Multiple sequence alignment - TraesCS2A01G382800

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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 TraesCS2A01G382800 chr2A 100.000 2300 0 0 1 2300 627543021 627540722 0.000000e+00 4248.0
1 TraesCS2A01G382800 chr2A 94.064 1314 66 1 987 2300 627550087 627548786 0.000000e+00 1984.0
2 TraesCS2A01G382800 chr2A 86.438 1106 119 27 1203 2300 188730192 188729110 0.000000e+00 1182.0
3 TraesCS2A01G382800 chr2A 96.353 713 26 0 4 716 627550794 627550082 0.000000e+00 1173.0
4 TraesCS2A01G382800 chr2A 81.216 1102 139 40 1220 2299 131570361 131569306 0.000000e+00 826.0
5 TraesCS2A01G382800 chr2A 83.734 916 93 36 1407 2300 57644997 57644116 0.000000e+00 815.0
6 TraesCS2A01G382800 chr2A 91.824 159 11 2 404 560 721992563 721992721 1.070000e-53 220.0
7 TraesCS2A01G382800 chr5A 85.546 1785 188 36 533 2300 579259729 579257998 0.000000e+00 1803.0
8 TraesCS2A01G382800 chr5A 88.592 1385 131 20 533 1903 579275691 579274320 0.000000e+00 1657.0
9 TraesCS2A01G382800 chr5A 85.766 1110 120 24 1203 2300 280535228 280534145 0.000000e+00 1140.0
10 TraesCS2A01G382800 chr5A 86.288 897 86 22 1424 2300 588121001 588120122 0.000000e+00 941.0
11 TraesCS2A01G382800 chr5A 94.488 381 20 1 1 380 686958966 686958586 9.160000e-164 586.0
12 TraesCS2A01G382800 chr5A 91.168 351 25 5 1 348 236934527 236934874 2.670000e-129 472.0
13 TraesCS2A01G382800 chr5A 88.312 308 25 10 1 305 142075075 142074776 2.170000e-95 359.0
14 TraesCS2A01G382800 chr5A 89.011 273 24 6 1 271 636356037 636355769 1.320000e-87 333.0
15 TraesCS2A01G382800 chr5A 93.088 217 14 1 165 380 582130150 582129934 1.330000e-82 316.0
16 TraesCS2A01G382800 chr5A 90.783 217 18 2 165 380 582116789 582116574 2.890000e-74 289.0
17 TraesCS2A01G382800 chr5A 94.366 71 0 3 275 342 442364560 442364491 3.130000e-19 106.0
18 TraesCS2A01G382800 chr5A 94.366 71 0 3 275 342 442372663 442372594 3.130000e-19 106.0
19 TraesCS2A01G382800 chr3A 86.992 1107 116 15 1200 2300 454115017 454116101 0.000000e+00 1221.0
20 TraesCS2A01G382800 chr3A 86.705 880 78 22 1440 2300 623271276 623270417 0.000000e+00 941.0
21 TraesCS2A01G382800 chr3A 85.181 938 97 24 1381 2300 316659276 316660189 0.000000e+00 924.0
22 TraesCS2A01G382800 chr3A 85.017 861 88 20 1457 2300 623249604 623248768 0.000000e+00 837.0
23 TraesCS2A01G382800 chr3A 96.588 381 10 2 1 380 265403021 265402643 1.500000e-176 628.0
24 TraesCS2A01G382800 chr3A 83.626 513 65 13 1201 1699 316337965 316338472 4.480000e-127 464.0
25 TraesCS2A01G382800 chr3A 87.273 275 30 3 1444 1713 428080847 428080573 2.220000e-80 309.0
26 TraesCS2A01G382800 chr3A 86.559 186 17 5 389 572 363187802 363187981 5.010000e-47 198.0
