Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	AE015451	196,759	T→C	19.9%	T755T (ACT→ACC)	PP_0168 →	putative surface adhesion protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	AE015451	196,759	0	T	C	19.9%	51.7 / 5.9	32	T755T (ACT→ACC)	PP_0168	putative surface adhesion protein
Reads supporting (aligned to +/- strand):  ref base T (11/13);  new base C (4/2);  total (17/15)
Fisher's exact test for biased strand distribution p-value = 6.51e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.61e-01

GATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCG  >  AE015451/196579‑196967                                                                                                                                                                                     |                                                                                                                                                                                                                 gATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCg                                                                                                                                                                           <  2:421757/220‑1 (MQ=255)             cGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACCCCACTgg                                                                                                                                                                                                                >  1:211794/1‑171 (MQ=14)                  cccTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACAGGCGGCAACTTCGaa                                                                                                                                                                                                   >  1:334967/1‑179 (MQ=17)                                         ccGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGCATGACGTCTACAACAACGGTTCGACCGTCAACGTCACCATCGAGAACGCCACCggcggc                                                                                                                                                                                                            >  2:7796/1‑147 (MQ=2)                                              gACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGt                                                                                                              >  1:181506/1‑236 (MQ=255)                                                                  gCCAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACGGGCGGCAACTTCGAACATCTGACCCCGAATCCGACCCCCGCCCCGACCGCCATCAATGACt                                                                                                                                                     >  1:167608/1‑177 (MQ=11)                                                                        ccATCACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACCGGCGGCAACTTCGAACAGCTGACCCCGAACCCg                                                                                                                                                                                 <  1:476038/143‑1 (MQ=17)                                                                                    aaGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACCGGCGGCAACTTCGAACAGCTGAcc                                                                                                                                                                                          <  2:130026/122‑1 (MQ=17)                                                                                    aaGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACCGGCGGCAACTTCGAACAGCTGAcc                                                                                                                                                                                          >  1:130030/1‑122 (MQ=21)                                                                                    aaGCCGGCAAGACCCAGGGCAGCGTCGATTCCCAGGCCCCGGCGAATGACGTCTACAACAACGGTTCGGCCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCGCCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAggcg                                                                                               <  1:78203/213‑1 (MQ=19)                                                                                      gCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACCACAACGGTTCGACCGTCAGCGTCACCCTCGAGAACGCCACCGGCGGCACCTTCg                                                                                                                                                                                                     >  2:50472/1‑109 (MQ=11)                                                                                            aaGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACCGGCGGCAACTTCGAACAACTGACCCCGAACCCGACCCCGGCt                                                                                                                                                                        >  2:130825/1‑132 (MQ=12)                                                                                                        aGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTGATCACTTACACCGTGACCCTGAGCAATCCTGCCCa                                                       <  2:181502/233‑1 (MQ=18)                                                                                                        aGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGCCGGTCACCGAAGGCGGCGTAATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGa                                                     >  1:320099/1‑235 (MQ=18)                                                                                                             cGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACtt                                                                                                                                                                                                       <  2:168711/84‑1 (MQ=38)                                                                                                             cGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGa                                                                                                                                                                                <  1:323752/107‑1 (MQ=38)                                                                                                                             gCGAATGACGTCTACAACAACATTTCGAACGTCAGCGTCACCATCGAGAACGCCACTgg                                                                                                                                                                                                                <  2:220167/59‑1 (MQ=11)                                                                                                                              cGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCg                                                                                                                                                                           <  1:170332/95‑1 (MQ=35)                                                                                                                              cGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCg                                                                                                                                                                           >  2:170328/1‑95 (MQ=37)                                                                                                                                                 cGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCAcc                                                                                                      >  1:184786/1‑145 (MQ=32)                                                                                                                                                   gctCGACCGTCAGCGTCACCATCGAGAGCGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGACGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTAATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCa                 >  1:390746/3‑228 (MQ=14)                                                                                                                                                         ccGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAGCAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGt                                                                                           <  2:406057/148‑1 (MQ=17)                                                                                                                                                         ccGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCg                                                >  1:6908/1‑191 (MQ=33)                                                                                                                                                          agagacagTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCg  <  1:151396/229‑1 (MQ=25)                                                                                                                                                            tCAGCGTTACCATCGAGAACGCCGCTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGTCTCGGTCAATGCCACCACCGCGACCCTGACGGCGAGcc                                                                                                                 <  2:230534/123‑1 (MQ=255)                                                                                                                                                                      cATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCggc                                                                                                          >  1:72974/1‑119 (MQ=17)                                                                                                                                                                            gaACGCCACTGGCGGCAACTTCGAGCAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTAATCAc                                                                                     <  1:150097/135‑1 (MQ=16)                                                                                                                                                                            gaACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTAATCAc                                                                                     >  2:150093/1‑135 (MQ=18)                                                                                                                                                                             cgcGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGACGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAAc                           <  2:230905/190‑1 (MQ=18)                                                                                                                                                                                gCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGt                                                                                           >  2:151392/1‑125 (MQ=33)                                                                                                                                                                                  cACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGACACCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCg  >  2:138286/1‑212 (MQ=17)                                                                                                                                                                                  cACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGACACCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCg  <  1:138290/212‑1 (MQ=18)                                                                                                                                                                                     |                                                                                                                                                                                                                 GATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCGGCAAGACCCAGGGCAGCGTCGATTTCCAGACCCCGGCGAATGACGTCTACAACAACGGTTCGACCGTCAGCGTCACCATCGAGAACGCCACTGGCGGCAACTTCGAACAGCTGACCCCGAACCCGACGCCGGCTCAGACCACGATCAACGACTCGGTCGATGCCACCACCGCGACCCTGACGGCGAGCCCGTCGGTCACCGAAGGCGGCGTGATCACCTACACCGTGACCCTGAGCAATCCTGCCCAGACGCCGGTGACAGTGACCCTGTCCAACGGCCAAACCATTACCGTTGAAGCCG  >  AE015451/196579‑196967

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