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
A1 F17 I0 R2	276	45.3	3729697	93.0%	3468618	60.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	3,783,965	C→T	9.2%	G13D (GGC→GAC)	yidI ←	predicted inner membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,783,965	0	C	T	9.2%	237.9 / 10.2	76	G13D (GGC→GAC)	yidI	predicted inner membrane protein
Reads supporting (aligned to +/- strand): ref base C (37/32); new base T (4/3); total (41/35)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGATGGCAAAAGCAT  >  W3110S.gb/3783907‑3784033

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGTCCAATGAACt                                                            >  1:2011648/1‑69 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGTCCAATGAACt                                                            >  1:3478166/1‑69 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGTCCAATGAACt                                                            >  1:3001710/1‑69 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATg                                                                <  1:2879744/65‑1 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATg                                                                <  1:2230399/65‑1 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACt                                                            >  1:2311487/1‑69 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACt                                                            >  1:2293066/1‑69 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACt                                                            >  1:1841737/1‑69 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACt                                                            >  1:2341720/1‑69 (MQ=255)

aGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACt                                                            >  1:3178181/1‑69 (MQ=255)

      gAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGatttt                                                      >  1:1552717/1‑69 (MQ=255)

        aTGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGccc                                                                    >  1:948446/1‑53 (MQ=255)

           aaaaGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGccc                                                                    >  1:92261/1‑50 (MQ=255)

            aaaGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTg                                                >  1:1628197/1‑69 (MQ=255)

            aaaGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTg                                                >  1:3498456/1‑69 (MQ=255)

             aaGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGTCCAATGAACTGATTTTATTTTg                                                <  1:737551/68‑1 (MQ=255)

             aaGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGTCCAATGAACTGATTTTATTTTg                                                <  1:3180220/68‑1 (MQ=255)

               gTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGc                                             >  1:3615186/1‑69 (MQ=255)

                tGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCt                                            <  1:1123638/69‑1 (MQ=255)

                  gATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          >  1:2979694/1‑69 (MQ=255)

                  gATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:945067/69‑1 (MQ=255)

                    tAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGa                                        >  1:2250794/1‑69 (MQ=255)

                     aaTCCCCATCATTAAAGCGATGGCACCGAACAGCATGccc                                                                    <  1:2619725/40‑1 (MQ=255)

                       tCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCt                                            <  1:1995475/62‑1 (MQ=255)

                        ccccATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATAcc                                    <  1:760733/69‑1 (MQ=255)

                         cccATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCt                                            <  1:3105886/60‑1 (MQ=255)

                         cccATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCt                                            <  1:1287100/60‑1 (MQ=255)

                         cccATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCt                                            <  1:2882076/60‑1 (MQ=255)

                         cccATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCt                                            <  1:3239927/60‑1 (MQ=255)

                         cccATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATAccc                                   <  1:2232037/69‑1 (MQ=255)

                         cccATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATAccc                                   <  1:2829812/69‑1 (MQ=255)

                             tcatTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCt                               >  1:2239441/1‑69 (MQ=255)

                             tcatTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCt                               >  1:3569281/1‑69 (MQ=255)

                             tcatTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCt                               >  1:1852061/1‑69 (MQ=255)

                             tcatAAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATc                                >  1:3657483/1‑68 (MQ=255)

                               atTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:972595/56‑1 (MQ=255)

                               atTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCt                               <  1:2632697/67‑1 (MQ=255)

                               atTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCt                               <  1:143456/67‑1 (MQ=255)

                               atTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCt                               >  1:373790/1‑67 (MQ=255)

                               atTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCt                               <  1:1603831/67‑1 (MQ=255)

                               atTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGa                             >  1:881356/1‑69 (MQ=255)

                               atTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGa                             >  1:316494/1‑69 (MQ=255)

                                 tAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGAcc                           >  1:553431/1‑69 (MQ=255)

                                 tAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGAcc                           >  1:2138343/1‑69 (MQ=255)

                                  aaaGCGATGGCACCGAACAGCATGCCCAATGAACTGatttta                                                     >  1:121694/1‑42 (MQ=255)

                                  aaaGCGATGGCACCGAACAGCATGCCCAATGAACTGatttta                                                     >  1:2975270/1‑42 (MQ=255)

                                  aaaGCGATGGCACCGAACAGCATGCCCAATGAACTGatttta                                                     >  1:3462947/1‑42 (MQ=255)

                                  aaaGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:1144089/53‑1 (MQ=255)

                                  aaaGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCt                               >  1:1181008/1‑64 (MQ=255)

                                  aaaGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTg                              <  1:728637/65‑1 (MQ=255)

                                  aaaGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTg                              >  1:3426301/1‑65 (MQ=255)

                                          ggCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAg                  >  1:3151172/1‑69 (MQ=255)

                                          ggCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAg                  >  1:2730537/1‑69 (MQ=255)

                                          ggCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAg                  >  1:3212836/1‑69 (MQ=255)

                                          ggCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAg                  >  1:2371312/1‑69 (MQ=255)

                                             aCCGAACAGCATGTCCAATGAACTGATTTTATTTTg                                                <  1:1535760/36‑1 (MQ=255)

                                             aCCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCg                <  1:2304548/68‑1 (MQ=255)

                                             aCCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCg                <  1:3465123/68‑1 (MQ=255)

                                             aCCGAACAGCATGCCCAATGAACTGATTATATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCg                <  1:3353999/68‑1 (MQ=255)

                                             aCCGAACAGCATGCCCAATGAACTGATTATATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCg                <  1:3358338/68‑1 (MQ=255)

                                              ccGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCAt                                 >  1:87181/1‑50 (MQ=255)

                                              ccGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCAt                                 >  1:2017371/1‑50 (MQ=255)

                                              ccGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCg                <  1:2582939/67‑1 (MQ=255)

                                                gAACAGTATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGAt             >  1:477934/1‑68 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:2478120/39‑1 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:2638098/39‑1 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:223677/39‑1 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          >  1:41233/1‑39 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          >  1:3680749/1‑39 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          >  1:3149061/1‑39 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:3017908/39‑1 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGAt             >  1:15978/1‑68 (MQ=255)

                                                gAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACATCCTTGTAGCGGAt             >  1:190951/1‑68 (MQ=255)

                                                 aaCAGCATGTCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGATg            >  1:3103418/1‑68 (MQ=255)

                                                 aaCAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:1834435/38‑1 (MQ=255)

                                                 aaCAGCATGCCCAATGAACTGATTTTATTTTGAGCTAt                                          <  1:1849883/38‑1 (MQ=255)

                                                 aaCAGCATGCCCAATGAACTGA‑TTTATTTTGAGCTAt                                          <  1:630629/37‑1 (MQ=38)

                                                       aTGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGATGGCAAAAg     <  1:856530/69‑1 (MQ=255)

                                                         gCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTACCGGATGGCAAAAGCa   <  1:3342196/69‑1 (MQ=255)

                                                          cccAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGATGGCAAAAGCat  >  1:2101414/1‑69 (MQ=255)

                                                          cccAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGATGGCAAAAGCat  <  1:2536834/69‑1 (MQ=255)

                                                          cccAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGATGGCAAAAGCat  <  1:1993649/69‑1 (MQ=255)

AGGGCCGAATGAAAAGTGGATAATCCCCATCATTAAAGCGATGGCACCGAACAGCATGCCCAATGAACTGATTTTATTTTGAGCTATGATACCCATCTGACCTCCTTGTAGCGGATGGCAAAAGCAT  >  W3110S.gb/3783907‑3784033

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