27 TraesCS2A01G382800 chr7A 86.823 1108 115 17 1200 2300 301240725 301241808 0.000000e+00 1208.0
28 TraesCS2A01G382800 chr7A 96.063 381 14 1 1 380 354350243 354350623 9.030000e-174 619.0
29 TraesCS2A01G382800 chr7A 95.789 380 16 0 1 380 661342249 661342628 4.200000e-172 614.0
30 TraesCS2A01G382800 chr7A 95.276 381 17 1 1 380 574931472 574931852 9.090000e-169 603.0
31 TraesCS2A01G382800 chr7A 95.026 382 17 1 1 380 354341887 354342268 1.180000e-167 599.0
32 TraesCS2A01G382800 chr7A 95.000 380 19 0 1 380 326778412 326778033 4.230000e-167 597.0
33 TraesCS2A01G382800 chr7A 90.566 159 13 2 404 560 552756064 552755906 2.320000e-50 209.0
34 TraesCS2A01G382800 chr7A 89.610 154 13 2 389 542 426491203 426491353 2.330000e-45 193.0
35 TraesCS2A01G382800 chr7A 85.535 159 22 1 579 737 536821582 536821425 5.080000e-37 165.0
36 TraesCS2A01G382800 chr7A 82.292 192 28 4 551 737 536813567 536813377 6.580000e-36 161.0
37 TraesCS2A01G382800 chr4A 86.450 1107 118 20 1203 2300 207531778 207532861 0.000000e+00 1184.0
38 TraesCS2A01G382800 chr4A 84.744 1075 113 23 1232 2297 205542037 205543069 0.000000e+00 1029.0
39 TraesCS2A01G382800 chr4A 96.316 380 14 0 1 380 497257504 497257125 1.940000e-175 625.0
40 TraesCS2A01G382800 chr4A 92.453 159 10 2 404 560 448936794 448936952 2.300000e-55 226.0
41 TraesCS2A01G382800 chr4A 89.677 155 12 3 389 542 66657297 66657448 6.480000e-46 195.0
42 TraesCS2A01G382800 chr4A 89.610 154 13 2 389 542 66649303 66649453 2.330000e-45 193.0
43 TraesCS2A01G382800 chr4A 89.381 113 12 0 373 485 136971405 136971293 2.380000e-30 143.0
44 TraesCS2A01G382800 chr4A 86.992 123 8 7 453 574 200817214 200817329 5.160000e-27 132.0
45 TraesCS2A01G382800 chr4A 83.916 143 13 9 432 572 200825307 200825441 6.670000e-26 128.0
46 TraesCS2A01G382800 chr4D 92.374 577 35 8 684 1257 141364086 141364656 0.000000e+00 813.0
47 TraesCS2A01G382800 chr4D 90.816 98 9 0 584 681 300349861 300349958 5.160000e-27 132.0
48 TraesCS2A01G382800 chr2D 92.388 578 33 9 684 1257 236106837 236107407 0.000000e+00 813.0
49 TraesCS2A01G382800 chr2D 92.160 574 34 9 684 1253 337477107 337477673 0.000000e+00 800.0
50 TraesCS2A01G382800 chr2D 92.105 570 35 9 684 1250 337469181 337469743 0.000000e+00 795.0
51 TraesCS2A01G382800 chr5D 91.696 578 37 9 684 1257 162284052 162284622 0.000000e+00 791.0
52 TraesCS2A01G382800 chr5D 91.508 577 40 8 684 1257 162292034 162292604 0.000000e+00 785.0
53 TraesCS2A01G382800 chr6D 91.812 574 36 9 684 1253 202164967 202165533 0.000000e+00 789.0
54 TraesCS2A01G382800 chr6D 83.038 902 110 33 1421 2300 419817820 419816940 0.000000e+00 778.0
55 TraesCS2A01G382800 chr1A 81.378 929 128 30 1387 2300 473469155 473468257 0.000000e+00 715.0
