Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A2 F1 I0 R1	4577	57.4	3436498	77.7%	2670158	63.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	355,401	A→C	44.1%	F76L (TTT→TTG) ‡	ybcI ←	conserved inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	355,401	0	A	C	44.1%	12.7 / 104.0	93	F76L (TTT→TTG) ‡	ybcI	conserved inner membrane protein
Reads supporting (aligned to +/- strand): ref base A (17/35); new base C (10/31); total (27/66)
Fisher's exact test for biased strand distribution p-value = 4.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

Only 100 of 123 total aligned reads displayed.

AGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAC  >  minE/355336‑355469

aGCAACTAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCTGCGTCCAATa                                                                      >  1:2110406/1‑66 (MQ=255)

aGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATa                                                                      >  1:1052548/1‑66 (MQ=255)

aGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATa                                                                      >  1:595032/1‑66 (MQ=255)

aGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATa                                                                      >  1:56339/1‑66 (MQ=255)

aGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATa                                                                      >  1:1151225/1‑66 (MQ=255)

aGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATa                                                                      >  1:357178/1‑66 (MQ=255)

aGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATa                                                                      >  1:354367/1‑66 (MQ=255)

aGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATa                                                                      >  1:3378580/1‑66 (MQ=255)

            gTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGc                                                       <  1:365872/69‑1 (MQ=255)

            gTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGc                                                       <  1:299510/69‑1 (MQ=255)

            gTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGc                                                       <  1:2219617/69‑1 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCTGCGTCCAATAAACACACATAACAGCGGGacaa                                                >  1:945255/1‑68 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                >  1:700607/1‑68 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                >  1:1823988/1‑68 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                >  1:22232/1‑68 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                >  1:2281081/1‑68 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                >  1:2751018/1‑68 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                >  1:821537/1‑68 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGacaa                                                >  1:295481/1‑68 (MQ=255)

                    cagccagcAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGAGGGacaa                                                >  1:2717976/1‑68 (MQ=255)

                           cagcGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCa                                        <  1:1581880/69‑1 (MQ=255)

                           cagcGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCa                                        <  1:2793965/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:2759016/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:1356096/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:253660/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:3178106/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:241006/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:3410138/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:2913458/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:640676/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:1551874/69‑1 (MQ=255)

                            agcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:1448102/69‑1 (MQ=255)

                             gcGAATCAGCCCAGCCCTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCaa                                       <  1:400782/68‑1 (MQ=255)

                                      cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACATCAAACGCAAACACCAGCg                              <  1:1743274/68‑1 (MQ=255)

                                      cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                              <  1:1500659/68‑1 (MQ=255)

                                      cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                              <  1:1322520/68‑1 (MQ=255)

                                      cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                              <  1:3348888/68‑1 (MQ=255)

                                      cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                              <  1:1318531/68‑1 (MQ=255)

                                      cccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                              <  1:3305325/68‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                              <  1:545085/67‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:2578229/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            >  1:9342/1‑69 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            >  1:660295/1‑69 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:1634465/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:3274121/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:1550844/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:2760963/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            >  1:2335183/1‑69 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            >  1:638704/1‑69 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:17616/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:117119/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:396411/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            <  1:1944302/69‑1 (MQ=255)

                                       ccagcccTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGaa                            >  1:1808454/1‑69 (MQ=255)

                                         agcgcTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACATACGCAAACACCAGCGAATg                          <  1:381270/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGGACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:300607/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:1008453/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:3050557/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:3052067/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:326118/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:1057201/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:2882672/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:2176844/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:2117549/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:1663231/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:1704614/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:2488968/69‑1 (MQ=255)

                                         agcccTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATg                          <  1:1560476/69‑1 (MQ=255)

                                            ccTGAACCATCGGCGTCCAATAAACACACATAACTGc                                                       <  1:388916/37‑1 (MQ=255)

                                             cTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCg                              <  1:2259550/61‑1 (MQ=255)

                                             cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAATCGCAAACACCAGCGAATGGGTa                      >  1:3286567/1‑69 (MQ=255)

                                             cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                      >  1:1209681/1‑69 (MQ=255)

                                             cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                      >  1:2153381/1‑69 (MQ=255)

                                             cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                      >  1:2052772/1‑69 (MQ=255)

                                             cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                      >  1:1409956/1‑69 (MQ=255)

                                             cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                      >  1:2782062/1‑69 (MQ=255)

                                             cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                      >  1:1143590/1‑69 (MQ=255)

                                             cTGAACCATCGACGTCCAATCAGCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTa                      >  1:2986999/1‑69 (MQ=255)

                                               gAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTaaa                    <  1:1502922/69‑1 (MQ=255)

                                               gAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTaaa                    <  1:2603722/69‑1 (MQ=255)

                                                       ggCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGAt            <  1:1892025/69‑1 (MQ=255)

                                                       ggCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGAt            <  1:587569/69‑1 (MQ=255)

                                                             cAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCa       >  1:245547/1‑68 (MQ=255)

                                                             cAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCa       >  1:1264413/1‑68 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa          <  1:121379/61‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa          <  1:218131/61‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa          <  1:3245958/61‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGa          <  1:1866039/61‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:1684899/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:90868/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:1356354/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:1784441/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:487824/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:1235494/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:33725/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:2261547/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:3221712/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:3092043/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:2665004/69‑1 (MQ=255)

                                                                 aaaCACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAc  <  1:2817212/69‑1 (MQ=255)

AGCAACGAGACGGTTAAAAACAGCCAGCAGCGAATCAGCCCAGCCCTGAACCATCGGCGTCCAATAAACACACATAACAGCGGGACAACAAACGCAAACACCAGCGAATGGGTAAACCCGCGATGACCAAAAAC  >  minE/355336‑355469

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A