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
A7 F1 I2 R1	94	59.5	3027142	91.9%	2781943	108.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,893,102	G→A	A45V (GCA→GTA)	yoaA ←	putative ATP‑dependent helicase, DinG family

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,893,102	0	G	A	94.1%	110.1 / ‑0.4	34	coding (134/1911 nt)	yoaA	putative ATP‑dependent helicase, DinG family
Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (14/18); minor base . (1/1); total (15/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.67e-01

TTGAGACTGTTGGCAAATCGCGGCTGTAGAGCTGATCCTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTGCTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGCAAAATCGTCCGTCACA  >  NC_000913/1892971‑1893236

ttGAGACTGTTGGCAAATCGCGGCTGTAGAGCTGATCCTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTccac                                                                                                                                 >  1:517488/1‑139 (MQ=255)

    gaCTGTTGGCAAATCGCGGCTGTAGAGCTGATCCTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTccaccacc                                                                                                                             <  2:373357/139‑1 (MQ=255)

                   gcgGCTGTAGAGCTGATCCTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCtttt                                                                                                              >  1:10886/1‑139 (MQ=255)

                     ggCTGTAGAGCTGATCCTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTc                                                                                                            <  2:474054/139‑1 (MQ=255)

                           agagCTGATCCTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGc                                                                                                      <  1:1192747/139‑1 (MQ=255)

                                 gATCCTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTCCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGt                                                                                                <  2:942548/139‑1 (MQ=255)

                                    ccTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGAc                                                                                             >  2:219791/1‑139 (MQ=255)

                                       gCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTa                                                                                                          <  1:19235/123‑1 (MQ=255)

                                       gCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTa                                                                                                          >  2:19235/1‑123 (MQ=255)

                                        cAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCt                                                                                         <  1:461661/139‑1 (MQ=255)

                                            gCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCg                                                                                     >  1:860272/1‑139 (MQ=255)

                                                   aGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTg                                                                              <  1:728762/139‑1 (MQ=255)

                                                             gaTAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTgg                                                                                                                    >  1:65892/1‑91 (MQ=255)

                                                             gaTAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTgg                                                                                                                    <  2:65892/91‑1 (MQ=255)

                                                                          tttttCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCgg                                                                                                                        >  1:606629/1‑74 (MQ=255)

                                                                          tttttCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCgg                                                                                                                        <  2:606629/74‑1 (MQ=255)

                                                                               cGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCt                                                                                                                 <  2:749879/76‑1 (MQ=255)

                                                                               cGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCt                                                                                                                 >  1:749879/1‑76 (MQ=255)

                                                                                    gcagcgcagGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTccaccacc                                                                                                                             >  1:647750/1‑59 (MQ=255)

                                                                                    gcagcgcagGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTACTTccaccacc                                                                                                                             <  2:647750/59‑1 (MQ=255)

                                                                                                         cGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTc                        <  1:219791/139‑1 (MQ=255)

                                                                                                         cGTAGGTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTCTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTc                        <  1:955585/139‑1 (MQ=255)

                                                                                                             ggTTTTGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGt                    >  1:1028591/1‑139 (MQ=255)

                                                                                                              gTTTTGCCCGTACCGGTTCCT‑CTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGc                  >  1:704662/1‑139 (MQ=255)

                                                                                                                  tGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGa                                                                                              <  1:85237/60‑1 (MQ=255)

                                                                                                                  tGCCCGTACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGa                                                                                              >  2:85237/1‑60 (MQ=255)

                                                                                                                        tACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATc                                                                                <  2:572642/68‑1 (MQ=255)

                                                                                                                        tACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATc                                                                                >  1:572642/1‑68 (MQ=255)

                                                                                                                        tACCGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGCAAAATcgtc         >  1:1215493/1‑139 (MQ=255)

                                                                                                                          ccGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGCAAAATcgtccg       <  2:860272/139‑1 (MQ=255)

                                                                                                                           cGGTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGCAAAATcgtccgt      <  2:10886/139‑1 (MQ=255)

                                                                                                                            ggTTCCT‑CTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGCAAAATCGTCCGTca    <  2:704662/139‑1 (MQ=255)

                                                                                                                             gTTCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGCAAAATCGTCCGTca    >  2:201999/1‑139 (MQ=255)

                                                                                                                               tCCTACTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGCAAAATCGTCCGTcaca  <  1:859078/139‑1 (MQ=255)

TTGAGACTGTTGGCAAATCGCGGCTGTAGAGCTGATCCTGCAACGCTTTTGAGCCGGTCGAGATAATGACTTTCTTTTTCGCCCGCAGCGCAGGAGCCAGGTAAGCGTAGGTTTTGCCCGTACCGGTTCCTGCTTCCACCACCAGCGGCTGGCCTTTTTCTATCGCCTGGGTGACGGCTACCGCCATCTGTCGCTGTGGTTCTCGCGGCTTAAAGCCTGGTATCGCTTTCGCCAGCTGACCGTCTGGTGCAAAATCGTCCGTCACA  >  NC_000913/1892971‑1893236

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A