Multiple sequence alignment - TraesCS7A01G228900

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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 TraesCS7A01G228900 chr7A 100.000 3395 0 0 1 3395 199236438 199239832 0.000000e+00 6270
1 TraesCS7A01G228900 chr7A 97.864 515 11 0 60 574 672902961 672902447 0.000000e+00 891
2 TraesCS7A01G228900 chr7B 92.469 2815 191 8 585 3395 335444130 335446927 0.000000e+00 4004
3 TraesCS7A01G228900 chr7D 93.629 2684 154 13 585 3262 190446691 190449363 0.000000e+00 3993
4 TraesCS7A01G228900 chr7D 94.983 578 23 5 1 574 365613700 365614275 0.000000e+00 902
5 TraesCS7A01G228900 chr7D 97.872 141 3 0 585 725 190403029 190403169 9.410000e-61 244
6 TraesCS7A01G228900 chr7D 90.714 140 12 1 3256 3395 190460556 190460694 5.790000e-43 185
7 TraesCS7A01G228900 chr4A 98.252 515 8 1 60 574 12214558 12215071 0.000000e+00 900
8 TraesCS7A01G228900 chr2A 98.058 515 9 1 60 574 555785333 555785846 0.000000e+00 894
9 TraesCS7A01G228900 chr2A 97.670 515 11 1 60 574 258041484 258041997 0.000000e+00 883
10 TraesCS7A01G228900 chr5A 98.047 512 10 0 60 571 326426007 326426518 0.000000e+00 891
11 TraesCS7A01G228900 chr6A 97.485 517 13 0 60 576 77255351 77255867 0.000000e+00 883
12 TraesCS7A01G228900 chr2D 94.281 577 25 5 1 574 229987426 229986855 0.000000e+00 876
13 TraesCS7A01G228900 chr4D 94.107 577 30 3 1 574 479402276 479402851 0.000000e+00 874
14 TraesCS7A01G228900 chr3A 98.765 81 1 0 1 81 447301702 447301622 9.820000e-31 145
15 TraesCS7A01G228900 chr2B 97.590 83 2 0 1 83 541743776 541743858 3.530000e-30 143
16 TraesCS7A01G228900 chr2B 97.531 81 2 0 1 81 114073092 114073172 4.570000e-29 139
17 TraesCS7A01G228900 chr2B 97.531 81 2 0 1 81 227377690 227377770 4.570000e-29 139
18 TraesCS7A01G228900 chr2B 97.561 82 1 1 1 81 252350137 252350218 4.570000e-29 139
19 TraesCS7A01G228900 chr3B 95.455 88 4 0 1 88 512918617 512918704 1.270000e-29 141


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 TraesCS7A01G228900 chr7A 199236438 199239832 3394 False 6270 6270 100.000 1 3395 1 chr7A.!!$F1 3394
1 TraesCS7A01G228900 chr7A 672902447 672902961 514 True 891 891 97.864 60 574 1 chr7A.!!$R1 514
2 TraesCS7A01G228900 chr7B 335444130 335446927 2797 False 4004 4004 92.469 585 3395 1 chr7B.!!$F1 2810
3 TraesCS7A01G228900 chr7D 190446691 190449363 2672 False 3993 3993 93.629 585 3262 1 chr7D.!!$F2 2677
