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	2,881,281	T→C	41.4%	T262T (ACA→ACG)	ytfG ←	NAD(P)H:quinone oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	minE	2,881,281	0	T	C	41.4%	22.0 / 50.3	70	T262T (ACA→ACG)	ytfG	NAD(P)H:quinone oxidoreductase
Reads supporting (aligned to +/- strand): ref base T (17/24); new base C (9/20); total (26/44)
Fisher's exact test for biased strand distribution p-value = 4.55e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCCAACGTCAGAATCCGCCAGCAT  >  minE/2881215‑2881340

aaCATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAgtgt                                                           >  1:1266355/1‑69 (MQ=255)

aaCATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAgtgt                                                           >  1:2483372/1‑69 (MQ=255)

aaCATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAgtgt                                                           >  1:1964758/1‑69 (MQ=255)

aaCATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAgtgt                                                           >  1:3434820/1‑69 (MQ=255)

aaCATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAgtgt                                                           >  1:3234526/1‑69 (MQ=255)

aaCATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAgtgt                                                           >  1:1539446/1‑69 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:3115603/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:2243208/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:2256125/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:2538848/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:2543927/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     >  1:2652233/1‑69 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     >  1:2829744/1‑69 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:2833647/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:2902255/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     >  1:1240370/1‑69 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     >  1:3283921/1‑69 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:84750/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     >  1:873588/1‑69 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:910367/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     >  1:967269/1‑69 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:992590/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:1657006/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     >  1:1519622/1‑69 (MQ=255)

      aaaaaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTACTAAGTGTTTTGCt                                                     <  1:1423000/69‑1 (MQ=255)

      aaaaaGATGGCTTACGCGTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     >  1:639236/1‑69 (MQ=255)

         aaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGt                                                   <  1:2426176/68‑1 (MQ=255)

         aaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGt                                                   <  1:3177228/68‑1 (MQ=255)

         aaGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGt                                                   <  1:1285777/68‑1 (MQ=255)

            aTGGCTTACGCTTTCGGCTAACGTTGACGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGt                                                   <  1:3038188/65‑1 (MQ=255)

             tGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGtcatca                                              >  1:1327316/1‑69 (MQ=255)

             tGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGtcatca                                              >  1:3189002/1‑69 (MQ=255)

               gCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCt                                                     <  1:2611303/60‑1 (MQ=255)

                 ttACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACa                                          <  1:2101019/69‑1 (MQ=255)

                 ttACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACa                                          <  1:557123/69‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:1435135/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:3062822/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:163399/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:2957210/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:3247463/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:3059897/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:575424/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:952473/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:1006005/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:2145921/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:2205630/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:2206490/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:2825308/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:2716951/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:229318/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:1935271/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:2601532/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:2032113/67‑1 (MQ=255)

                     gCTTTCGGCTAACGTTCTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:3243289/67‑1 (MQ=255)

                                    tGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       <  1:1776959/69‑1 (MQ=255)

                                    tGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       <  1:756782/69‑1 (MQ=255)

                                    tGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       <  1:568035/69‑1 (MQ=255)

                                    tGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       <  1:289223/69‑1 (MQ=255)

                                    tGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       <  1:3138485/69‑1 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:3097512/1‑69 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:1848569/1‑69 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:2224804/1‑69 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:2103427/1‑69 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:2454034/1‑69 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:2507691/1‑69 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:3294191/1‑69 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:1441300/1‑69 (MQ=255)

                                    tGTCGTTGGGCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGcc                       >  1:3194786/1‑69 (MQ=255)

                                           gggCGGCCAATCAATTTGCTAAGCGTTTTGCTGTCATCAAACAGa                                        <  1:949319/45‑1 (MQ=255)

                                                      caatTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGCTgc                          >  1:1964501/1‑48 (MQ=255)

                                                      caatTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCCAACGTCAGAATCCGCCAg     >  1:2077592/1‑69 (MQ=255)

                                                      caatTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCCAACGTCAGAATCCGCCAg     >  1:1384845/1‑69 (MQ=255)

                                                      caatTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCCAACGTCAGAATCCGCCAg     >  1:893914/1‑69 (MQ=255)

                                                      caatTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCCAACGTCAGAATCCGCCAg     >  1:2986974/1‑69 (MQ=255)

                                                      caatTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCCAACGTCAGAATCCGCCAg     >  1:2563466/1‑69 (MQ=255)

                                                         tttGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCCAACGTCAGAATCCGCCAGCat  >  1:2102937/1‑69 (MQ=255)

AACATTAAAAAGATGGCTTACGCTTTCGGCTAACGTTGTCGTTGGGTGGCCAATCAATTTGCTAAGTGTTTTGCTGTCATCAAACAGACCGCCTTTCGATGCGCCAACGTCAGAATCCGCCAGCAT  >  minE/2881215‑2881340

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