAACATGATATTCGATAA 57.043 30.769 0.00 0.00 0.00 1.75
3229 7744 8.826710 TGAGAAACCAACATGATATTCGATAAC 58.173 33.333 0.00 0.00 0.00 1.89
3230 7745 8.154649 AGAAACCAACATGATATTCGATAACC 57.845 34.615 0.00 0.00 0.00 2.85
3231 7746 7.773224 AGAAACCAACATGATATTCGATAACCA 59.227 33.333 0.00 0.00 0.00 3.67
3232 7747 6.861065 ACCAACATGATATTCGATAACCAC 57.139 37.500 0.00 0.00 0.00 4.16
3233 7748 6.591935 ACCAACATGATATTCGATAACCACT 58.408 36.000 0.00 0.00 0.00 4.00
3234 7749 7.054124 ACCAACATGATATTCGATAACCACTT 58.946 34.615 0.00 0.00 0.00 3.16
3235 7750 7.012327 ACCAACATGATATTCGATAACCACTTG 59.988 37.037 0.00 0.00 0.00 3.16
3236 7751 7.226523 CCAACATGATATTCGATAACCACTTGA 59.773 37.037 0.00 0.00 0.00 3.02
3237 7752 7.715265 ACATGATATTCGATAACCACTTGAC 57.285 36.000 0.00 0.00 0.00 3.18
3238 7753 7.272244 ACATGATATTCGATAACCACTTGACA 58.728 34.615 0.00 0.00 0.00 3.58
3239 7754 7.439356 ACATGATATTCGATAACCACTTGACAG 59.561 37.037 0.00 0.00 0.00 3.51
3240 7755 6.873997 TGATATTCGATAACCACTTGACAGT 58.126 36.000 0.00 0.00 0.00 3.55
3241 7756 8.002984 TGATATTCGATAACCACTTGACAGTA 57.997 34.615 0.00 0.00 0.00 2.74
3242 7757 8.471609 TGATATTCGATAACCACTTGACAGTAA 58.528 33.333 0.00 0.00 0.00 2.24
3243 7758 9.477484 GATATTCGATAACCACTTGACAGTAAT 57.523 33.333 0.00 0.00 0.00 1.89
3246 7761 9.832445 ATTCGATAACCACTTGACAGTAATATT 57.168 29.630 0.00 0.00 0.00 1.28
3247 7762 8.642908 TCGATAACCACTTGACAGTAATATTG 57.357 34.615 0.00 0.00 0.00 1.90
3248 7763 7.223971 TCGATAACCACTTGACAGTAATATTGC 59.776 37.037 0.00 0.00 0.00 3.56
3295 7834 8.196771 TGCGATATGGAAAATTAAGAGCAAAAT 58.803 29.630 0.00 0.00 0.00 1.82
3363 7906 7.609146 AGATGACATCAAGTTTCAGCATCTTAA 59.391 33.333 17.57 0.00 38.33 1.85
3452 7997 5.435686 AGCATAACCAATCAGGACAGTTA 57.564 39.130 0.00 0.00 41.22 2.24
3628 8221 6.326583 TCAAACTCCTTGAGGTTTAGAGAAGA 59.673 38.462 0.00 0.00 37.51 2.87
3657 8257 3.849951 CCGTCACCATCCCCTCCG 61.850 72.222 0.00 0.00 0.00 4.63
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
0 1 7.230913 TCAATTCTACTACTAGCACTATGGGTC 59.769 40.741 0.00 0.00 0.00 4.46
1 2 7.014422 GTCAATTCTACTACTAGCACTATGGGT 59.986 40.741 0.00 0.00 0.00 4.51
2 3 7.014326 TGTCAATTCTACTACTAGCACTATGGG 59.986 40.741 0.00 0.00 0.00 4.00
28 29 5.755375 CGACTAGCACAATGATCCATACTTT 59.245 40.000 0.00 0.00 0.00 2.66
37 38 2.497675 AGACCACGACTAGCACAATGAT 59.502 45.455 0.00 0.00 0.00 2.45
145 475 5.921408 CAGAACTTAGCACTATCGGTTATCC 59.079 44.000 0.00 0.00 0.00 2.59
184 514 3.031736 TCTGATCCCCAACTAGCACTAC 58.968 50.000 0.00 0.00 0.00 2.73
290 620 1.202627 TGTAAAACCGGTACTTGCGGT 60.203 47.619 8.00 8.65 37.66 5.68