4 TraesCS7A01G228900 chr7D 365613700 365614275 575 False 902 902 94.983 1 574 1 chr7D.!!$F4 573
5 TraesCS7A01G228900 chr4A 12214558 12215071 513 False 900 900 98.252 60 574 1 chr4A.!!$F1 514
6 TraesCS7A01G228900 chr2A 555785333 555785846 513 False 894 894 98.058 60 574 1 chr2A.!!$F2 514
7 TraesCS7A01G228900 chr2A 258041484 258041997 513 False 883 883 97.670 60 574 1 chr2A.!!$F1 514
8 TraesCS7A01G228900 chr5A 326426007 326426518 511 False 891 891 98.047 60 571 1 chr5A.!!$F1 511
9 TraesCS7A01G228900 chr6A 77255351 77255867 516 False 883 883 97.485 60 576 1 chr6A.!!$F1 516
10 TraesCS7A01G228900 chr2D 229986855 229987426 571 True 876 876 94.281 1 574 1 chr2D.!!$R1 573
11 TraesCS7A01G228900 chr4D 479402276 479402851 575 False 874 874 94.107 1 574 1 chr4D.!!$F1 573

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
564 571 0.100503 AAAACCAACGCAGTGCTCAC 59.899 50.0 14.33 0.00 45.00 3.51 F
578 585 0.108615 GCTCACGAGGTAGCACACAT 60.109 55.0 0.00 0.00 38.63 3.21 F
1885 1894 0.229247 CAACACGGTTTTTGCGCATG 59.771 50.0 12.75 7.22 0.00 4.06 F
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability Orientation
2169 2178 0.392461 CGGTGTTCGGGACATTGGAT 60.392 55.000 0.00 0.0 41.1 3.41 R
2280 2289 1.071699 GAGTTGGTGTTGCCTCTACCA 59.928 52.381 0.00 0.0 42.4 3.25 R
3231 3242 1.228228 GGAGCCCATTGGAGATGCA 59.772 57.895 3.62 0.0 0.0 3.96 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
29 30 8.043113 TCTACATCATGTCATCTTGCTTAAAGT 58.957 33.333 0.00 0.00 37.18 2.66
170 171 6.486253 TCTGTCAATTGCTCAACAGTAATC 57.514 37.500 19.03 0.00 40.01 1.75
231 232 2.127708 CTAGTGAAACCTATGGCCCCT 58.872 52.381 0.00 0.00 37.80 4.79
564 571 0.100503 AAAACCAACGCAGTGCTCAC 59.899 50.000 14.33 0.00 45.00 3.51
576 583 1.289066 TGCTCACGAGGTAGCACAC 59.711 57.895 0.00 0.00 43.56 3.82
577 584 1.289066 GCTCACGAGGTAGCACACA 59.711 57.895 0.00 0.00 38.63 3.72
578 585 0.108615 GCTCACGAGGTAGCACACAT 60.109 55.000 0.00 0.00 38.63 3.21
579 586 1.914634 CTCACGAGGTAGCACACATC 58.085 55.000 0.00 0.00 34.56 3.06
580 587 0.530744 TCACGAGGTAGCACACATCC 59.469 55.000 0.00 0.00 34.39 3.51
581 588 0.460284 CACGAGGTAGCACACATCCC 60.460 60.000 0.00 0.00 34.39 3.85
582 589 0.902984 ACGAGGTAGCACACATCCCA 60.903 55.000 0.00 0.00 34.39 4.37
583 590 0.249120 CGAGGTAGCACACATCCCAA 59.751 55.000 0.00 0.00 34.39 4.12