56 TraesCS2A01G382800 chr1A 87.797 295 26 8 1 293 186504726 186505012 1.020000e-88 337.0
57 TraesCS2A01G382800 chr1A 86.397 272 30 6 1 268 161949092 161949360 8.040000e-75 291.0
58 TraesCS2A01G382800 chr1A 87.500 256 20 9 10 262 125823203 125823449 3.740000e-73 285.0
59 TraesCS2A01G382800 chr1A 88.793 232 24 2 1 232 196170154 196170383 1.350000e-72 283.0
60 TraesCS2A01G382800 chr1A 85.870 276 27 9 1 271 543273025 543273293 1.350000e-72 283.0
61 TraesCS2A01G382800 chr1A 85.348 273 30 9 1 269 538178396 538178662 8.100000e-70 274.0
62 TraesCS2A01G382800 chr1A 85.294 272 31 8 1 269 538238709 538238974 2.910000e-69 272.0
63 TraesCS2A01G382800 chr1A 84.871 271 35 6 2 269 168719734 168720001 3.770000e-68 268.0
64 TraesCS2A01G382800 chr1A 86.777 242 26 6 2 241 403913103 403913340 4.870000e-67 265.0
65 TraesCS2A01G382800 chr1A 83.813 278 29 10 1 271 543280876 543281144 1.360000e-62 250.0
66 TraesCS2A01G382800 chr1A 95.364 151 6 1 389 539 407068913 407069062 2.950000e-59 239.0
67 TraesCS2A01G382800 chr1A 89.247 186 14 4 389 572 407021248 407021429 6.390000e-56 228.0
68 TraesCS2A01G382800 chr1A 90.260 154 11 3 389 542 350384504 350384355 5.010000e-47 198.0
69 TraesCS2A01G382800 chr1A 89.610 154 12 3 389 542 350391357 350391208 2.330000e-45 193.0
70 TraesCS2A01G382800 chr1A 77.838 185 27 9 165 343 428013349 428013525 4.040000e-18 102.0
71 TraesCS2A01G382800 chr1A 92.958 71 1 3 275 342 274661815 274661884 1.450000e-17 100.0
72 TraesCS2A01G382800 chr1A 92.958 71 1 3 275 342 274669925 274669994 1.450000e-17 100.0
73 TraesCS2A01G382800 chr1A 77.838 185 26 11 165 343 428005173 428005348 1.450000e-17 100.0
74 TraesCS2A01G382800 chr1A 91.071 56 1 3 290 342 147099788 147099734 3.170000e-09 73.1
75 TraesCS2A01G382800 chr1A 90.566 53 2 2 289 338 226478069 226478017 1.470000e-07 67.6
76 TraesCS2A01G382800 chr1A 83.784 74 9 2 268 338 231986330 231986403 1.470000e-07 67.6
77 TraesCS2A01G382800 chr6A 90.977 266 23 1 1 265 344052917 344053182 7.810000e-95 357.0
78 TraesCS2A01G382800 chr6A 90.406 271 18 7 1 268 63192661 63192926 1.310000e-92 350.0
79 TraesCS2A01G382800 chr6A 87.171 304 30 8 1 303 324801009 324801304 1.020000e-88 337.0
80 TraesCS2A01G382800 chr6A 85.455 330 31 16 5 328 507976667 507976985 6.130000e-86 327.0
81 TraesCS2A01G382800 chr6A 91.064 235 16 4 1 233 47786613 47786844 1.720000e-81 313.0
82 TraesCS2A01G382800 chr6A 88.104 269 25 6 1 264 333745672 333745406 1.720000e-81 313.0
83 TraesCS2A01G382800 chr6A 85.350 314 27 16 1 306 333662579 333662277 7.980000e-80 307.0
84 TraesCS2A01G382800 chr6A 88.961 154 14 2 389 542 60788890 60789040 1.080000e-43 187.0
85 TraesCS2A01G382800 chr6A 94.366 71 0 3 275 342 241933343 241933412 3.130000e-19 106.0
