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
A24 F66 I1 R1	37	65.5	2715618	95.2%	2585268	125.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	BS168_reference_genome	2,373,376	C→A	R44L (CGT→CTT)	trpB ←	tryptophan synthase (beta subunit)

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	BS168_reference_genome	2,373,376	0	C	A	95.9%	156.0 / ‑0.9	49	R44L (CGT→CTT)	trpB	tryptophan synthase (beta subunit)
Reads supporting (aligned to +/- strand): ref base C (0/2); new base A (24/23); total (24/25)
Fisher's exact test for biased strand distribution p-value = 4.90e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.18e-01

TATGGTTTAAATCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCACGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGATACATATCG  >  BS168_reference_genome/2373251‑2373510

tATGGTTTAAATCTTCTCGTTTCAATTAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGat                                                                                                                            <  2:164902/138‑1 (MQ=255)

tATGGTTTAAATCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCACGAAAAGCGGGat                                                                                                                            <  7:243784/138‑1 (MQ=255)

tATGGTTTAAATCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGat                                                                                                                            <  7:321827/138‑1 (MQ=255)

     tttAAATCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCt                                                                                                                      >  6:220246/1‑139 (MQ=255)

        aaaTCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGa                                                                                                                   >  3:57399/1‑139 (MQ=255)

          aTCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGAtt                                                                                                                 >  4:33507/1‑139 (MQ=255)

          aTCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGAtt                                                                                                                 <  4:148986/139‑1 (MQ=255)

          aTCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGGAAGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCACGAAAAGCGGGATCATCCTTGAtt                                                                                                                 <  5:185167/139‑1 (MQ=255)

               ctcGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGat                                                                                                                            <  4:170841/123‑1 (MQ=255)

               ctcGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGat                                                                                                                            >  3:170841/1‑123 (MQ=255)

                     tCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATg                                                                                                       <  2:273240/138‑1 (MQ=255)

                                 tCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTAttt                                                                                           <  3:33507/138‑1 (MQ=255)

                                        gccTCAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCTGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTTTTTCATCTAAc                                                                                   <  4:76888/139‑1 (MQ=255)

                                                    aGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAATTGGTGTTTGTATTTATTCTAACGGCTGCAGGAgt                                                                       >  5:225626/1‑139 (MQ=255)

                                                         cTCGATCCGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTc                                                                  <  6:313234/139‑1 (MQ=255)

                                                                            tGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGcc                                                >  3:224685/1‑138 (MQ=255)

                                                                            tGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGcc                                                >  1:7758/1‑138 (MQ=255)

                                                                                 tCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAAt                                           >  8:12580/1‑138 (MQ=255)

                                                                                 tCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATc                                          >  8:39003/1‑139 (MQ=255)

                                                                                   gggCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCAc                                        <  3:231407/139‑1 (MQ=255)

                                                                                                  tCCTTTAACAGCTTATAATTCTCTTCAAGAAAAGCTGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTATCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTAtt                          >  8:34322/1‑138 (MQ=255)

                                                                                                  tCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTAttt                         >  6:276714/1‑139 (MQ=255)

                                                                                                  tCCTTTAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTAttt                         >  1:70246/1‑139 (MQ=255)

                                                                                                       tAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGc                               >  4:2913/1‑128 (MQ=255)

                                                                                                       tAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGc                               <  3:2913/128‑1 (MQ=255)

                                                                                                       tAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCAtt                     <  2:70246/138‑1 (MQ=255)

                                                                                                       tAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCAtt                     <  6:335931/138‑1 (MQ=255)

                                                                                                       tAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCAtt                     <  3:318987/138‑1 (MQ=255)

                                                                                                       tAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCAtt                     <  5:220246/138‑1 (MQ=255)

                                                                                                       tAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTc                    >  4:228280/1‑139 (MQ=255)

                                                                                                       tAACAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTc                    >  8:186660/1‑139 (MQ=255)

                                                                                                          cAGCTTATAATACTCTTCCAGAAAAGCGGGATCATCCTTGATTTGTTTAAAATCAGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATATGCCTATTTCATTCGGa                 <  2:6066/139‑1 (MQ=255)

                                                                                                          cAGCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGa                 <  5:276714/139‑1 (MQ=255)

                                                                                                            gCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGata               <  3:228280/139‑1 (MQ=255)

                                                                                                            gCTTATAATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGata               >  8:116439/1‑139 (MQ=255)

                                                                                                               tataATACTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATg             >  3:167137/1‑138 (MQ=255)

                                                                                                                ataataCTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGa           >  2:216302/1‑139 (MQ=255)

                                                                                                                 taataCTCTTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGa           <  7:277630/138‑1 (MQ=255)

                                                                                                                       tctTCAAGAATAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAGAATCACCGTATCTGc                               <  8:295833/112‑1 (MQ=255)

                                                                                                                       tctTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGc                               >  6:15483/1‑112 (MQ=255)

                                                                                                                       tctTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGc                               <  5:15483/112‑1 (MQ=255)

                                                                                                                       tctTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGa           >  7:242970/1‑132 (MQ=255)

                                                                                                                       tctTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGa           <  8:242970/132‑1 (MQ=255)

                                                                                                                       tctTCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGATACatat    >  3:30194/1‑139 (MQ=255)

                                                                                                                       tctTCAAGAAAAGCGGGAACATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAGAATCACCGTATCTGc                               >  7:295833/1‑112 (MQ=255)

                                                                                                                         ttCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGAt          >  2:238289/1‑131 (MQ=255)

                                                                                                                         ttCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGATACatat    <  4:224685/137‑1 (MQ=255)

                                                                                                                         ttCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGATACATATCg  >  1:103621/1‑139 (MQ=255)

                                                                                                                         ttCAAGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGGTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGAt          <  1:238289/131‑1 (MQ=255)

TATGGTTTAAATCTTCTCGTTTCAAATAGATTTTCGCGCCGCCTAAGTATTCAGTGACTCGATCAGCGTATGTTAATGCAGTCGGGCGTCCGGAATAGTCCTTTAACAGCTTATAATACTCTTCACGAAAAGCGGGATCATCCTTGATTTGTTTAAATGCTGTTTGTATTTCATCTAACGGCTGCATGAGTGTTTCCGGAACAAACTTTCCGCCAAAATCACCGTATCTGCCTATTTCATTCGGATATGGATACATATCG  >  BS168_reference_genome/2373251‑2373510

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 14 ≤` `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