Multiple sequence alignment - TraesCS7D01G122700

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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 TraesCS7D01G122700 chr7D 100.000 5128 0 0 1 5128 76742639 76747766 0.000000e+00 9470.0
1 TraesCS7D01G122700 chr7D 90.009 3263 252 29 838 4061 76919223 76922450 0.000000e+00 4152.0
2 TraesCS7D01G122700 chr7D 85.540 3285 412 46 812 4055 76784059 76787321 0.000000e+00 3376.0
3 TraesCS7D01G122700 chr7D 91.333 1823 134 9 2241 4044 77045885 77047702 0.000000e+00 2470.0
4 TraesCS7D01G122700 chr7D 86.033 2198 257 30 1903 4061 76973468 76975654 0.000000e+00 2313.0
5 TraesCS7D01G122700 chr7D 83.502 2370 340 32 1732 4060 76930700 76933059 0.000000e+00 2163.0
6 TraesCS7D01G122700 chr7D 85.580 1921 246 23 2134 4035 76955728 76957636 0.000000e+00 1984.0
7 TraesCS7D01G122700 chr7D 82.776 1974 280 35 1736 3671 76624400 76622449 0.000000e+00 1707.0
8 TraesCS7D01G122700 chr7D 84.993 1486 210 12 962 2442 7548419 7549896 0.000000e+00 1496.0
9 TraesCS7D01G122700 chr7D 82.750 1542 237 21 912 2442 8052781 8054304 0.000000e+00 1347.0
10 TraesCS7D01G122700 chr7A 94.615 3807 129 14 281 4049 80861349 80865117 0.000000e+00 5825.0
11 TraesCS7D01G122700 chr7A 78.632 2733 486 78 912 3605 56204894 56207567 0.000000e+00 1722.0
12 TraesCS7D01G122700 chr7A 93.383 1073 69 2 4057 5128 433237150 433236079 0.000000e+00 1587.0
13 TraesCS7D01G122700 chr7A 84.434 1529 219 13 942 2465 3432103 3430589 0.000000e+00 1487.0
14 TraesCS7D01G122700 chr7A 95.122 123 6 0 7 129 80861149 80861271 1.460000e-45 195.0
15 TraesCS7D01G122700 chr7B 85.291 3678 420 53 443 4044 23596202 23599834 0.000000e+00 3683.0
16 TraesCS7D01G122700 chr7B 84.698 3261 404 54 843 4037 23582227 23585458 0.000000e+00 3169.0
17 TraesCS7D01G122700 chr7B 85.867 3000 374 28 1094 4061 23958164 23961145 0.000000e+00 3145.0
18 TraesCS7D01G122700 chr7B 87.409 2335 241 28 1755 4044 23525380 23527706 0.000000e+00 2634.0
19 TraesCS7D01G122700 chr7B 85.457 2331 294 25 1767 4060 23516983 23519305 0.000000e+00 2385.0
20 TraesCS7D01G122700 chr7B 82.109 2342 341 37 1736 4055 23934161 23936446 0.000000e+00 1932.0
21 TraesCS7D01G122700 chr7B 85.833 1320 138 30 448 1745 23515621 23516913 0.000000e+00 1356.0
22 TraesCS7D01G122700 chr7B 85.526 1292 180 4 2768 4055 23639655 23640943 0.000000e+00 1343.0
23 TraesCS7D01G122700 chr7B 91.438 292 12 6 1 280 23515331 23515621 6.230000e-104 388.0
24 TraesCS7D01G122700 chr7B 95.775 71 3 0 326 396 23596114 23596184 1.170000e-21 115.0
25 TraesCS7D01G122700 chr2A 94.294 1069 59 2 4061 5128 550521099 550520032 0.000000e+00 1635.0