607 614 2.618241 TGTTTGCTTGCAGTCAGTTAGG 59.382 45.455 0.00 0.00 0.00 2.69
635 642 7.824289 TCACACAAATATTCTAGACCTTCAAGG 59.176 37.037 0.22 0.22 42.49 3.61
648 655 5.186797 AGACCTTCAAGGAGAGAAGTGTATG 59.813 44.000 11.59 0.00 40.62 2.39
725 732 6.027749 GCTCGTTATCCATAACAAAAACCTG 58.972 40.000 9.57 0.00 42.02 4.00
735 742 6.599244 CCATAACAAAAACCTGAGCAGATAGA 59.401 38.462 0.00 0.00 0.00 1.98
841 848 2.037251 CCACCCTCCTACGATTGTATGG 59.963 54.545 0.00 0.00 0.00 2.74
853 860 5.057149 ACGATTGTATGGACTAATTGCTCC 58.943 41.667 0.00 0.00 0.00 4.70
940 948 7.124448 TCTCTTCTAGACATTTTAACCCTCTCC 59.876 40.741 0.00 0.00 0.00 3.71
943 951 7.324388 TCTAGACATTTTAACCCTCTCCAAA 57.676 36.000 0.00 0.00 0.00 3.28
946 954 7.855784 AGACATTTTAACCCTCTCCAAATTT 57.144 32.000 0.00 0.00 0.00 1.82
959 967 5.491982 TCTCCAAATTTGAGAAGCTAGGAC 58.508 41.667 19.86 0.00 0.00 3.85
971 979 4.707934 AGAAGCTAGGACAGTCTAGAAACC 59.292 45.833 0.00 0.00 39.14 3.27
985 993 3.315880 AGAAACCGAGGAGCTAGGTAT 57.684 47.619 0.00 0.00 38.49 2.73
995 1003 3.906846 AGGAGCTAGGTATCATTCCCTTG 59.093 47.826 0.00 0.00 32.08 3.61
1032 1040 1.595382 GACCAGTGCAAGCGTCAGT 60.595 57.895 0.00 0.00 0.00 3.41
1033 1041 1.835483 GACCAGTGCAAGCGTCAGTG 61.835 60.000 0.00 4.44 35.28 3.66
1272 1280 1.376683 TTATGAGGCAAAGGCGCGT 60.377 52.632 8.43 0.00 42.47 6.01
1275 1283 3.050275 GAGGCAAAGGCGCGTCTT 61.050 61.111 22.34 22.34 42.19 3.01
1302 1310 1.022735 CTATCTACGGCTGTGTCGGT 58.977 55.000 8.92 0.00 33.75 4.69
1531 1539 4.226761 GCCTCCATTTGTAACACGAAAAG 58.773 43.478 0.00 0.00 0.00 2.27
1681 1690 6.193514 TGCATGATATGTAGTTTGTTGGTG 57.806 37.500 0.00 0.00 0.00 4.17
1682 1691 5.709631 TGCATGATATGTAGTTTGTTGGTGT 59.290 36.000 0.00 0.00 0.00 4.16
1726 1735 4.561752 ACTCCTAGATGGTATGCTCCTTT 58.438 43.478 0.00 0.00 37.07 3.11
1832 1841 1.363280 TGGTAGACAGATACCCACCCA 59.637 52.381 0.68 0.00 43.99 4.51
1885 1894 0.229247 CAACACGGTTTTTGCGCATG 59.771 50.000 12.75 7.22 0.00 4.06
1901 1910 4.797868 TGCGCATGTCATTTAACTATTTGC 59.202 37.500 5.66 0.00 0.00 3.68
1951 1960 4.406648 TGTAGGAAGATGCGATGTGAAT 57.593 40.909 0.00 0.00 0.00 2.57
2084 2093 4.699522 GGCCCACCTCACGACACC 62.700 72.222 0.00 0.00 0.00 4.16
2127 2136 3.218470 CCGTCCCCGCCGTACATA 61.218 66.667 0.00 0.00 0.00 2.29
2169 2178 3.689161 CCATTTCTGAACTGGCGTCATTA 59.311 43.478 13.01 0.00 0.00 1.90