305 775 0.333312 AATGGGCCCGGATGTGTAAA 59.667 50.000 19.37 0.00 0.00 2.01
312 782 1.477685 CGGTAGTAATGGGCCCGGAT 61.478 60.000 19.37 8.28 35.11 4.18
323 793 4.769688 TGGACGACTAAGATCGGTAGTAA 58.230 43.478 10.92 0.00 46.56 2.24
345 815 5.202004 ACTAAGATCGATACTTGTGGGTCT 58.798 41.667 15.84 0.00 0.00 3.85
417 887 2.821969 GACCGGTACTTAAGTCCAGACA 59.178 50.000 12.39 0.00 0.00 3.41
505 975 1.771565 ATCGATACTTGTGGGTCCGA 58.228 50.000 0.00 0.00 0.00 4.55
527 997 0.253044 ATTGTGGGTCCGGATGACTG 59.747 55.000 7.81 0.00 43.89 3.51
563 1033 3.510531 AGATCCATAGTAGTGAGCCGA 57.489 47.619 0.00 0.00 0.00 5.54
653 1123 4.338012 TGAGTAAGACCGATACTTGTGGA 58.662 43.478 0.00 0.00 33.85 4.02
732 1202 6.723298 AGATCGGTACTTCTCATCTTGAAT 57.277 37.500 0.00 0.00 0.00 2.57
736 1206 7.648039 AACTAAGATCGGTACTTCTCATCTT 57.352 36.000 0.00 0.00 37.52 2.40
891 1478 6.037098 GGTTCCGGATGATTAAGATCGATAG 58.963 44.000 4.15 0.00 34.91 2.08
1077 3525 1.078426 GGCACTTGCGGGTCAGTAT 60.078 57.895 0.00 0.00 43.26 2.12
1087 3535 0.445436 CAACTGAGATCGGCACTTGC 59.555 55.000 0.00 0.00 41.14 4.01
1175 5405 6.081693 GGTGTAAACGCGTGAAATATTTTCT 58.918 36.000 14.98 0.00 0.00 2.52
1379 5672 1.266718 CGATTTGGTGGGGCGATAATG 59.733 52.381 0.00 0.00 0.00 1.90
1410 5704 0.249868 CTGCGTTCAACCAGACTGGA 60.250 55.000 28.56 2.45 40.96 3.86
1753 6106 0.108186 CCAGAGTTGGCAGCGACATA 60.108 55.000 0.00 0.00 37.73 2.29
1754 6107 1.376424 CCAGAGTTGGCAGCGACAT 60.376 57.895 0.00 0.00 37.73 3.06
1755 6108 2.031012 CCAGAGTTGGCAGCGACA 59.969 61.111 0.00 0.00 37.73 4.35
1756 6109 1.739562 CTCCAGAGTTGGCAGCGAC 60.740 63.158 0.00 0.00 44.63 5.19
1757 6110 2.659016 CTCCAGAGTTGGCAGCGA 59.341 61.111 0.00 0.00 44.63 4.93
1758 6111 2.435586 CCTCCAGAGTTGGCAGCG 60.436 66.667 0.00 0.00 44.63 5.18
1798 6151 4.250464 AGATTGTGCATTTTCAAGCATGG 58.750 39.130 5.92 0.00 43.44 3.66
1861 6214 4.388499 CGTGACCTTCCACCCCCG 62.388 72.222 0.00 0.00 33.67 5.73
2058 6463 1.977594 CTAATTCCGGTGGCACGCAC 61.978 60.000 12.17 0.00 43.02 5.34
2286 6694 4.292306 AGGACCTTTAACATGGGAGACAAT 59.708 41.667 0.00 0.00 0.00 2.71
2357 6765 2.894902 TGTTCGCAGTTGTTGTACTCA 58.105 42.857 0.00 0.00 0.00 3.41
2571 6985 1.344953 ACTGCTGGGTCAGGTTGTGA 61.345 55.000 0.00 0.00 38.36 3.58
2575 6989 1.696097 AACGACTGCTGGGTCAGGTT 61.696 55.000 0.00 0.00 38.36 3.50
2672 7117 7.854557 TCTTTAACATCCTCATCATTCACTG 57.145 36.000 0.00 0.00 0.00 3.66
2735 7180 5.808042 AAATCATCAGTATATGCGCCATC 57.192 39.130 4.18 0.00 0.00 3.51
2791 7236 5.068460 TGTCAAATCAATTTTCGACAGGGTT 59.932 36.000 5.14 0.00 33.93 4.11