26 TraesCS7D01G122700 chr2A 93.058 1066 73 1 4061 5125 103468697 103467632 0.000000e+00 1557.0
27 TraesCS7D01G122700 chr2A 92.610 1069 76 3 4061 5127 428228506 428229573 0.000000e+00 1533.0
28 TraesCS7D01G122700 chr5A 93.633 1068 66 2 4062 5128 228766379 228765313 0.000000e+00 1594.0
29 TraesCS7D01G122700 chr5A 94.545 55 3 0 447 501 546531950 546531896 9.150000e-13 86.1
30 TraesCS7D01G122700 chr3A 93.452 1069 68 2 4062 5128 58798162 58797094 0.000000e+00 1585.0
31 TraesCS7D01G122700 chr6A 93.371 1071 67 4 4060 5128 603547574 603546506 0.000000e+00 1581.0
32 TraesCS7D01G122700 chr6A 92.509 1068 79 1 4062 5128 184502390 184501323 0.000000e+00 1528.0
33 TraesCS7D01G122700 chr4A 78.008 2601 480 71 967 3517 732058627 732061185 0.000000e+00 1550.0
34 TraesCS7D01G122700 chr4A 92.804 1070 75 2 4061 5128 301398126 301399195 0.000000e+00 1548.0
35 TraesCS7D01G122700 chr4A 85.435 1483 209 6 962 2442 731616816 731615339 0.000000e+00 1535.0
36 TraesCS7D01G122700 chr4A 79.732 523 70 23 2176 2671 731502141 731501628 3.800000e-91 346.0
37 TraesCS7D01G122700 chr3B 84.689 1561 213 15 962 2506 741463199 741464749 0.000000e+00 1535.0


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 TraesCS7D01G122700 chr7D 76742639 76747766 5127 False 9470.000000 9470 100.0000 1 5128 1 chr7D.!!$F3 5127
1 TraesCS7D01G122700 chr7D 76919223 76922450 3227 False 4152.000000 4152 90.0090 838 4061 1 chr7D.!!$F5 3223
2 TraesCS7D01G122700 chr7D 76784059 76787321 3262 False 3376.000000 3376 85.5400 812 4055 1 chr7D.!!$F4 3243
3 TraesCS7D01G122700 chr7D 77045885 77047702 1817 False 2470.000000 2470 91.3330 2241 4044 1 chr7D.!!$F9 1803
4 TraesCS7D01G122700 chr7D 76973468 76975654 2186 False 2313.000000 2313 86.0330 1903 4061 1 chr7D.!!$F8 2158
5 TraesCS7D01G122700 chr7D 76930700 76933059 2359 False 2163.000000 2163 83.5020 1732 4060 1 chr7D.!!$F6 2328
6 TraesCS7D01G122700 chr7D 76955728 76957636 1908 False 1984.000000 1984 85.5800 2134 4035 1 chr7D.!!$F7 1901
7 TraesCS7D01G122700 chr7D 76622449 76624400 1951 True 1707.000000 1707 82.7760 1736 3671 1 chr7D.!!$R1 1935
8 TraesCS7D01G122700 chr7D 7548419 7549896 1477 False 1496.000000 1496 84.9930 962 2442 1 chr7D.!!$F1 1480
9 TraesCS7D01G122700 chr7D 8052781 8054304 1523 False 1347.000000 1347 82.7500 912 2442 1 chr7D.!!$F2 1530
10 TraesCS7D01G122700 chr7A 80861149 80865117 3968 False 3010.000000 5825 94.8685 7 4049 2 chr7A.!!$F2 4042
11 TraesCS7D01G122700 chr7A 56204894 56207567 2673 False 1722.000000 1722 78.6320 912 3605 1 chr7A.!!$F1 2693