2190 2199 0.887387 CCAATGTCCCGAACACCGTT 60.887 55.000 0.00 0.00 41.75 4.44
2279 2288 2.270527 GACAGGGGAAGGCTCTGC 59.729 66.667 1.17 0.00 32.19 4.26
2280 2289 2.204059 ACAGGGGAAGGCTCTGCT 60.204 61.111 1.17 0.00 32.19 4.24
2360 2369 3.991999 TCGACGGTCGACAGGATT 58.008 55.556 27.66 0.00 44.82 3.01
2411 2420 5.302823 AGTTTTGAGATTGTTTGCCTAGCTT 59.697 36.000 0.00 0.00 0.00 3.74
2422 2431 3.334583 TGCCTAGCTTGGTGAACTAAG 57.665 47.619 15.85 2.43 37.48 2.18
2534 2543 2.506644 GGTAGTTAATAGGCACCACCCA 59.493 50.000 0.00 0.00 40.58 4.51
2629 2638 8.980481 TTCTAAGTTTGTTTCAGAGGAAGAAT 57.020 30.769 0.00 0.00 33.82 2.40
2640 2649 4.656112 TCAGAGGAAGAATATTGGAGGGAC 59.344 45.833 0.00 0.00 0.00 4.46
2757 2766 2.665519 CGCCATTGTGCTACTTTGTGTC 60.666 50.000 0.00 0.00 0.00 3.67
2838 2847 9.411189 TCCATATCTTGATTCAATTGATGTGAA 57.589 29.630 18.69 1.36 39.24 3.18
2864 2873 7.391148 TTTTGAGTCAATAAAGTATGCCCTC 57.609 36.000 6.36 0.00 0.00 4.30
2867 2876 6.817184 TGAGTCAATAAAGTATGCCCTCTAC 58.183 40.000 0.00 0.00 0.00 2.59
2878 2887 1.135527 TGCCCTCTACCGAAACATACG 59.864 52.381 0.00 0.00 0.00 3.06
2882 2891 3.378112 CCCTCTACCGAAACATACGTGTA 59.622 47.826 0.00 0.00 37.67 2.90
2938 2948 8.421784 CCCTGCTACTATAAAGTGATAGTTTCA 58.578 37.037 1.68 1.09 41.74 2.69
2969 2980 6.636850 CCTTAGAAAACAACAACAGAAATCCG 59.363 38.462 0.00 0.00 0.00 4.18
2971 2982 4.642885 AGAAAACAACAACAGAAATCCGGA 59.357 37.500 6.61 6.61 0.00 5.14
2981 2992 2.884639 CAGAAATCCGGACAAAACCAGT 59.115 45.455 6.12 0.00 0.00 4.00
3018 3029 4.610945 CAATGGTTGTGTCCTTCTTCAAC 58.389 43.478 0.00 0.00 39.24 3.18
3110 3121 6.013206 TCCTAACCACACAACCACATAAGTAT 60.013 38.462 0.00 0.00 0.00 2.12
3122 3133 6.634805 ACCACATAAGTATGAGAGACAACTG 58.365 40.000 5.33 0.00 37.15 3.16
3187 3198 4.850680 TCCTCTTACTCAGTCTCTTCTCC 58.149 47.826 0.00 0.00 0.00 3.71
3198 3209 1.478510 TCTCTTCTCCGTCTCAATGGC 59.521 52.381 0.00 0.00 0.00 4.40
3202 3213 1.489481 TCTCCGTCTCAATGGCTGAT 58.511 50.000 0.00 0.00 32.14 2.90
3231 3242 6.096423 CAGGAACACATGATTTGGATGAAGAT 59.904 38.462 0.00 0.00 0.00 2.40
3262 3273 4.424711 GCTCCCCCATTCCGCACA 62.425 66.667 0.00 0.00 0.00 4.57
3263 3274 2.597340 CTCCCCCATTCCGCACAT 59.403 61.111 0.00 0.00 0.00 3.21
3264 3275 1.825191 CTCCCCCATTCCGCACATG 60.825 63.158 0.00 0.00 0.00 3.21
3275 3286 1.796151 CGCACATGTGTGGCCTAAG 59.204 57.895 28.03 0.58 45.72 2.18