86 TraesCS2A01G382800 chr6A 92.857 70 2 2 275 342 316942255 316942187 5.230000e-17 99.0
87 TraesCS2A01G382800 chr6A 77.540 187 24 13 165 343 171783194 171783370 1.880000e-16 97.1
88 TraesCS2A01G382800 chr6A 88.608 79 5 3 269 343 37770749 37770827 2.430000e-15 93.5
89 TraesCS2A01G382800 chr3B 82.972 323 41 13 1 317 82423006 82423320 1.740000e-71 279.0
90 TraesCS2A01G382800 chr3D 86.404 228 26 5 42 268 371708446 371708223 6.350000e-61 244.0
91 TraesCS2A01G382800 chr1D 93.333 75 3 2 617 691 54950787 54950715 2.420000e-20 110.0
92 TraesCS2A01G382800 chr5B 81.203 133 22 3 47 178 274371889 274371759 1.120000e-18 104.0
93 TraesCS2A01G382800 chr5B 78.814 118 22 3 47 163 274392458 274392343 2.450000e-10 76.8
94 TraesCS2A01G382800 chr7B 80.597 134 22 4 47 178 270839478 270839347 1.450000e-17 100.0
95 TraesCS2A01G382800 chrUn 90.411 73 6 1 389 461 296793174 296793245 6.760000e-16 95.3


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 TraesCS2A01G382800 chr2A 627540722 627543021 2299 True 4248.0 4248 100.0000 1 2300 1 chr2A.!!$R4 2299
1 TraesCS2A01G382800 chr2A 627548786 627550794 2008 True 1578.5 1984 95.2085 4 2300 2 chr2A.!!$R5 2296
2 TraesCS2A01G382800 chr2A 188729110 188730192 1082 True 1182.0 1182 86.4380 1203 2300 1 chr2A.!!$R3 1097
3 TraesCS2A01G382800 chr2A 131569306 131570361 1055 True 826.0 826 81.2160 1220 2299 1 chr2A.!!$R2 1079
4 TraesCS2A01G382800 chr2A 57644116 57644997 881 True 815.0 815 83.7340 1407 2300 1 chr2A.!!$R1 893
5 TraesCS2A01G382800 chr5A 579257998 579259729 1731 True 1803.0 1803 85.5460 533 2300 1 chr5A.!!$R5 1767
6 TraesCS2A01G382800 chr5A 579274320 579275691 1371 True 1657.0 1657 88.5920 533 1903 1 chr5A.!!$R6 1370
7 TraesCS2A01G382800 chr5A 280534145 280535228 1083 True 1140.0 1140 85.7660 1203 2300 1 chr5A.!!$R2 1097
8 TraesCS2A01G382800 chr5A 588120122 588121001 879 True 941.0 941 86.2880 1424 2300 1 chr5A.!!$R9 876
9 TraesCS2A01G382800 chr3A 454115017 454116101 1084 False 1221.0 1221 86.9920 1200 2300 1 chr3A.!!$F4 1100
10 TraesCS2A01G382800 chr3A 623270417 623271276 859 True 941.0 941 86.7050 1440 2300 1 chr3A.!!$R4 860
11 TraesCS2A01G382800 chr3A 316659276 316660189 913 False 924.0 924 85.1810 1381 2300 1 chr3A.!!$F2 919
12 TraesCS2A01G382800 chr3A 623248768 623249604 836 True 837.0 837 85.0170 1457 2300 1 chr3A.!!$R3 843
13 TraesCS2A01G382800 chr3A 316337965 316338472 507 False 464.0 464 83.6260 1201 1699 1 chr3A.!!$F1 498
14 TraesCS2A01G382800 chr7A 301240725 301241808 1083 False 1208.0 1208 86.8230 1200 2300 1 chr7A.!!$F1 1100
15 TraesCS2A01G382800 chr4A 207531778 207532861 1083 False 1184.0 1184 86.4500 1203 2300 1 chr4A.!!$F6 1097
