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 F8 I0 R2	422	46.8	3726540	94.7%	3529033	61.7

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	W3110S.gb	4,271,811	A→G	87.9%	Y369C (TAT→TGT)	tyrB →	tyrosine aminotransferase, tyrosine‑repressible, PLP‑dependent

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	4,271,811	0	A	G	87.9%	164.5 / 11.9	58	Y369C (TAT→TGT)	tyrB	tyrosine aminotransferase, tyrosine‑repressible, PLP‑dependent
Reads supporting (aligned to +/- strand): ref base A (4/3); new base G (25/26); total (29/29)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.93e-01

TGTTCAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTATCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACGTGTGGCAA  >  W3110S.gb/4271748‑4271876

tGTTCAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGtgtctgtc                                                                 <  1:1135659/66‑1 (MQ=255)

tGTTCAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGtgtctgtc                                                                 <  1:1408720/66‑1 (MQ=255)

tGTTCAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGtgtctgtc                                                                 <  1:141800/66‑1 (MQ=255)

  ttCAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTATCTCATCGc                                                          >  1:3416505/1‑71 (MQ=255)

    cAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGc                                                          >  1:2214544/1‑69 (MQ=255)

    cAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGc                                                          >  1:2210380/1‑69 (MQ=255)

    cAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGc                                                          >  1:1483865/1‑69 (MQ=255)

    cAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGc                                                          >  1:2077040/1‑69 (MQ=255)

       ttATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCg                                                     <  1:1954172/71‑1 (MQ=255)

       ttATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCg                                                     >  1:2708308/1‑71 (MQ=255)

        tataCCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCgg                                                    >  1:2953687/1‑71 (MQ=255)

        tataCCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTATCTCATCGCCAGCgg                                                    >  1:3155376/1‑71 (MQ=255)

         ataCCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGt                                                   >  1:1453238/1‑71 (MQ=255)

         ataCCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGt                                                   >  1:1386866/1‑71 (MQ=255)

         ataCCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGt                                                   >  1:2255659/1‑71 (MQ=255)

         ataCCGGTTTAAGTGCCGCTCAGGTTGACAGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGt                                                   >  1:3310354/1‑71 (MQ=255)

            ccGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCg                                                 >  1:2385047/1‑70 (MQ=255)

            ccGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCg                                                 >  1:3503849/1‑70 (MQ=255)

            ccGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCg                                                 <  1:3066275/70‑1 (MQ=255)

            ccGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTATCTCATCGCCAGCGGTCGc                                                <  1:3365582/71‑1 (MQ=255)

            ccGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTATCTCATCGCCAGCGGTCGc                                                <  1:219155/71‑1 (MQ=255)

            ccGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTATCTCATCGCCAGCGGTCGc                                                <  1:2739846/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:2333265/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:1072829/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:2517014/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:255170/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:2940618/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:264440/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:445932/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:526279/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:1621329/71‑1 (MQ=255)

             cGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               <  1:708329/71‑1 (MQ=255)

                  tAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtgtgt                                          >  1:531459/1‑71 (MQ=255)

                   aaGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtgtgt                                          <  1:1600179/70‑1 (MQ=255)

                          gCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCa                                               >  1:773953/1‑58 (MQ=255)

                             cAGGTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGt                                >  1:1452611/1‑70 (MQ=255)

                                gTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtg                                             <  1:3682149/54‑1 (MQ=255)

                                gTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTaaa                            <  1:3388080/71‑1 (MQ=255)

                                gTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTaaa                            <  1:2924006/71‑1 (MQ=255)

                                gTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTaaa                            <  1:906419/71‑1 (MQ=255)

                                gTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTaaa                            <  1:1653913/71‑1 (MQ=255)

                                gTTGACCGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTAGCCGGGTTaaa                            <  1:1977686/71‑1 (MQ=255)

                                gTTGACCGACTACCTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTaaa                            <  1:1217172/71‑1 (MQ=255)

                                     ccGACTACGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATAc                         >  1:2379266/1‑69 (MQ=255)

                                            cGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtg                                             >  1:60190/1‑42 (MQ=255)

                                            cGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtg                                             >  1:1508399/1‑42 (MQ=255)

                                            cGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtg                                             >  1:492379/1‑42 (MQ=255)

                                            cGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtg                                             >  1:2158477/1‑42 (MQ=255)

                                            cGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtg                                             >  1:3114168/1‑42 (MQ=255)

                                            cGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtg                                             >  1:847000/1‑42 (MQ=255)

                                            cGTGAAGAATTTGGTGTCTGTCTCATCGCCAGCGGTCGCAtg                                             >  1:1073343/1‑42 (MQ=255)

                                               gaagaaTTTGGTGTCTATCTCATCGCCAGCGGTCGCAtg                                             >  1:831583/1‑39 (MQ=255)

                                               gaagaaTTTGGTGTCTATCTCATCGCCAGCGGTCGCAtg                                             >  1:2737731/1‑39 (MQ=255)

                                                  gaaTTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACg          <  1:1765689/71‑1 (MQ=255)

                                                  gaaTTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACg          <  1:1672044/71‑1 (MQ=255)

                                                  gaaTTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACg          <  1:505046/71‑1 (MQ=255)

                                                   aaTTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACgt         <  1:2011645/71‑1 (MQ=255)

                                                   aaTTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACgt         <  1:2296824/71‑1 (MQ=255)

                                                    aTTTGGTGTCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACgt         <  1:392908/70‑1 (MQ=255)

                                                         gtgtCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCaaa                   >  1:2048498/1‑55 (MQ=255)

                                                         gtgtCTGTCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCaaa                   >  1:3400183/1‑55 (MQ=255)

                                                          tgtctgtcTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCa                     <  1:3672729/52‑1 (MQ=255)

                                                          tgtctgtcTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCa                     <  1:3631273/52‑1 (MQ=255)

                                                          tgtctgtcTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCa                     <  1:2463106/52‑1 (MQ=255)

                                                          tgtctgtcTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCa                     <  1:2635808/52‑1 (MQ=255)

                                                          tgtctgtcTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACGTGTGGCaa  <  1:1450310/71‑1 (MQ=255)

                                                          tgtctgtcTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACGTGTGGCaa  <  1:2132438/71‑1 (MQ=255)

TGTTCAGTTATACCGGTTTAAGTGCCGCTCAGGTTGACCGACTACGTGAAGAATTTGGTGTCTATCTCATCGCCAGCGGTCGCATGTGTGTCGCCGGGTTAAATACGGCAAATGTACAACGTGTGGCAA  >  W3110S.gb/4271748‑4271876

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