3277 3288 1.755179 GCACATGTGTGGCCTAAGAT 58.245 50.000 26.01 0.00 45.72 2.40
3292 3303 4.999950 GCCTAAGATGACAATCCACATAGG 59.000 45.833 0.00 0.00 39.47 2.57
3297 3308 6.764308 AGATGACAATCCACATAGGTTTTG 57.236 37.500 0.00 0.00 39.02 2.44
3321 3332 0.611896 CCAACGGGCTCCCTCATTTT 60.612 55.000 3.11 0.00 0.00 1.82
3352 3363 2.496871 TGTGCAAAATCCATTAGCCCTG 59.503 45.455 0.00 0.00 0.00 4.45
3361 3372 3.631250 TCCATTAGCCCTGTTCCAAATC 58.369 45.455 0.00 0.00 0.00 2.17
3362 3373 2.358898 CCATTAGCCCTGTTCCAAATCG 59.641 50.000 0.00 0.00 0.00 3.34
3367 3378 0.618458 CCCTGTTCCAAATCGAGGGA 59.382 55.000 0.00 0.00 45.67 4.20
Position MSA Position Penalty Sequence TM GC Self any TH Self end TH Hairpin End Stability
21 22 8.395633 TCAAAAGAACAGAGTAACACTTTAAGC 58.604 33.333 0.00 0.00 0.00 3.09
65 66 0.917533 AGTAGACCGACTCCTGCCTA 59.082 55.000 0.00 0.00 0.00 3.93
170 171 6.018507 GCATAAGTATTACGGTGGGTAAACAG 60.019 42.308 0.00 0.00 43.93 3.16
365 370 1.000060 CCCTTCACGGTCACTTACGAA 60.000 52.381 0.00 0.00 0.00 3.85
564 571 0.249120 TTGGGATGTGTGCTACCTCG 59.751 55.000 0.00 0.00 0.00 4.63
576 583 2.137523 GCAAGCAAACAAGTTGGGATG 58.862 47.619 7.96 4.30 37.73 3.51
577 584 1.761784 TGCAAGCAAACAAGTTGGGAT 59.238 42.857 7.96 0.00 37.73 3.85
578 585 1.136695 CTGCAAGCAAACAAGTTGGGA 59.863 47.619 7.96 0.00 37.73 4.37
579 586 1.134729 ACTGCAAGCAAACAAGTTGGG 60.135 47.619 7.96 0.00 37.60 4.12
580 587 2.195922 GACTGCAAGCAAACAAGTTGG 58.804 47.619 7.96 0.00 37.60 3.77
581 588 2.855963 CTGACTGCAAGCAAACAAGTTG 59.144 45.455 0.00 0.00 37.60 3.16
582 589 2.493278 ACTGACTGCAAGCAAACAAGTT 59.507 40.909 0.00 0.00 37.60 2.66
583 590 2.094675 ACTGACTGCAAGCAAACAAGT 58.905 42.857 0.00 0.00 37.60 3.16
607 614 8.547967 TGAAGGTCTAGAATATTTGTGTGAAC 57.452 34.615 0.00 0.00 0.00 3.18
635 642 4.499019 GCCAGCTAGTCATACACTTCTCTC 60.499 50.000 0.00 0.00 36.43 3.20
648 655 0.031449 CTCGCCTTAGCCAGCTAGTC 59.969 60.000 0.00 0.00 34.57 2.59
725 732 9.213799 CCATAAATTCTTTAGGTCTATCTGCTC 57.786 37.037 0.00 0.00 0.00 4.26
735 742 9.487442 TTTGGCTATTCCATAAATTCTTTAGGT 57.513 29.630 0.00 0.00 46.04 3.08
841 848 2.173569 AGGGATGTGGGAGCAATTAGTC 59.826 50.000 0.00 0.00 0.00 2.59
853 860 0.599558 CACACAAGCAAGGGATGTGG 59.400 55.000 9.61 0.00 46.67 4.17
940 948 5.936956 AGACTGTCCTAGCTTCTCAAATTTG 59.063 40.000 12.15 12.15 0.00 2.32