16 TraesCS2A01G382800 chr4A 205542037 205543069 1032 False 1029.0 1029 84.7440 1232 2297 1 chr4A.!!$F5 1065
17 TraesCS2A01G382800 chr4D 141364086 141364656 570 False 813.0 813 92.3740 684 1257 1 chr4D.!!$F1 573
18 TraesCS2A01G382800 chr2D 236106837 236107407 570 False 813.0 813 92.3880 684 1257 1 chr2D.!!$F1 573
19 TraesCS2A01G382800 chr2D 337477107 337477673 566 False 800.0 800 92.1600 684 1253 1 chr2D.!!$F3 569
20 TraesCS2A01G382800 chr2D 337469181 337469743 562 False 795.0 795 92.1050 684 1250 1 chr2D.!!$F2 566
21 TraesCS2A01G382800 chr5D 162284052 162284622 570 False 791.0 791 91.6960 684 1257 1 chr5D.!!$F1 573
22 TraesCS2A01G382800 chr5D 162292034 162292604 570 False 785.0 785 91.5080 684 1257 1 chr5D.!!$F2 573
23 TraesCS2A01G382800 chr6D 202164967 202165533 566 False 789.0 789 91.8120 684 1253 1 chr6D.!!$F1 569
24 TraesCS2A01G382800 chr6D 419816940 419817820 880 True 778.0 778 83.0380 1421 2300 1 chr6D.!!$R1 879
25 TraesCS2A01G382800 chr1A 473468257 473469155 898 True 715.0 715 81.3780 1387 2300 1 chr1A.!!$R5 913

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
211 212 0.179103 CCCCATGCGCAAAATCCTTC 60.179 55.0 17.11 0.0 0.0 3.46 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1908 2031 0.173708 GGCCGGAAACAACAACAACA 59.826 50.0 5.05 0.0 0.0 3.33 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
36 37 4.651503 TCATCTCTTTTATCGAGGCTCCTT 59.348 41.667 9.32 0.00 0.00 3.36
49 50 3.504375 AGGCTCCTTTGAAAAAGCTCAT 58.496 40.909 10.55 0.00 35.12 2.90
66 67 4.102367 AGCTCATCCCATTTTAGAGTCCTC 59.898 45.833 0.00 0.00 0.00 3.71
211 212 0.179103 CCCCATGCGCAAAATCCTTC 60.179 55.000 17.11 0.00 0.00 3.46
334 335 1.081092 ACTTGGGCCTCCTAGCAGA 59.919 57.895 4.53 0.00 39.10 4.26
335 336 0.980231 ACTTGGGCCTCCTAGCAGAG 60.980 60.000 4.53 0.00 39.10 3.35
341 342 3.922640 CTCCTAGCAGAGCCGGCC 61.923 72.222 26.15 15.34 0.00 6.13
414 415 2.783288 CCGACCGAACCCTAGCCTC 61.783 68.421 0.00 0.00 0.00 4.70
416 417 2.365237 ACCGAACCCTAGCCTCCC 60.365 66.667 0.00 0.00 0.00 4.30
601 602 3.347590 TCGCCTCCCTCCTCCTCA 61.348 66.667 0.00 0.00 0.00 3.86
605 606 0.399806 GCCTCCCTCCTCCTCAATCT 60.400 60.000 0.00 0.00 0.00 2.40
606 607 1.133009 GCCTCCCTCCTCCTCAATCTA 60.133 57.143 0.00 0.00 0.00 1.98
617 618 2.035961 TCCTCAATCTAGCCCGAAATCG 59.964 50.000 0.00 0.00 39.44 3.34
626 627 1.520564 CCCGAAATCGCCGTCATCA 60.521 57.895 0.00 0.00 38.18 3.07
855 857 4.179579 GTTCGCATTGCCGGAGCC 62.180 66.667 5.05 0.00 38.69 4.70
1050 1053 1.357137 TCATGGAGCCACTGTACCAA 58.643 50.000 0.00 0.00 36.00 3.67
1153 1156 4.823442 TCAACAAGTGTACCTCTACTTCGA 59.177 41.667 0.00 0.00 35.08 3.71
1182 1208 3.088941 TACCCTTCGGATGCGCCTG 62.089 63.158 4.18 0.00 0.00 4.85
