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	813,484	T→G	36.0%	S202S (TCA→TCC)	prsA ←	phosphoribosylpyrophosphate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	813,484	0	T	G	36.0%	105.6 / 131.1	152	S202S (TCA→TCC)	prsA	phosphoribosylpyrophosphate synthase
Reads supporting (aligned to +/- strand): ref base T (68/29); new base G (29/25); total (98/54)
Fisher's exact test for biased strand distribution p-value = 5.23e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.52e-01

Only 100 of 164 total aligned reads displayed.

GTCGATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGCGAT  >  minE/813418‑813552

gtCGATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGa                                                                    >  1:1338953/1‑69 (MQ=255)

 tCGATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGaa                                                                   >  1:869557/1‑69 (MQ=255)

 tCGATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGaa                                                                   >  1:587633/1‑69 (MQ=255)

 tCGATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGaa                                                                   >  1:202874/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGaaa                                                                  >  1:2758680/1‑68 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:1789708/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:2656469/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:2356442/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:2545982/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:269186/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:273224/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:2881791/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:2948337/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:2972052/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:3008316/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:3147822/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:316667/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:36439/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:482009/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:966943/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:1139422/1‑69 (MQ=255)

   gATCATATCATCGACCAGTACGCAGTCACAACCTGCAACGTCACCGATGATATGCATCACCTGGGAAAc                                                                 >  1:2830879/1‑69 (MQ=255)

         atcatcGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGc                                                           >  1:2673136/1‑69 (MQ=255)

         atcatcGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAAAGTTCGc                                                           >  1:41849/1‑69 (MQ=255)

              cGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCAcgcg                                                      >  1:2126212/1‑69 (MQ=255)

                         cAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTg                                           >  1:1044481/1‑69 (MQ=255)

                         cAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTg                                           >  1:1038150/1‑69 (MQ=255)

                         cAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTg                                           >  1:2477474/1‑69 (MQ=255)

                         cAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTg                                           >  1:345777/1‑69 (MQ=255)

                         cAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTg                                           >  1:2238176/1‑69 (MQ=255)

                         cAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTg                                           >  1:944407/1‑69 (MQ=255)

                             cACGCCCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGgac                                                   >  1:3139261/1‑57 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:2312585/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:891465/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:32215/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:3249813/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:1278803/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:344057/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:1789287/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:2264700/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:2130065/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCg                                        >  1:662958/1‑68 (MQ=255)

                             cACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGATCGCAcg                                                        >  1:3042044/1‑52 (MQ=255)

                              aCGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCgat                                      >  1:1603366/1‑69 (MQ=255)

                              aCGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCgat                                      >  1:705965/1‑69 (MQ=255)

                              aCGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCgat                                      >  1:175757/1‑69 (MQ=255)

                              aCGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCgat                                      >  1:2581733/1‑69 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:3423961/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:1367410/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:2915954/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:2929009/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:552756/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:343272/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:854478/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:4876/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:548758/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:2375057/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:2423069/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:199725/39‑1 (MQ=255)

                                   cTGCAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:2659493/39‑1 (MQ=255)

                                   cTGAAACGTCACCGATGATATGCATCACCTGGGAAACGt                                                               <  1:408875/39‑1 (MQ=37)

                                     gCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTc                                         >  1:1660567/1‑59 (MQ=255)

                                     gCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTc                                         >  1:1104826/1‑59 (MQ=255)

                                     gCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTc                                         >  1:2097751/1‑59 (MQ=255)

                                        aCGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCat                             <  1:1113780/68‑1 (MQ=255)

                                        aCGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCat                             <  1:1191982/68‑1 (MQ=255)

                                        aCGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCat                             <  1:20834/68‑1 (MQ=255)

                                        aCGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCat                             <  1:1586241/68‑1 (MQ=255)

                                        aCGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCat                             <  1:3080706/68‑1 (MQ=255)

                                        aCGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCat                             <  1:1862688/68‑1 (MQ=255)

                                        aCGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCat                             <  1:1418738/68‑1 (MQ=255)

                                          gTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCat                             <  1:1414608/66‑1 (MQ=255)

                                                         cATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTcagcag           >  1:1427184/1‑69 (MQ=255)

                                                             aCCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTa       >  1:1646777/1‑69 (MQ=255)

                                                             aCCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTa       >  1:2335739/1‑69 (MQ=255)

                                                             aCCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTa       >  1:729481/1‑69 (MQ=255)

                                                             aCCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTa       >  1:692765/1‑69 (MQ=255)

                                                             aCCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTa       >  1:457721/1‑69 (MQ=255)

                                                             aCCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTa       >  1:2196784/1‑69 (MQ=255)

                                                             aCCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTa       >  1:1292003/1‑69 (MQ=255)

                                                             aCCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTa       >  1:502956/1‑69 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:339213/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:1470451/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:1673702/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:2667493/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:1878549/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:2564375/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:1202111/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:1523841/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:2294472/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:157245/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:3355119/69‑1 (MQ=255)

                                                               cTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:3388406/69‑1 (MQ=255)

                                                                tgtgAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     <  1:1265117/68‑1 (MQ=255)

                                                                 gtgAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     >  1:2562597/1‑67 (MQ=255)

                                                                 gtgAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGc     >  1:3285942/1‑67 (MQ=255)

                                                                 gtgAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGCGa   <  1:1716676/69‑1 (MQ=255)

                                                                  tgAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTa                      >  1:2261199/1‑49 (MQ=255)

                                                                  tgAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGCGAt  >  1:578559/1‑69 (MQ=255)

                                                                  tgAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGCGAt  >  1:783625/1‑69 (MQ=255)

GTCGATCATATCATCGACCAGTACGCAGTCACGACCTGCAACGTCACCGATGATATGCATCACCTGTGAAACGTTCGCACGCGGACGACGTTTGTCGATGATTGCCATATCGGTATCGTTCAGCAGCTTAGCGAT  >  minE/813418‑813552

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 21 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A