12 TraesCS7D01G122700 chr7A 433236079 433237150 1071 True 1587.000000 1587 93.3830 4057 5128 1 chr7A.!!$R2 1071
13 TraesCS7D01G122700 chr7A 3430589 3432103 1514 True 1487.000000 1487 84.4340 942 2465 1 chr7A.!!$R1 1523
14 TraesCS7D01G122700 chr7B 23582227 23585458 3231 False 3169.000000 3169 84.6980 843 4037 1 chr7B.!!$F2 3194
15 TraesCS7D01G122700 chr7B 23958164 23961145 2981 False 3145.000000 3145 85.8670 1094 4061 1 chr7B.!!$F5 2967
16 TraesCS7D01G122700 chr7B 23525380 23527706 2326 False 2634.000000 2634 87.4090 1755 4044 1 chr7B.!!$F1 2289
17 TraesCS7D01G122700 chr7B 23934161 23936446 2285 False 1932.000000 1932 82.1090 1736 4055 1 chr7B.!!$F4 2319
18 TraesCS7D01G122700 chr7B 23596114 23599834 3720 False 1899.000000 3683 90.5330 326 4044 2 chr7B.!!$F7 3718
19 TraesCS7D01G122700 chr7B 23515331 23519305 3974 False 1376.333333 2385 87.5760 1 4060 3 chr7B.!!$F6 4059
20 TraesCS7D01G122700 chr7B 23639655 23640943 1288 False 1343.000000 1343 85.5260 2768 4055 1 chr7B.!!$F3 1287
21 TraesCS7D01G122700 chr2A 550520032 550521099 1067 True 1635.000000 1635 94.2940 4061 5128 1 chr2A.!!$R2 1067
22 TraesCS7D01G122700 chr2A 103467632 103468697 1065 True 1557.000000 1557 93.0580 4061 5125 1 chr2A.!!$R1 1064
23 TraesCS7D01G122700 chr2A 428228506 428229573 1067 False 1533.000000 1533 92.6100 4061 5127 1 chr2A.!!$F1 1066
24 TraesCS7D01G122700 chr5A 228765313 228766379 1066 True 1594.000000 1594 93.6330 4062 5128 1 chr5A.!!$R1 1066
25 TraesCS7D01G122700 chr3A 58797094 58798162 1068 True 1585.000000 1585 93.4520 4062 5128 1 chr3A.!!$R1 1066
26 TraesCS7D01G122700 chr6A 603546506 603547574 1068 True 1581.000000 1581 93.3710 4060 5128 1 chr6A.!!$R2 1068
27 TraesCS7D01G122700 chr6A 184501323 184502390 1067 True 1528.000000 1528 92.5090 4062 5128 1 chr6A.!!$R1 1066
28 TraesCS7D01G122700 chr4A 732058627 732061185 2558 False 1550.000000 1550 78.0080 967 3517 1 chr4A.!!$F2 2550
29 TraesCS7D01G122700 chr4A 301398126 301399195 1069 False 1548.000000 1548 92.8040 4061 5128 1 chr4A.!!$F1 1067
30 TraesCS7D01G122700 chr4A 731615339 731616816 1477 True 1535.000000 1535 85.4350 962 2442 1 chr4A.!!$R2 1480
31 TraesCS7D01G122700 chr4A 731501628 731502141 513 True 346.000000 346 79.7320 2176 2671 1 chr4A.!!$R1 495
32 TraesCS7D01G122700 chr3B 741463199 741464749 1550 False 1535.000000 1535 84.6890 962 2506 1 chr3B.!!$F1 1544

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
113 114 0.247301 GCATCGTTTCGAGCTTTCCG 60.247 55.0 0.00 0.0 39.91 4.30 F
1112 1237 0.937699 CTGGACGACGACTGCGAAAA 60.938 55.0 0.00 0.0 41.64 2.29 F