1337 1364 2.747177 TCCTCGATCACCTTGTACCAT 58.253 47.619 0.00 0.00 0.00 3.55
1405 1453 2.429610 CCACTACTTACACTACCGCCAT 59.570 50.000 0.00 0.00 0.00 4.40
1761 1870 3.181507 CCACGGTGACAAATGCTTCATAG 60.182 47.826 10.28 0.00 0.00 2.23
1900 2023 6.514947 TGAGGATTTTCCAGAATTGTTGTTG 58.485 36.000 0.00 0.00 39.61 3.33
1901 2024 6.098124 TGAGGATTTTCCAGAATTGTTGTTGT 59.902 34.615 0.00 0.00 39.61 3.32
1902 2025 6.888105 AGGATTTTCCAGAATTGTTGTTGTT 58.112 32.000 0.00 0.00 39.61 2.83
1903 2026 6.762661 AGGATTTTCCAGAATTGTTGTTGTTG 59.237 34.615 0.00 0.00 39.61 3.33
1904 2027 6.538381 GGATTTTCCAGAATTGTTGTTGTTGT 59.462 34.615 0.00 0.00 36.28 3.32
1905 2028 7.065683 GGATTTTCCAGAATTGTTGTTGTTGTT 59.934 33.333 0.00 0.00 36.28 2.83
1906 2029 6.718454 TTTCCAGAATTGTTGTTGTTGTTG 57.282 33.333 0.00 0.00 0.00 3.33
1907 2030 5.398603 TCCAGAATTGTTGTTGTTGTTGT 57.601 34.783 0.00 0.00 0.00 3.32
1908 2031 5.788450 TCCAGAATTGTTGTTGTTGTTGTT 58.212 33.333 0.00 0.00 0.00 2.83
1909 2032 5.636965 TCCAGAATTGTTGTTGTTGTTGTTG 59.363 36.000 0.00 0.00 0.00 3.33
1910 2033 5.407995 CCAGAATTGTTGTTGTTGTTGTTGT 59.592 36.000 0.00 0.00 0.00 3.32
1911 2034 6.073331 CCAGAATTGTTGTTGTTGTTGTTGTT 60.073 34.615 0.00 0.00 0.00 2.83
1933 2068 0.958091 TGTTGTTTCCGGCCTCATTG 59.042 50.000 0.00 0.00 0.00 2.82
1970 2108 6.072948 CCGTGTATTTTACTCATGTTTCACCA 60.073 38.462 0.00 0.00 0.00 4.17
2056 2197 3.686916 TGTGGTGTTCCGTCAATATGA 57.313 42.857 0.00 0.00 36.30 2.15
2069 2211 4.794762 CGTCAATATGAAACCTGTTGCATG 59.205 41.667 12.79 0.00 39.14 4.06
2135 2278 5.330455 TGCCATGCATATTTAAACCGAAA 57.670 34.783 0.00 0.00 31.71 3.46
2221 2367 1.946768 CTTTCCGGTGTTGCTTCTTCA 59.053 47.619 0.00 0.00 0.00 3.02
2287 2435 4.693283 ACGTCTGTTTGTCTTCTTCATGA 58.307 39.130 0.00 0.00 0.00 3.07
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
1 2 8.777413 CGATAAAAGAGATGAGAAATATTGGCA 58.223 33.333 0.00 0.00 0.00 4.92
2 3 8.993121 TCGATAAAAGAGATGAGAAATATTGGC 58.007 33.333 0.00 0.00 0.00 4.52
6 7 8.592809 AGCCTCGATAAAAGAGATGAGAAATAT 58.407 33.333 0.00 0.00 37.93 1.28
8 9 6.825610 AGCCTCGATAAAAGAGATGAGAAAT 58.174 36.000 0.00 0.00 37.93 2.17
9 10 6.227298 AGCCTCGATAAAAGAGATGAGAAA 57.773 37.500 0.00 0.00 37.93 2.52
10 11 5.221342 GGAGCCTCGATAAAAGAGATGAGAA 60.221 44.000 0.00 0.00 37.93 2.87
21 22 5.335661 GCTTTTTCAAAGGAGCCTCGATAAA 60.336 40.000 0.00 0.00 0.00 1.40
36 37 7.233348 ACTCTAAAATGGGATGAGCTTTTTCAA 59.767 33.333 0.00 0.00 0.00 2.69
49 50 3.977312 TCGAGAGGACTCTAAAATGGGA 58.023 45.455 1.10 0.00 40.61 4.37
66 67 6.478344 TGTTTGAATTTTGAAACCCATTCGAG 59.522 34.615 3.49 0.00 41.18 4.04
211 212 5.882040 AGGAAAAGAAAGAGAAGGTTAGGG 58.118 41.667 0.00 0.00 0.00 3.53
341 342 0.179034 GGATGCAACTAGGCTGGGAG 60.179 60.000 2.02 0.00 34.04 4.30
