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	2,220,870	A→T	31.3%	P51P (CCA→CCT)	accB →	acetyl CoA carboxylase, BCCP subunit

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,220,870	0	A	T	31.3%	77.2 / 42.9	67	P51P (CCA→CCT)	accB	acetyl CoA carboxylase, BCCP subunit
Reads supporting (aligned to +/- strand): ref base A (25/21); new base T (7/14); total (32/35)
Fisher's exact test for biased strand distribution p-value = 1.24e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCAGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGTTCCTTCCATGGAAGCGCCAGC  >  minE/2220802‑2220938

tCAGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCa                                                                      >  1:591829/1‑69 (MQ=255)

tCAGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCa                                                                      >  1:2901325/1‑69 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:393089/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:389174/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:380270/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:3383906/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:3253419/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:3198104/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:2719334/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:2650778/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:2587131/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:2432115/69‑1 (MQ=255)

  aGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAat                                                                    <  1:2528896/69‑1 (MQ=255)

    tACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAatga                                                                  <  1:2237986/69‑1 (MQ=255)

    tACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAatga                                                                  <  1:871589/69‑1 (MQ=255)

    tACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAatga                                                                  <  1:257661/69‑1 (MQ=255)

    tACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAatga                                                                  <  1:3135844/69‑1 (MQ=255)

      cGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAatga                                                                  >  1:818108/1‑67 (MQ=255)

      cGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAatga                                                                  >  1:2979791/1‑67 (MQ=255)

      cGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAatga                                                                  >  1:3395766/1‑67 (MQ=255)

      cGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAatg                                                                   >  1:2917936/1‑66 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCTCCAATGATgcagca                                                           >  1:568075/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagga                                                           >  1:2170091/1‑66 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:1857543/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:1883958/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:3023464/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:1333248/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:763848/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:2589311/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:2537368/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:3406368/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:123736/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:2378702/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:235682/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:1060176/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagca                                                           >  1:683587/1‑68 (MQ=255)

            aGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATgcagc                                                            >  1:660639/1‑67 (MQ=255)

                        ccTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCt                                              <  1:166098/69‑1 (MQ=255)

                        ccTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCt                                              <  1:1870969/69‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:763191/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:3418786/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:1269916/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:1328256/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:607139/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:622812/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:2837442/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:2065922/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:206956/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:2374748/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:239641/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:1718312/43‑1 (MQ=255)

                              gCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:2634874/43‑1 (MQ=255)

                                  gTTTCCCTGTGATGCAACAAGCTTACGCTGCACCTatga                                                                  <  1:1243182/39‑1 (MQ=255)

                                         tgtgATGCAACAAGCTTACGCTGCACCTATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGc                             >  1:2651143/1‑69 (MQ=255)

                                         tgtgATGCAACAAGCTTACGCTGCACCTATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGc                             >  1:1728425/1‑69 (MQ=255)

                                         tgtgATGCAACAAGCTTACGCTGCACCTATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGc                             >  1:1488936/1‑69 (MQ=255)

                                         tgtgATGCAACAAGCTTACGCTGCACCTATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGc                             >  1:486830/1‑69 (MQ=255)

                                         tgtgATGCAACAAGCTTACGCTGCACCTATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGc                             >  1:2204618/1‑69 (MQ=255)

                                         tgtgATGCAACAAGCTTACGCTGCACCTATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGc                             >  1:701624/1‑69 (MQ=255)

                                         tgtgATGCAACAAGCTTACGCTGCACCTATGATGCAGCAGCCAGCCCAATCTAACGCAGCCGCTCCGGc                             >  1:2170460/1‑69 (MQ=255)

                                             aTGCAACAAGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGAc                          <  1:2426754/68‑1 (MQ=255)

                                             aTGCAACAAGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGAc                          <  1:1204535/68‑1 (MQ=255)

                                             aTGCAACAAGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGAc                          <  1:1356179/68‑1 (MQ=255)

                                                    aaGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGttcct                   >  1:1039169/1‑68 (MQ=255)

                                                    aaGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGttcct                   >  1:1365521/1‑68 (MQ=255)

                                                    aaGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGttcct                   >  1:3115872/1‑68 (MQ=255)

                                                    aaGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGttcct                   >  1:2730822/1‑68 (MQ=255)

                                                    aaGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGttcct                   >  1:2044750/1‑68 (MQ=255)

                                                     aGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGttccttc                 <  1:1959324/69‑1 (MQ=255)

                                                                    aaTGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGTTCCTTCCATGGAAGCGCcagc  <  1:154233/69‑1 (MQ=255)

TCAGTACGCATTAGCCGTGCAGCTCCTGCCGCAAGTTTCCCTGTGATGCAACAAGCTTACGCTGCACCAATGATGCAGCAGCCAGCTCAATCTAACGCAGCCGCTCCGGCGACCGTTCCTTCCATGGAAGCGCCAGC  >  minE/2220802‑2220938

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