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	1,844,848	A→T	38.0%	A79A (GCT→GCA)	cysN ←	sulfate adenylyltransferase, subunit 1

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,844,848	0	A	T	38.0%	35.6 / 51.3	61	A79A (GCT→GCA)	cysN	sulfate adenylyltransferase, subunit 1
Reads supporting (aligned to +/- strand): ref base A (21/16); new base T (9/14); total (31/30)
Fisher's exact test for biased strand distribution p-value = 2.88e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.44e-01

TAGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTG  >  minE/1844783‑1844913

tAGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGcc                                                                <  1:1221712/69‑1 (MQ=255)

 aGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCaga                                                                   >  1:950700/1‑65 (MQ=255)

 aGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCaga                                                                   >  1:1178773/1‑65 (MQ=255)

 aGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCaga                                                                   >  1:1369663/1‑65 (MQ=255)

 aGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCaga                                                                   >  1:2482173/1‑65 (MQ=255)

 aGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCaga                                                                   >  1:2250083/1‑65 (MQ=255)

 aGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCaga                                                                   >  1:2194153/1‑65 (MQ=255)

 aGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCaga                                                                   >  1:1874136/1‑65 (MQ=255)

 aGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCaga                                                                   >  1:1874058/1‑65 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCtttt                                                   >  1:1174150/3‑69 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCtttt                                                   >  1:906691/3‑69 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCtttt                                                   >  1:5442/3‑69 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCtttt                                                   >  1:2955002/3‑69 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCtttt                                                   >  1:2761820/3‑69 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCtttt                                                   >  1:2063146/3‑69 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCtttt                                                   >  1:1835966/3‑69 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCttt                                                    >  1:3222408/3‑68 (MQ=255)

             catCAATAGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCttt                                                    >  1:1212396/3‑68 (MQ=255)

                         tGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGc                                       >  1:247796/1‑69 (MQ=255)

                         tGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGc                                       >  1:79926/1‑69 (MQ=255)

                              tGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGa                                  >  1:803481/1‑69 (MQ=255)

                              tGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGa                                  >  1:2349684/1‑69 (MQ=255)

                              tGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGa                                  >  1:2709132/1‑69 (MQ=255)

                              tGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGa                                  >  1:791345/1‑69 (MQ=255)

                              tGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGa                                  >  1:3336765/1‑69 (MQ=255)

                              tGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTAGCCCTGGGTGCCGTGa                                  >  1:2459123/1‑69 (MQ=255)

                              tGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCAAGCTTTTCGCCCTGGGTGCCGTGa                                  >  1:637024/1‑69 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCTGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:1282454/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:1830639/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:2724333/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:3244068/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:3232152/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:3050109/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:2397155/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:1569383/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:1616205/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:748010/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:1111117/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:2011180/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:1724171/69‑1 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGCGCCAGATCCAGCTTTTCGCGCTGGGTGCCGTGACGCt                              >  1:3211313/1‑69 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              >  1:1393266/1‑69 (MQ=255)

                                  cgcgCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              >  1:1940645/1‑69 (MQ=255)

                                      cTCAGCTTGCAGGCCGTCCACCAGCAGTGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCt                              <  1:46085/65‑1 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCg                                                 >  1:2623163/1‑44 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGc                                                >  1:862251/1‑45 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGc                                                >  1:1175534/1‑45 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGc                                                >  1:975061/1‑45 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGc                                                >  1:3065283/1‑45 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGc                                                >  1:296034/1‑45 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGc                                                >  1:2767874/1‑45 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGc                                                >  1:1336835/1‑45 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGc                                                >  1:2158239/1‑45 (MQ=255)

                                        cAGCTTGCAGGCCGTCCACCAGAAGAGCCAGATCCAGCtttt                                                   >  1:2733041/1‑42 (MQ=255)

                                                             gcagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCt   <  1:3322669/69‑1 (MQ=255)

                                                             gcagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCt   <  1:3169178/69‑1 (MQ=255)

                                                             gcagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCt   <  1:2617374/69‑1 (MQ=255)

                                                             gcagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCt   <  1:2035362/69‑1 (MQ=255)

                                                             gcagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCt   <  1:2174954/69‑1 (MQ=255)

                                                             gcagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCt   <  1:892319/69‑1 (MQ=255)

                                                             gcagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCt   <  1:80657/69‑1 (MQ=255)

                                                              cagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCt   <  1:2978651/68‑1 (MQ=255)

                                                              cagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTg  <  1:179311/69‑1 (MQ=255)

                                                              cagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTg  <  1:20583/69‑1 (MQ=255)

                                                              cagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTg  <  1:1630359/69‑1 (MQ=255)

                                                              cagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTg  <  1:2141874/69‑1 (MQ=255)

                                                              cagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTg  <  1:2172865/69‑1 (MQ=255)

                                                              cagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTg  <  1:667541/69‑1 (MQ=255)

                                                              cagAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTg  <  1:520810/69‑1 (MQ=255)

TAGCGGTAGGCCACGTCAATGGTGATGCCCTGTTCGCGCTCAGCTTGCAGGCCGTCCACCAGCAGAGCCAGATCCAGCTTTTCGCCCTGGGTGCCGTGACGCTTACTGTCGTTATGCAGCGATGAGAGCTG  >  minE/1844783‑1844913

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