414 415 1.299976 CGAGGGGAAGGAAACAGGG 59.700 63.158 0.00 0.00 0.00 4.45
416 417 0.391793 GAGCGAGGGGAAGGAAACAG 60.392 60.000 0.00 0.00 0.00 3.16
456 457 1.609501 CGTCCTGTTCCCCTCTGGA 60.610 63.158 0.00 0.00 43.18 3.86
479 480 4.821589 GAGAGAAGGGGTGCCGCG 62.822 72.222 0.00 0.00 0.00 6.46
601 602 0.600255 CGGCGATTTCGGGCTAGATT 60.600 55.000 0.00 0.00 40.23 2.40
605 606 2.023414 ATGACGGCGATTTCGGGCTA 62.023 55.000 16.62 0.00 40.23 3.93
606 607 3.385749 ATGACGGCGATTTCGGGCT 62.386 57.895 16.62 0.00 40.23 5.19
783 784 2.498077 CGAGGAGCAGGAGATGACA 58.502 57.895 0.00 0.00 0.00 3.58
895 897 2.829384 GCAGGTGGAGGGGTTGACA 61.829 63.158 0.00 0.00 0.00 3.58
896 898 2.034221 GCAGGTGGAGGGGTTGAC 59.966 66.667 0.00 0.00 0.00 3.18
1050 1053 3.003763 GGGTCTCGGTCTTGGCCT 61.004 66.667 3.32 0.00 0.00 5.19
1153 1156 3.265995 ATCCGAAGGGTACTTGGTGAATT 59.734 43.478 0.00 0.00 43.57 2.17
1182 1208 0.804933 GCGGTCCATGTAGTCGAACC 60.805 60.000 0.00 0.00 0.00 3.62
1405 1453 6.153000 GGAAGTAGTGGAAGTAGACATTCTCA 59.847 42.308 0.00 0.00 0.00 3.27
1700 1801 3.243501 CCATGGCGATGAATCCGAAAATT 60.244 43.478 10.66 0.00 0.00 1.82
1900 2023 5.436410 GGAAACAACAACAACAACAACAAC 58.564 37.500 0.00 0.00 0.00 3.32
1901 2024 4.209288 CGGAAACAACAACAACAACAACAA 59.791 37.500 0.00 0.00 0.00 2.83
1902 2025 3.736252 CGGAAACAACAACAACAACAACA 59.264 39.130 0.00 0.00 0.00 3.33
1903 2026 3.122111 CCGGAAACAACAACAACAACAAC 59.878 43.478 0.00 0.00 0.00 3.32
1904 2027 3.318017 CCGGAAACAACAACAACAACAA 58.682 40.909 0.00 0.00 0.00 2.83
1905 2028 2.927014 GCCGGAAACAACAACAACAACA 60.927 45.455 5.05 0.00 0.00 3.33
1906 2029 1.656594 GCCGGAAACAACAACAACAAC 59.343 47.619 5.05 0.00 0.00 3.32
1907 2030 1.404315 GGCCGGAAACAACAACAACAA 60.404 47.619 5.05 0.00 0.00 2.83
1908 2031 0.173708 GGCCGGAAACAACAACAACA 59.826 50.000 5.05 0.00 0.00 3.33
1909 2032 0.458260 AGGCCGGAAACAACAACAAC 59.542 50.000 5.05 0.00 0.00 3.32
1910 2033 0.741915 GAGGCCGGAAACAACAACAA 59.258 50.000 5.05 0.00 0.00 2.83
1911 2034 0.394488 TGAGGCCGGAAACAACAACA 60.394 50.000 5.05 0.00 0.00 3.33
1933 2068 7.532571 AGTAAAATACACGGTTAGGCATTTTC 58.467 34.615 0.00 0.00 30.58 2.29
2014 2152 8.504005 CCACAACAAGTTATTTAGTTCGATCTT 58.496 33.333 0.48 0.00 0.00 2.40
2056 2197 2.034124 AGCTCAACATGCAACAGGTTT 58.966 42.857 0.00 0.00 36.20 3.27
2069 2211 7.435068 TTCTACAAATTAAGTGGAGCTCAAC 57.565 36.000 13.83 13.83 0.00 3.18
2133 2276 4.931002 GCACAACCAAGTATGATGCATTTT 59.069 37.500 0.00 0.00 0.00 1.82
2135 2278 3.510753 TGCACAACCAAGTATGATGCATT 59.489 39.130 0.00 0.00 36.72 3.56
2221 2367 3.730061 CGCGACGTTATCAGAACTAACCT 60.730 47.826 0.00 0.00 0.00 3.50


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

AutoCloner maintained by Alex Coulton.