1298 1429 0.673644 CAAATCGGCGAGTCCACCTT 60.674 55.0 17.22 0.0 34.01 3.50 F
2746 3042 1.014564 GCACGGTTCTAGCACCAGTC 61.015 60.0 12.26 0.0 36.49 3.51 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
1298 1429 0.815734 GTAGCTGAGTACCTTGCGGA 59.184 55.0 0.00 0.00 0.00 5.54 R
2444 2631 2.168106 CCAGCAGATCTGACTGTAGCTT 59.832 50.0 29.18 6.67 45.72 3.74 R
3268 3575 0.108709 GCCACCGTATCCGTACAACA 60.109 55.0 0.00 0.00 0.00 3.33 R
4472 4816 0.544833 TACTGGTTCGGCCCCTTACA 60.545 55.0 0.00 0.00 36.04 2.41 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
113 114 0.247301 GCATCGTTTCGAGCTTTCCG 60.247 55.000 0.00 0.00 39.91 4.30
156 169 2.939640 GCTTATTTCGGTTGGAGGCTCA 60.940 50.000 17.69 0.00 0.00 4.26
172 185 7.723324 TGGAGGCTCACTAAAATATACTGTAC 58.277 38.462 17.69 0.00 0.00 2.90
183 196 7.421530 AAAATATACTGTACGCAGCAATAGG 57.578 36.000 0.00 0.00 46.30 2.57
184 197 2.882927 TACTGTACGCAGCAATAGGG 57.117 50.000 0.00 0.00 46.30 3.53
239 252 7.148507 TGTGAAAACAAAACATACCAAGCAAAG 60.149 33.333 0.00 0.00 0.00 2.77
279 292 1.153369 ATGTTCAGACCATCCGCGG 60.153 57.895 22.12 22.12 0.00 6.46
280 293 3.195698 GTTCAGACCATCCGCGGC 61.196 66.667 23.51 5.81 0.00 6.53
281 294 3.700970 TTCAGACCATCCGCGGCA 61.701 61.111 23.51 10.36 0.00 5.69
282 295 3.664025 TTCAGACCATCCGCGGCAG 62.664 63.158 23.51 15.33 0.00 4.85
283 296 4.147449 CAGACCATCCGCGGCAGA 62.147 66.667 23.51 3.06 0.00 4.26
284 297 4.148825 AGACCATCCGCGGCAGAC 62.149 66.667 23.51 11.64 0.00 3.51
285 298 4.148825 GACCATCCGCGGCAGACT 62.149 66.667 23.51 0.19 0.00 3.24
286 299 2.758327 ACCATCCGCGGCAGACTA 60.758 61.111 23.51 1.11 0.00 2.59
306 319 3.853355 AAGCCAGAATCTATCCACCAG 57.147 47.619 0.00 0.00 0.00 4.00
311 324 4.743955 GCCAGAATCTATCCACCAGTAACC 60.744 50.000 0.00 0.00 0.00 2.85
313 326 4.408921 CAGAATCTATCCACCAGTAACCCA 59.591 45.833 0.00 0.00 0.00 4.51
411 424 6.773976 TTCAACAAGAACCAGATCTTTGTT 57.226 33.333 14.07 14.07 37.56 2.83
412 425 7.873719 TTCAACAAGAACCAGATCTTTGTTA 57.126 32.000 17.75 5.60 37.56 2.41
413 426 8.463930 TTCAACAAGAACCAGATCTTTGTTAT 57.536 30.769 17.75 8.61 37.56 1.89
414 427 9.567776 TTCAACAAGAACCAGATCTTTGTTATA 57.432 29.630 17.75 9.67 37.56 0.98
415 428 9.739276 TCAACAAGAACCAGATCTTTGTTATAT 57.261 29.630 17.75 2.73 37.56 0.86
418 431 9.838339 ACAAGAACCAGATCTTTGTTATATAGG 57.162 33.333 7.25 0.00 37.56 2.57
424 437 9.289782 ACCAGATCTTTGTTATATAGGAATTGC 57.710 33.333 0.00 0.00 0.00 3.56
425 438 9.512588 CCAGATCTTTGTTATATAGGAATTGCT 57.487 33.333 4.41 4.41 0.00 3.91
438 451 9.896645 ATATAGGAATTGCTGTATAACATCCTG 57.103 33.333 13.39 0.00 36.74 3.86
