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	1,680,544	C→G	44.2%	S1477T (AGC→ACC)	yfhM ←	conserved hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,680,544	0	C	G	44.2%	20.6 / 84.1	77	S1477T (AGC→ACC)	yfhM	conserved hypothetical protein
Reads supporting (aligned to +/- strand): ref base C (23/20); new base G (14/20); total (37/40)
Fisher's exact test for biased strand distribution p-value = 3.60e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.31e-01

AAAGGTGCGGATTGCGGATAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCAGATTGCTGTTTTGCG  >  minE/1680478‑1680592

aaaGGTGCGGATTGCGGATAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTc                                                >  1:2783794/1‑69 (MQ=255)

             gcggatAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTg                                    >  1:1748521/1‑68 (MQ=255)

             gcggatAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTg                                    >  1:1543480/1‑68 (MQ=255)

             gcggatAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTg                                    >  1:2793164/1‑68 (MQ=255)

             gcggatAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTg                                    >  1:296380/1‑68 (MQ=255)

             gcggatAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTg                                    >  1:786375/1‑68 (MQ=255)

             gcggatAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTg                                    >  1:1082857/1‑68 (MQ=255)

                   aaCCGCTGGCATCCACACGCAGCCATAACGGCTGAT‑‑CCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:984209/69‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:3276389/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:2975892/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:2884621/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:940804/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:2678465/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:2672436/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:2493122/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:1073083/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:2315802/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:1854918/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:1807321/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:1771258/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:2438868/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:115245/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:1638464/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:1559184/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:120479/68‑1 (MQ=255)

                      cGCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:1637584/68‑1 (MQ=255)

                       gCTGGCATCCACACGCAGCCATAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGa                           <  1:1391552/67‑1 (MQ=255)

                         tGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGc                       <  1:1084908/69‑1 (MQ=255)

                         tGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGc                       <  1:1290848/69‑1 (MQ=255)

                         tGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGc                       <  1:1965859/69‑1 (MQ=255)

                         tGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGc                       <  1:3020711/69‑1 (MQ=255)

                         tGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGc                       <  1:2222294/69‑1 (MQ=255)

                         tGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGc                       <  1:58859/69‑1 (MQ=255)

                         tGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGc                       <  1:230676/69‑1 (MQ=255)

                         tGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGc                       <  1:2546047/69‑1 (MQ=255)

                               ccATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCa                 <  1:3418691/69‑1 (MQ=255)

                               ccATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCa                 <  1:490225/69‑1 (MQ=255)

                               ccATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCa                 <  1:2031353/69‑1 (MQ=255)

                                cATACGCAACCATATCGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCAg                >  1:2936162/1‑69 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCACGGTGAc                                  <  1:441434/51‑1 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGAc                                  <  1:1572722/51‑1 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGAc                                  <  1:24394/51‑1 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGAc                                  <  1:315440/51‑1 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGAc                                  <  1:13408/51‑1 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGAc                                  <  1:2682271/51‑1 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGAc                                  <  1:2147845/51‑1 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGAc                                  <  1:2924345/51‑1 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:2878141/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:1856276/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:804600/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:2337065/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:2233902/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:1534627/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:1549046/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:795794/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTg                            >  1:231525/1‑57 (MQ=255)

                                cATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGCTGACAAGTTg                            >  1:1562701/1‑57 (MQ=255)

                                          cATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCAGATTGCTGttt      <  1:2812084/69‑1 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:535648/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:782745/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:375963/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:3431623/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:1771819/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:3203811/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:3062129/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:2858118/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:1449309/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:2634178/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:226992/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:2251698/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:168742/1‑69 (MQ=255)

                                           aTAACGGCTGATCGCCACTGTTGGTCACCTGCAAGGTGGCAAGTTGATCGCTATTCAGATTGCTGgttt     >  1:1695328/1‑69 (MQ=255)

                                              aCGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCAGATTGCTGTTTTgcg  >  1:3375013/1‑69 (MQ=255)

                                              aCGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCAGATTGCTGTTTTgcg  >  1:3083090/1‑69 (MQ=255)

                                              aCGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCAGATTGCTGTTTTgcg  >  1:1426422/1‑69 (MQ=255)

                                              aCGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCAGATTGCTGTTTTgcg  >  1:991023/1‑69 (MQ=255)

                                              aCGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGATATTCAGATTGCTGTTTTgcg  >  1:2210371/1‑69 (MQ=255)

AAAGGTGCGGATTGCGGATAACCGCTGGCATCCATACGCAACCATAACGGCTGATCGCCACTGTTGCTCACCTGCAAGGTGACAAGTTGATCGCTATTCAGATTGCTGTTTTGCG  >  minE/1680478‑1680592

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A