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	466,096	G→T	58.2%	V312V (GTG→GTT)	sucA →	2‑oxoglutarate decarboxylase, thiamin‑requiring

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	466,096	0	G	T	58.2%	16.8 / 69.1	67	V312V (GTG→GTT)	sucA	2‑oxoglutarate decarboxylase, thiamin‑requiring
Reads supporting (aligned to +/- strand): ref base G (21/7); new base T (26/13); total (47/20)
Fisher's exact test for biased strand distribution p-value = 5.91e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTAA  >  minE/466029‑466139

tCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc                                            <  1:1016058/69‑1 (MQ=255)

tCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc                                            <  1:2305876/69‑1 (MQ=255)

tCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc                                            <  1:1817537/69‑1 (MQ=255)

tCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc                                            <  1:2398799/69‑1 (MQ=255)

 cGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc                                            <  1:1134021/68‑1 (MQ=255)

 cGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGc                                            <  1:2850615/68‑1 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:1592980/1‑69 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:18899/1‑69 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:1678536/1‑69 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:3043312/1‑69 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:431662/1‑69 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:452163/1‑69 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:1172232/1‑69 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:725054/1‑69 (MQ=255)

             cGTGAAATACCACTTGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTTCACctggcgctggc                               >  1:777993/1‑69 (MQ=255)

              gTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGCTGGCGGCCTGGTGCACctggcgctggcg                              >  1:2721677/1‑69 (MQ=255)

              gTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACctggcgctggcg                              >  1:1713100/1‑69 (MQ=255)

              gTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACctggcgctggcg                              >  1:2609439/1‑69 (MQ=255)

              gTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACctggcgctggcg                              >  1:2199556/1‑69 (MQ=255)

                      ccACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAAccc                      >  1:3264609/1‑69 (MQ=255)

                      ccACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAAccc                      >  1:2507961/1‑69 (MQ=255)

                      ccACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAAccc                      >  1:420028/1‑69 (MQ=255)

                      ccACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAAccc                      >  1:1210865/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:193259/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:2020109/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:207510/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:1029185/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:732149/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:69925/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:2430280/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:126102/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:3275567/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:1263452/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:3214263/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:3073017/1‑69 (MQ=255)

                           tGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGtctc                 >  1:2744120/1‑69 (MQ=255)

                                    cGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgag         <  1:420732/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGttt                           >  1:1967220/1‑43 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:176524/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:983054/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:2145320/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:766166/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:2206134/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:598518/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:474787/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:185342/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:436829/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:1229719/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:379651/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:2695297/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:2836548/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:256977/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgaga        >  1:3149066/1‑62 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTgag         >  1:189312/1‑61 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:1716535/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:892591/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:284795/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:110508/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:712057/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:710705/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:356952/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:1533484/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:2643846/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:1728920/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:1723305/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:247477/68‑1 (MQ=255)

                                           cTTCCAGACCGATGGCGGCCTGGTTCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTaa  <  1:1005186/68‑1 (MQ=255)

TCGGCACGGGTGACGTGAAATACCACATGGGCTTCTCGTCTGACTTCCAGACCGATGGCGGCCTGGTGCACCTGGCGCTGGCGTTTAACCCGTCTCACCTTGAGATTGTAA  >  minE/466029‑466139

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A