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 F8 I0 R2	296	77.6	4260404	88.1%	3753415	61.2

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	minE	1,598,488	C→T	50.8%	A60A (GCG→GCA)	yfeT ←	predicted DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	1,598,488	0	C	T	50.8%	‑6.4 / 101.6	65	A60A (GCG→GCA)	yfeT	predicted DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand): ref base C (17/15); new base T (17/16); total (34/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.91e-01

CGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCGT  >  minE/1598425‑1598557

cGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGcc                                                                  >  1:3684584/1‑69 (MQ=255)

    ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGttt                                                            >  1:4056524/1‑71 (MQ=255)

    ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGttt                                                            >  1:123534/1‑71 (MQ=255)

    ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGtt                                                             <  1:3119131/70‑1 (MQ=255)

    ttCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGtt                                                             <  1:4047062/70‑1 (MQ=255)

      ctcCCGGCTGGCACTGTATTCGCCTATTAAGGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGttttt                                                          >  1:3120211/1‑71 (MQ=255)

      ctcCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGtttt                                                           <  1:3443203/70‑1 (MQ=255)

      ctcCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGtttt                                                           <  1:859908/70‑1 (MQ=255)

      ctcCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGtttt                                                           <  1:1589074/70‑1 (MQ=255)

                gCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAAttt                                                <  1:680860/71‑1 (MQ=255)

                  aCTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCa                                              <  1:813630/71‑1 (MQ=255)

                   cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             <  1:3040215/71‑1 (MQ=255)

                   cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:676323/1‑71 (MQ=255)

                   cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             <  1:3064933/71‑1 (MQ=255)

                   cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:1657751/1‑71 (MQ=255)

                   cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCa                                              >  1:1716617/1‑70 (MQ=255)

                   cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:2104425/1‑71 (MQ=255)

                   cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:316263/1‑71 (MQ=255)

                   cTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCAc                                             >  1:2975460/1‑71 (MQ=255)

                     gTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:2427769/1‑71 (MQ=255)

                     gTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:2821886/1‑71 (MQ=255)

                     gTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:1489116/1‑71 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGtttt                                                           >  1:3382670/1‑52 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGtttt                                                           >  1:3538737/1‑52 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTAt                                          <  1:1956785/69‑1 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTAt                                          <  1:417308/69‑1 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTAt                                          <  1:3959950/69‑1 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTAt                                          <  1:3950468/69‑1 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTAt                                          <  1:275532/69‑1 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGc                                        >  1:410079/1‑71 (MQ=255)

                        ttCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGc                                        >  1:1834824/1‑71 (MQ=255)

                           gCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTc                                      <  1:1314694/70‑1 (MQ=255)

                           gCCTATTAACGCCATACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGATc                                      <  1:1312929/70‑1 (MQ=255)

                                ttAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGttt                                                            >  1:179130/1‑43 (MQ=255)

                                ttAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGttt                                                            >  1:647017/1‑43 (MQ=255)

                                ttAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGttt                                                            >  1:721534/1‑43 (MQ=255)

                                ttAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACt                                  <  1:3303695/69‑1 (MQ=255)

                                ttAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACt                                  <  1:1030278/69‑1 (MQ=255)

                                   aCGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCt                              <  1:2796585/70‑1 (MQ=255)

                                   aCGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCt                              <  1:3744729/70‑1 (MQ=255)

                                        aTACGCAATTCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGcc                        <  1:2612470/71‑1 (MQ=255)

                                         tACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTc                                      <  1:1567162/56‑1 (MQ=255)

                                           cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:954530/1‑49 (MQ=255)

                                           cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:2727396/1‑49 (MQ=255)

                                           cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGa                      >  1:1310247/1‑70 (MQ=255)

                                           cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGa                      >  1:1500393/1‑70 (MQ=255)

                                           cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAg                     <  1:3558593/71‑1 (MQ=255)

                                           cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAg                     <  1:1187138/71‑1 (MQ=255)

                                           cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAg                     >  1:2268288/1‑71 (MQ=255)

                                           cGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAg                     >  1:2354008/1‑71 (MQ=255)

                                            gCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGc                    <  1:944658/71‑1 (MQ=255)

                                                ttCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCAc                                             <  1:1060175/42‑1 (MQ=255)

                                                ttCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCg                                     <  1:2776196/50‑1 (MQ=255)

                                                 tCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:1288741/1‑43 (MQ=255)

                                                 tCAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTa                                           >  1:156338/1‑43 (MQ=255)

                                                  cAGTAAATCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTc              >  1:3406747/1‑71 (MQ=255)

                                                   aGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCg             <  1:2388716/71‑1 (MQ=255)

                                                   aGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCg             <  1:3928589/71‑1 (MQ=255)

                                                     tAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGcc           <  1:3784792/71‑1 (MQ=255)

                                                     tAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGc            >  1:3940590/1‑70 (MQ=255)

                                                     tAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGc            >  1:390866/1‑70 (MQ=255)

                                                       aaTCCTTGTGCGCCGAGTTTTTGGGCAAATTTAACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCAt         >  1:240577/1‑71 (MQ=255)

                                                       aaTCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCAt         >  1:3939288/1‑71 (MQ=255)

                                                         tCCTTGTGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGATGTTTCGCCATCt       >  1:1072375/1‑71 (MQ=255)

                                                           cTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGc            <  1:1922708/64‑1 (MQ=255)

                                                              gcgcgcCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCGt  >  1:3703559/1‑71 (MQ=255)

CGTTTTCTCCCGGCTGGCACTGTATTCGCCTATTAACGCCATACGCAATTCAGTAAATCCTTGCGCGCCGAGTTTTTGGGCAAATTTCACTATGCTCGACTGGCTAATGCCGAGCTGTTTCGCCATCTGCCGT  >  minE/1598425‑1598557

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