943 951 6.191315 TCTAGACTGTCCTAGCTTCTCAAAT 58.809 40.000 3.76 0.00 36.84 2.32
946 954 4.846168 TCTAGACTGTCCTAGCTTCTCA 57.154 45.455 3.76 0.00 36.84 3.27
959 967 2.096248 AGCTCCTCGGTTTCTAGACTG 58.904 52.381 0.00 0.00 0.00 3.51
971 979 2.494073 GGGAATGATACCTAGCTCCTCG 59.506 54.545 0.00 0.00 0.00 4.63
995 1003 1.757118 TCGATGACCCACTCATTCTCC 59.243 52.381 0.00 0.00 39.96 3.71
1054 1062 3.702048 GCACGGCCCTCCACTACA 61.702 66.667 0.00 0.00 0.00 2.74
1133 1141 1.152030 TCCACCCCTTGCTCTGAGT 60.152 57.895 6.53 0.00 0.00 3.41
1272 1280 2.569059 CCGTAGATAGGGTCACGAAGA 58.431 52.381 0.00 0.00 35.08 2.87
1275 1283 0.182061 AGCCGTAGATAGGGTCACGA 59.818 55.000 0.00 0.00 33.71 4.35
1302 1310 0.036388 GTTGGAGGGCGAAGATGTCA 60.036 55.000 0.00 0.00 0.00 3.58
1402 1410 5.949354 TCCAAAGAACCAATTCAATATCCGT 59.051 36.000 0.00 0.00 37.29 4.69
1467 1475 1.933181 GGCACAAACAACTCCAAAAGC 59.067 47.619 0.00 0.00 0.00 3.51
1531 1539 5.050159 CCTTTAATTTGCTTGACTTGTTGGC 60.050 40.000 0.00 0.00 0.00 4.52
1576 1584 7.040201 GGATGTGGATGTGCATCAAATTATAGT 60.040 37.037 13.37 0.00 42.22 2.12
1645 1654 9.229784 CTACATATCATGCATGAAGAACAAAAC 57.770 33.333 31.79 0.00 40.69 2.43
1681 1690 7.930217 AGTATGGTGATTTAACATATGCACAC 58.070 34.615 1.58 4.64 30.66 3.82
1682 1691 7.228507 GGAGTATGGTGATTTAACATATGCACA 59.771 37.037 1.58 0.00 30.66 4.57
1726 1735 1.909302 TCCCCTGTTGGTTTGCAAAAA 59.091 42.857 14.67 2.45 0.00 1.94
1742 1751 0.992695 GGATTAGGGCCTATGTCCCC 59.007 60.000 24.74 14.40 45.03 4.81
1803 1812 5.187186 GGGTATCTGTCTACCACTTCAAGAA 59.813 44.000 0.00 0.00 42.57 2.52
1920 1929 5.523552 TCGCATCTTCCTACATAACAACATG 59.476 40.000 0.00 0.00 0.00 3.21
2020 2029 3.224269 GGTTCGCTACCTAGAGGAGATT 58.776 50.000 1.60 0.00 44.10 2.40
2084 2093 4.389576 GCGGTGAAGGCTGTTGCG 62.390 66.667 0.00 0.00 40.82 4.85
2127 2136 1.625818 GAGAACTCAGTGGTCATGGGT 59.374 52.381 0.00 0.00 34.06 4.51
2169 2178 0.392461 CGGTGTTCGGGACATTGGAT 60.392 55.000 0.00 0.00 41.10 3.41
2235 2244 1.484038 ATGGTTGTTGGTGTTGCTGT 58.516 45.000 0.00 0.00 0.00 4.40
2279 2288 1.072331 AGTTGGTGTTGCCTCTACCAG 59.928 52.381 0.00 0.00 44.56 4.00
2280 2289 1.071699 GAGTTGGTGTTGCCTCTACCA 59.928 52.381 0.00 0.00 42.40 3.25
2360 2369 1.074775 GATGGTTGCTGGGGTGTCA 59.925 57.895 0.00 0.00 0.00 3.58
2492 2501 9.872684 ACTACCATCCATAAAATCAGATGAAAT 57.127 29.630 0.00 0.00 38.72 2.17