2856 7306 1.439679 GAGGGTAAGCCAAACAGACG 58.560 55.000 0.00 0.00 36.17 4.18
2884 7334 6.855763 TGCAGATGATACCAAAAAGGAATT 57.144 33.333 0.00 0.00 41.22 2.17
3200 7715 7.047271 TCGAATATCATGTTGGTTTCTCATCA 58.953 34.615 0.00 0.00 0.00 3.07
3226 7741 9.158233 GTTAGCAATATTACTGTCAAGTGGTTA 57.842 33.333 0.00 0.00 37.19 2.85
3227 7742 7.120726 GGTTAGCAATATTACTGTCAAGTGGTT 59.879 37.037 0.00 0.00 37.19 3.67
3228 7743 6.598064 GGTTAGCAATATTACTGTCAAGTGGT 59.402 38.462 0.00 0.00 37.19 4.16
3229 7744 6.597672 TGGTTAGCAATATTACTGTCAAGTGG 59.402 38.462 0.00 0.00 37.19 4.00
3230 7745 7.334421 AGTGGTTAGCAATATTACTGTCAAGTG 59.666 37.037 0.00 0.00 37.19 3.16
3231 7746 7.394816 AGTGGTTAGCAATATTACTGTCAAGT 58.605 34.615 0.00 0.00 40.67 3.16
3232 7747 7.849804 AGTGGTTAGCAATATTACTGTCAAG 57.150 36.000 0.00 0.00 0.00 3.02
3233 7748 7.880713 TCAAGTGGTTAGCAATATTACTGTCAA 59.119 33.333 0.00 0.00 0.00 3.18
3234 7749 7.333423 GTCAAGTGGTTAGCAATATTACTGTCA 59.667 37.037 0.00 0.00 0.00 3.58
3235 7750 7.333423 TGTCAAGTGGTTAGCAATATTACTGTC 59.667 37.037 0.00 0.00 0.00 3.51
3236 7751 7.165485 TGTCAAGTGGTTAGCAATATTACTGT 58.835 34.615 0.00 0.00 0.00 3.55
3237 7752 7.334421 ACTGTCAAGTGGTTAGCAATATTACTG 59.666 37.037 0.00 0.00 34.48 2.74
3238 7753 7.394816 ACTGTCAAGTGGTTAGCAATATTACT 58.605 34.615 0.00 0.00 34.48 2.24
3239 7754 7.611213 ACTGTCAAGTGGTTAGCAATATTAC 57.389 36.000 0.00 0.00 34.48 1.89
3240 7755 9.899661 ATTACTGTCAAGTGGTTAGCAATATTA 57.100 29.630 0.00 0.00 37.19 0.98
3241 7756 8.807948 ATTACTGTCAAGTGGTTAGCAATATT 57.192 30.769 0.00 0.00 37.19 1.28
3243 7758 9.899661 AATATTACTGTCAAGTGGTTAGCAATA 57.100 29.630 0.00 0.00 37.19 1.90
3244 7759 8.677300 CAATATTACTGTCAAGTGGTTAGCAAT 58.323 33.333 0.00 0.00 37.19 3.56
3245 7760 7.361713 GCAATATTACTGTCAAGTGGTTAGCAA 60.362 37.037 0.00 0.00 37.19 3.91
3246 7761 6.093495 GCAATATTACTGTCAAGTGGTTAGCA 59.907 38.462 0.00 0.00 37.19 3.49
3247 7762 6.487103 GCAATATTACTGTCAAGTGGTTAGC 58.513 40.000 0.00 0.00 37.19 3.09
3248 7763 6.533723 TCGCAATATTACTGTCAAGTGGTTAG 59.466 38.462 0.00 0.00 37.19 2.34
3295 7834 6.888105 TGAGGAAATATATGTGCAACTGAGA 58.112 36.000 0.00 0.00 38.04 3.27
3363 7906 8.814038 AGCTCAAAATGTTATAGGATTGAGTT 57.186 30.769 13.06 6.13 43.41 3.01
3452 7997 8.940952 GTTTCTTAGTCTAGAAGTGCATCAATT 58.059 33.333 0.00 0.00 35.69 2.32
3643 8243 1.987855 GTGACGGAGGGGATGGTGA 60.988 63.158 0.00 0.00 0.00 4.02
3657 8257 4.699522 AAAGGAGGCGGCGGTGAC 62.700 66.667 9.78 0.00 0.00 3.67


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

AutoCloner maintained by Alex Coulton.