439 452 6.252599 AGGAATTGCTGTATAACATCCTGA 57.747 37.500 0.00 0.00 34.86 3.86
440 453 6.294473 AGGAATTGCTGTATAACATCCTGAG 58.706 40.000 0.00 0.00 34.86 3.35
441 454 6.100279 AGGAATTGCTGTATAACATCCTGAGA 59.900 38.462 0.00 0.00 34.86 3.27
444 457 9.494271 GAATTGCTGTATAACATCCTGAGATTA 57.506 33.333 0.00 0.00 0.00 1.75
612 674 1.602311 ACTCTGCAGGCAAAAGAGTG 58.398 50.000 15.13 0.00 46.81 3.51
885 1002 1.767681 GAGGTGCATTCTCTCCTCCAT 59.232 52.381 7.41 0.00 40.14 3.41
892 1010 2.948889 TTCTCTCCTCCATTCTGGGA 57.051 50.000 0.00 0.00 38.32 4.37
928 1046 0.976641 TCGGTTGTTCCTGATCTGCT 59.023 50.000 0.00 0.00 0.00 4.24
951 1070 2.114616 TGCTGAATCTCTCTTCCCTCC 58.885 52.381 0.00 0.00 0.00 4.30
1074 1199 2.887568 GCGCTCGTCCAGACCATG 60.888 66.667 0.00 0.00 0.00 3.66
1075 1200 2.885113 CGCTCGTCCAGACCATGA 59.115 61.111 0.00 0.00 0.00 3.07
1076 1201 1.517257 CGCTCGTCCAGACCATGAC 60.517 63.158 0.00 0.00 0.00 3.06
1105 1230 3.681835 GTGGCCTGGACGACGACT 61.682 66.667 3.32 0.00 0.00 4.18
1112 1237 0.937699 CTGGACGACGACTGCGAAAA 60.938 55.000 0.00 0.00 41.64 2.29
1298 1429 0.673644 CAAATCGGCGAGTCCACCTT 60.674 55.000 17.22 0.00 34.01 3.50
2008 2191 4.511527 TCTGAGTGAAGAAGATTCATGGC 58.488 43.478 0.00 0.00 0.00 4.40
2442 2629 6.739331 AGGTCCTTCCTACAAGATATGAAG 57.261 41.667 0.00 0.00 46.10 3.02
2443 2630 6.444704 AGGTCCTTCCTACAAGATATGAAGA 58.555 40.000 0.00 0.00 46.10 2.87
2444 2631 6.903534 AGGTCCTTCCTACAAGATATGAAGAA 59.096 38.462 0.00 0.00 46.10 2.52
2715 3002 3.466836 ACTGCCACATGTATCATTACGG 58.533 45.455 0.00 0.00 0.00 4.02
2746 3042 1.014564 GCACGGTTCTAGCACCAGTC 61.015 60.000 12.26 0.00 36.49 3.51
3113 3411 9.952188 AGCTTGAGAAAAATAAAGAGTGTAAAC 57.048 29.630 0.00 0.00 0.00 2.01
3147 3445 2.165845 GCCAATCTCAAGCAGAAGCAAT 59.834 45.455 0.00 0.00 45.49 3.56
3268 3575 7.038799 ACCTCATAGCAAGATCCAAATTTTTGT 60.039 33.333 2.63 0.00 36.45 2.83
3501 3811 1.141053 CCCCTCTACAGATTTTCCCGG 59.859 57.143 0.00 0.00 0.00 5.73
3585 3895 2.368439 GTGTGGCCATTGATAGCTCAA 58.632 47.619 9.72 0.00 45.15 3.02
3631 3941 0.466922 GCAATCCACTGCTGCCCTAT 60.467 55.000 0.00 0.00 39.34 2.57
3650 3960 3.756933 ATGCTTGCAAGTTTTCCACAT 57.243 38.095 26.55 16.20 0.00 3.21
3886 4226 0.108567 GGCCTCACTTCTCTTCGGAC 60.109 60.000 0.00 0.00 0.00 4.79
3893 4233 3.515502 TCACTTCTCTTCGGACATTGGAT 59.484 43.478 0.00 0.00 0.00 3.41
3898 4238 6.778069 ACTTCTCTTCGGACATTGGATATCTA 59.222 38.462 2.05 0.00 0.00 1.98
3929 4269 1.583054 CGATGGAGGAATTCCCGAAC 58.417 55.000 21.22 9.33 46.19 3.95
4016 4356 0.842635 GATGCAGAGAAGGTGGGGAT 59.157 55.000 0.00 0.00 0.00 3.85