2501 2510 9.515226 TGCCTATTAACTACCATCCATAAAATC 57.485 33.333 0.00 0.00 0.00 2.17
2608 2617 8.579863 CCAATATTCTTCCTCTGAAACAAACTT 58.420 33.333 0.00 0.00 0.00 2.66
2620 2629 5.638530 AAGTCCCTCCAATATTCTTCCTC 57.361 43.478 0.00 0.00 0.00 3.71
2736 2745 1.266718 ACACAAAGTAGCACAATGGCG 59.733 47.619 0.00 0.00 39.27 5.69
2794 2803 2.040412 TGGAGCTCACACTCTGTCTCTA 59.960 50.000 17.19 0.00 36.87 2.43
2838 2847 8.366359 AGGGCATACTTTATTGACTCAAAATT 57.634 30.769 0.00 0.00 0.00 1.82
2864 2873 5.342433 TGGATTACACGTATGTTTCGGTAG 58.658 41.667 0.00 0.00 40.48 3.18
2867 2876 5.728351 AATGGATTACACGTATGTTTCGG 57.272 39.130 0.00 0.00 40.48 4.30
2938 2948 5.701224 TGTTGTTGTTTTCTAAGGGAGGAT 58.299 37.500 0.00 0.00 0.00 3.24
2969 2980 5.830000 AAACTTACTCACTGGTTTTGTCC 57.170 39.130 0.00 0.00 0.00 4.02
2971 2982 6.394809 CCAAAAACTTACTCACTGGTTTTGT 58.605 36.000 12.40 0.00 40.33 2.83
2981 2992 5.105146 ACAACCATTGCCAAAAACTTACTCA 60.105 36.000 0.00 0.00 0.00 3.41
3018 3029 1.606224 GCCCTTGTTGGTGCAAATCTG 60.606 52.381 0.00 0.00 33.85 2.90
3110 3121 3.461061 CTGAAAGTGCAGTTGTCTCTCA 58.539 45.455 7.73 6.49 0.00 3.27
3122 3133 3.435186 GCGCCTCCCTGAAAGTGC 61.435 66.667 0.00 0.00 0.00 4.40
3187 3198 1.293924 GACCATCAGCCATTGAGACG 58.706 55.000 0.00 0.00 39.68 4.18
3198 3209 3.339253 TCATGTGTTCCTGACCATCAG 57.661 47.619 0.00 0.00 43.91 2.90
3202 3213 3.156293 CCAAATCATGTGTTCCTGACCA 58.844 45.455 0.00 0.00 0.00 4.02
3231 3242 1.228228 GGAGCCCATTGGAGATGCA 59.772 57.895 3.62 0.00 0.00 3.96
3262 3273 3.719268 TTGTCATCTTAGGCCACACAT 57.281 42.857 5.01 0.00 0.00 3.21
3263 3274 3.609853 GATTGTCATCTTAGGCCACACA 58.390 45.455 5.01 0.00 0.00 3.72
3264 3275 2.945668 GGATTGTCATCTTAGGCCACAC 59.054 50.000 5.01 0.00 0.00 3.82
3275 3286 5.343249 GCAAAACCTATGTGGATTGTCATC 58.657 41.667 0.00 0.00 37.96 2.92
3277 3288 3.509575 GGCAAAACCTATGTGGATTGTCA 59.490 43.478 0.00 0.00 39.10 3.58
3292 3303 4.985845 CCCGTTGGATGGCAAAAC 57.014 55.556 0.00 0.00 0.00 2.43
3352 3363 2.027100 ACTCCTTCCCTCGATTTGGAAC 60.027 50.000 7.02 0.00 35.75 3.62
3361 3372 1.964933 GATTCCCTACTCCTTCCCTCG 59.035 57.143 0.00 0.00 0.00 4.63
3362 3373 2.969262 CAGATTCCCTACTCCTTCCCTC 59.031 54.545 0.00 0.00 0.00 4.30
3367 3378 3.246167 ACAGTCCAGATTCCCTACTCCTT 60.246 47.826 0.00 0.00 0.00 3.36


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

AutoCloner maintained by Alex Coulton.