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
A4 F28 I1 R1	159	82.1	2830106	99.3%	2810295	139.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,870,797	T→C	S170G (AGC→GGC)	truD ←	tRNA pseudouridine(13) synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,870,797	0	T	C	100.0%	123.5 / NA	39	S170G (AGC→GGC)	truD	tRNA pseudouridine(13) synthase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (16/23); total (16/23)

TCTGCTTTTTTGAGGCGCTCAGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCTACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAACCAGGGTAAAGGCGTT  >  NC_000913/2870661‑2870920

tCTGCTTTTTTGAGGCGCTCAGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCAcc                                                                                                                          >  2:247100/1‑140 (MQ=255)

  tGCTTTTTTGAGGCGCTCAGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAACCTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGc                                                                                                                        <  2:1075138/140‑1 (MQ=255)

   gCTTTTTTGAGGCGCTCAGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGcc                                                                                                                       <  1:525649/140‑1 (MQ=255)

   gCTTTTTTGAGGCGCTCAGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGcc                                                                                                                       <  1:474002/140‑1 (MQ=255)

       ttttGAGGCGCTCAGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATc                                                                                                                   <  1:1379890/140‑1 (MQ=255)

              gcgcTCAGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAAc                                                                                                            >  2:1360970/1‑140 (MQ=255)

                    aGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCCCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTggg                                                                                                      <  1:696313/140‑1 (MQ=255)

                      caacaaTCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCa                                                                                                    <  1:1141286/140‑1 (MQ=255)

                       accaaTCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAGCTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCAc                                                                                                   <  1:402766/138‑1 (MQ=255)

                       aacaaTCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCAc                                                                                                   <  1:1360970/140‑1 (MQ=255)

                            tCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAag                                                                                              >  2:456669/1‑140 (MQ=255)

                                               gCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTa                                                                           >  2:993843/1‑140 (MQ=255)

                                               gCGGGCTCCGGACAACCAAAAACCCCGTTTATTGCGTTCCCACCCCGGATTATTGGTTGCCGCCCCGCGCGGCGCCCCCGGCAAGTTGCCGCCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTa                                                                           <  2:262640/140‑1 (MQ=255)

                                                cGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTAc                                                                          >  2:1119846/1‑140 (MQ=255)

                                                      gCCGACAACCAAAAACCCCTTTTATTGCGACGGCGCACTGGAATATTGGTTGGCGCCCGGCGCTGCCCCCCCGGCAGTTTCCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAat                                                                    <  2:690962/140‑1 (MQ=255)

                                                        cGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAatat                                                                  <  1:993843/140‑1 (MQ=255)

                                                          aCAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCg                                                                >  1:690962/1‑140 (MQ=255)

                                                             aCCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATc                                                             <  1:456669/140‑1 (MQ=255)

                                                                aaaaaCTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGa                                                          <  1:247100/140‑1 (MQ=255)

                                                                  aaaCTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCCCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACg                                                        <  1:230765/140‑1 (MQ=255)

                                                                        cGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTc                                                  >  2:1216076/1‑140 (MQ=255)

                                                                         gTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGa                                                          <  2:1079193/131‑1 (MQ=255)

                                                                         gTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGa                                                          >  1:1079193/1‑131 (MQ=255)

                                                                         gTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCa                                                 >  2:533854/1‑140 (MQ=255)

                                                                                  gATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATcg                                        >  2:568424/1‑140 (MQ=255)

                                                                                              gAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACt                            <  1:658640/140‑1 (MQ=255)

                                                                                               ggTATGGGTTTGCCCCCGGCGCTGCCCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACtt                           <  2:866790/139‑1 (MQ=255)

                                                                                                      gTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAg                    >  1:292602/1‑140 (MQ=255)

                                                                                                         tGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAAc                 <  1:866146/140‑1 (MQ=255)

                                                                                                         tGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAAc                 <  1:748654/140‑1 (MQ=255)

                                                                                                         tGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAAc                 >  2:1178366/1‑140 (MQ=255)

                                                                                                         tGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAAc                 <  1:1216076/140‑1 (MQ=255)

                                                                                                         tGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAAc                 >  2:460178/1‑140 (MQ=255)

                                                                                                           cgcCCAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAACCa               >  1:641135/1‑140 (MQ=255)

                                                                                                             cccAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAAc                 >  2:857528/1‑136 (MQ=255)

                                                                                                             cccAGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAAc                 <  1:857528/136‑1 (MQ=255)

                                                                                                                aGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTcgcg                       >  1:863696/1‑127 (MQ=255)

                                                                                                                aGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTcgcg                       <  2:863696/127‑1 (MQ=255)

                                                                                                                aGCGCTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAACCAGGGTa          <  1:1178366/140‑1 (MQ=255)

                                                                                                                    cTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAACCAGGGTAAAgg      <  1:568424/140‑1 (MQ=255)

                                                                                                                    cTGCGCCCCCTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAACCAGGGTAAAgg      <  1:1119846/140‑1 (MQ=255)

                                                                                                                        ccccccTGCAAGTTGCCACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAACCAGGGTAAAGGCGtt  <  1:781349/139‑1 (MQ=255)

TCTGCTTTTTTGAGGCGCTCAGCAACAATCTGATTAAACAACGCACTGCGGGCTGCCGACAACCAAAAACTCCGTTTATTGCGATCGCGCACCGGAGTATTGGTTTGCGCCCAGCGCTGCGCCCCCTGCAAGTTGCTACCGCCAATCCCAAAACGTTGGGCACCGAAGTAGTTCGGTACACCTTTTACGCAAATATCGATCAGACGTTGTTCAACGTCATCGCGATTGCTCACTTCGCGCAGAACCAGGGTAAAGGCGTT  >  NC_000913/2870661‑2870920

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 15 ≤` `ATCG/ATCG` `< 22 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A