4254 4594 9.764363 ACCGCCATATGATATGTAACTTATATG 57.236 33.333 11.20 0.00 0.00 1.78
4354 4695 6.325545 TCAACCTGTGTATATAAAGGGACGAT 59.674 38.462 10.28 0.00 33.87 3.73
4472 4816 5.014228 ACTGGAGTAGGCTTTTACCTTCATT 59.986 40.000 0.00 0.00 41.50 2.57
4535 4879 4.095932 CCGCTTTAACCCCTTTAAGCTAAG 59.904 45.833 0.00 0.00 31.11 2.18
4782 5126 1.919816 GGTACCGGGTCCCCTTTGA 60.920 63.158 6.32 0.00 0.00 2.69
4819 5163 2.435938 GGCAAGATCGGCGAACCA 60.436 61.111 15.93 0.00 34.57 3.67
4875 5219 0.679002 ACGGCTCAGCATGCAAGATT 60.679 50.000 21.98 0.00 34.76 2.40
4893 5237 2.920076 TTTGCCCAAGTTCTGCCCGT 62.920 55.000 0.00 0.00 0.00 5.28
4897 5241 2.317609 CCAAGTTCTGCCCGTCGTG 61.318 63.158 0.00 0.00 0.00 4.35
5002 5346 1.268899 GACGAGTCTTCAACCGGAGAA 59.731 52.381 9.46 11.34 0.00 2.87
5049 5393 0.323087 GGCCGGATTAGTGGTGGTTT 60.323 55.000 5.05 0.00 0.00 3.27
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
113 114 7.145932 AGCATAAGTTTCTTGTGGTGTATTC 57.854 36.000 9.38 0.00 0.00 1.75
156 169 9.193133 CTATTGCTGCGTACAGTATATTTTAGT 57.807 33.333 0.00 0.00 46.30 2.24
172 185 2.633860 GGGATTCCCTATTGCTGCG 58.366 57.895 14.98 0.00 41.34 5.18
183 196 1.129058 ACCAGACGTATGGGGATTCC 58.871 55.000 31.17 0.00 45.25 3.01
184 197 3.277142 AAACCAGACGTATGGGGATTC 57.723 47.619 31.17 0.00 45.25 2.52
239 252 6.485648 ACATCTACCAACAGAAACACCTTAAC 59.514 38.462 0.00 0.00 0.00 2.01
279 292 4.039730 TGGATAGATTCTGGCTTAGTCTGC 59.960 45.833 0.00 0.00 0.00 4.26
280 293 5.510520 GGTGGATAGATTCTGGCTTAGTCTG 60.511 48.000 0.00 0.00 0.00 3.51
281 294 4.591072 GGTGGATAGATTCTGGCTTAGTCT 59.409 45.833 0.00 0.00 0.00 3.24
282 295 4.345257 TGGTGGATAGATTCTGGCTTAGTC 59.655 45.833 0.00 0.00 0.00 2.59
283 296 4.298626 TGGTGGATAGATTCTGGCTTAGT 58.701 43.478 0.00 0.00 0.00 2.24
284 297 4.346418 ACTGGTGGATAGATTCTGGCTTAG 59.654 45.833 0.00 0.00 0.00 2.18
285 298 4.298626 ACTGGTGGATAGATTCTGGCTTA 58.701 43.478 0.00 0.00 0.00 3.09
286 299 3.118531 ACTGGTGGATAGATTCTGGCTT 58.881 45.455 0.00 0.00 0.00 4.35
298 311 1.681229 ACCATGGGTTACTGGTGGAT 58.319 50.000 18.09 0.00 44.06 3.41
317 330 7.865530 TCCTAGATATTAATTGCAGTGGGTA 57.134 36.000 0.00 0.00 0.00 3.69
412 425 9.896645 CAGGATGTTATACAGCAATTCCTATAT 57.103 33.333 0.00 0.00 35.97 0.86
413 426 9.100197 TCAGGATGTTATACAGCAATTCCTATA 57.900 33.333 0.00 0.00 35.97 1.31
414 427 7.977818 TCAGGATGTTATACAGCAATTCCTAT 58.022 34.615 0.00 0.00 35.97 2.57
415 428 7.290014 TCTCAGGATGTTATACAGCAATTCCTA 59.710 37.037 0.00 0.00 35.97 2.94
416 429 6.100279 TCTCAGGATGTTATACAGCAATTCCT 59.900 38.462 0.00 0.00 35.97 3.36
417 430 6.291377 TCTCAGGATGTTATACAGCAATTCC 58.709 40.000 0.00 0.00 35.97 3.01
418 431 7.976135 ATCTCAGGATGTTATACAGCAATTC 57.024 36.000 0.00 0.00 35.97 2.17
419 432 9.499479 CTAATCTCAGGATGTTATACAGCAATT 57.501 33.333 0.00 0.00 35.97 2.32
420 433 7.605691 GCTAATCTCAGGATGTTATACAGCAAT 59.394 37.037 0.00 0.00 35.97 3.56
421 434 6.931281 GCTAATCTCAGGATGTTATACAGCAA 59.069 38.462 0.00 0.00 35.97 3.91
422 435 6.459066 GCTAATCTCAGGATGTTATACAGCA 58.541 40.000 0.00 0.00 35.97 4.41
423 436 5.574830 CGCTAATCTCAGGATGTTATACAGC 59.425 44.000 0.00 0.00 37.40 4.40
424 437 6.584184 CACGCTAATCTCAGGATGTTATACAG 59.416 42.308 0.00 0.00 37.40 2.74
425 438 6.447162 CACGCTAATCTCAGGATGTTATACA 58.553 40.000 0.00 0.00 37.40 2.29
426 439 5.864474 CCACGCTAATCTCAGGATGTTATAC 59.136 44.000 0.00 0.00 37.40 1.47
427 440 5.773176 TCCACGCTAATCTCAGGATGTTATA 59.227 40.000 0.00 0.00 37.40 0.98
428 441 4.588951 TCCACGCTAATCTCAGGATGTTAT 59.411 41.667 0.00 0.00 37.40 1.89
429 442 3.958147 TCCACGCTAATCTCAGGATGTTA 59.042 43.478 0.00 0.00 37.40 2.41
430 443 2.766263 TCCACGCTAATCTCAGGATGTT 59.234 45.455 0.00 0.00 37.40 2.71
431 444 2.101582 GTCCACGCTAATCTCAGGATGT 59.898 50.000 0.00 0.00 37.40 3.06
432 445 2.101415 TGTCCACGCTAATCTCAGGATG 59.899 50.000 0.00 0.00 37.54 3.51
433 446 2.388735 TGTCCACGCTAATCTCAGGAT 58.611 47.619 0.00 0.00 0.00 3.24
434 447 1.847328 TGTCCACGCTAATCTCAGGA 58.153 50.000 0.00 0.00 0.00 3.86
435 448 2.477825 CATGTCCACGCTAATCTCAGG 58.522 52.381 0.00 0.00 0.00 3.86
436 449 2.101415 TCCATGTCCACGCTAATCTCAG 59.899 50.000 0.00 0.00 0.00 3.35
437 450 2.107366 TCCATGTCCACGCTAATCTCA 58.893 47.619 0.00 0.00 0.00 3.27
438 451 2.890808 TCCATGTCCACGCTAATCTC 57.109 50.000 0.00 0.00 0.00 2.75
439 452 3.845781 ATTCCATGTCCACGCTAATCT 57.154 42.857 0.00 0.00 0.00 2.40
440 453 4.096382 ACAAATTCCATGTCCACGCTAATC 59.904 41.667 0.00 0.00 0.00 1.75
441 454 4.016444 ACAAATTCCATGTCCACGCTAAT 58.984 39.130 0.00 0.00 0.00 1.73
444 457 1.541147 CACAAATTCCATGTCCACGCT 59.459 47.619 0.00 0.00 0.00 5.07
576 638 3.560068 CAGAGTCACTGCTTTTACCGTTT 59.440 43.478 0.00 0.00 39.86 3.60
612 674 2.599659 GAATAAAGTTGGTGCAGCAGC 58.400 47.619 23.20 23.20 42.57 5.25
663 727 6.487689 ACTTGCATTACTAGCTCACTTTTC 57.512 37.500 0.00 0.00 0.00 2.29
666 730 6.092807 GCTAAACTTGCATTACTAGCTCACTT 59.907 38.462 0.00 0.00 31.23 3.16
667 731 5.582665 GCTAAACTTGCATTACTAGCTCACT 59.417 40.000 0.00 0.00 31.23 3.41
885 1002 5.200483 AGAAGAACAAAACACATCCCAGAA 58.800 37.500 0.00 0.00 0.00 3.02
892 1010 5.105917 ACAACCGAAGAAGAACAAAACACAT 60.106 36.000 0.00 0.00 0.00 3.21
928 1046 3.957497 GAGGGAAGAGAGATTCAGCACTA 59.043 47.826 0.00 0.00 0.00 2.74
1074 1199 3.118454 CCACACATGCGGGTCGTC 61.118 66.667 0.00 0.00 0.00 4.20
1105 1230 3.726517 GCGCTCCAGCTTTTCGCA 61.727 61.111 0.00 0.00 44.50 5.10
1298 1429 0.815734 GTAGCTGAGTACCTTGCGGA 59.184 55.000 0.00 0.00 0.00 5.54
2442 2629 3.864583 CAGCAGATCTGACTGTAGCTTTC 59.135 47.826 27.04 3.75 45.72 2.62
2443 2630 3.369261 CCAGCAGATCTGACTGTAGCTTT 60.369 47.826 29.18 6.14 45.72 3.51
2444 2631 2.168106 CCAGCAGATCTGACTGTAGCTT 59.832 50.000 29.18 6.67 45.72 3.74
2467 2666 6.335471 ACATACAATTGTCCCATATGCATG 57.665 37.500 15.85 11.93 0.00 4.06
2561 2784 8.620416 GCAGATGACATACATTGTTTACCAATA 58.380 33.333 0.00 0.00 41.93 1.90
2746 3042 4.047822 TGTTTTGCATTTACGGCTTTCAG 58.952 39.130 0.00 0.00 0.00 3.02
2777 3073 2.877168 CTGCAATATGAGAGGTCAAGGC 59.123 50.000 0.00 0.00 35.88 4.35
3113 3411 3.056393 TGAGATTGGCTTCTTTTGCATGG 60.056 43.478 0.00 0.00 0.00 3.66
3147 3445 6.161855 ACAGAACAACAACTCACTCAGATA 57.838 37.500 0.00 0.00 0.00 1.98
3268 3575 0.108709 GCCACCGTATCCGTACAACA 60.109 55.000 0.00 0.00 0.00 3.33
3501 3811 3.261897 TCCAAGACCATCTCCTTCAACTC 59.738 47.826 0.00 0.00 0.00 3.01
3585 3895 4.974645 TCTCAAGCACCGGGAATATTAT 57.025 40.909 6.32 0.00 0.00 1.28
3613 3923 1.315690 CATAGGGCAGCAGTGGATTG 58.684 55.000 0.00 0.00 0.00 2.67
3631 3941 3.552684 GCTATGTGGAAAACTTGCAAGCA 60.553 43.478 26.27 14.10 30.97 3.91
3650 3960 0.611714 GGTCTTTGAGAACGGGGCTA 59.388 55.000 0.00 0.00 0.00 3.93
3886 4226 6.036844 CGCTGGACAATGATAGATATCCAATG 59.963 42.308 0.00 0.00 35.86 2.82
3893 4233 4.772100 TCCATCGCTGGACAATGATAGATA 59.228 41.667 3.28 0.00 46.95 1.98
3898 4238 1.202734 CCTCCATCGCTGGACAATGAT 60.203 52.381 3.28 0.00 46.95 2.45
3929 4269 1.738099 CAACCGCTGAAGGAGACCG 60.738 63.158 0.00 0.00 34.73 4.79
4217 4557 5.801531 TCATATGGCGGTTTACATCTACT 57.198 39.130 2.13 0.00 0.00 2.57
4254 4594 3.994931 TCTACCTTTCCTTGCCTTACC 57.005 47.619 0.00 0.00 0.00 2.85
4472 4816 0.544833 TACTGGTTCGGCCCCTTACA 60.545 55.000 0.00 0.00 36.04 2.41
4751 5095 2.355007 CCCGGTACCCGTACTCAATTTT 60.355 50.000 6.25 0.00 46.80 1.82
4752 5096 1.207811 CCCGGTACCCGTACTCAATTT 59.792 52.381 6.25 0.00 46.80 1.82
4782 5126 2.259618 CGATGAAGACGTGAATTCCGT 58.740 47.619 17.99 17.99 42.06 4.69
4875 5219 2.597217 CGGGCAGAACTTGGGCAA 60.597 61.111 0.00 0.00 0.00 4.52
4897 5241 3.324035 CCTATGAAGGCGCGCTTC 58.676 61.111 32.29 28.44 35.64 3.86
5002 5346 2.094494 CAGCTGATACAGTGACTCGGTT 60.094 50.000 8.42 0.00 33.43 4.44


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

AutoCloner maintained by Alex Coulton.