New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_007779	= 3746805	30 (0.160)	4 (0.020) +CATTATCGAGTTTTGCCTGCTGGTG	4/350	NT	23.4%	pseudogene (104/375 nt)	Y75_RS18580	tryptophan permease
	?	NC_007779	= 3746914	0 (0.000)					intergenic (‑6/‑29)	Y75_RS18580/Y75_RS18585	tryptophan permease/IS5‑like element IS5 family transposase

GCACTGCGGGAATAATGACCGCCCAGATGGTGGCGCACAGCCCGG‑CACCGCCGATCCCGTAAATAAAGCCGTTCGGGAAGATCAGATACAACAACGCAGGTGGCAGGAAGGTTAACAGCACGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_007779/3746683‑3746805 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTCCCTAACTTAGCTGTTGCCAGTTCGTTCTTTGGTGTCACGCTGGGGTTGTTCGATTATCTGGCGGACCTGTTTAAGATTGATAACTCCCACGGCGGGCG  <  NC_007779/3746914‑3746814                                                                                                                             |||||||||||||||||||||||||                                                                                                      gcaggGCGGAAATAAGGCCCGCCCGGGGGGTGGCGCA‑AGCCCGGACACCGCCGATCCCGTAAATAAAGCCGTTCGGGAAGATCAGATACAACAACGCAGGTGGCAGGAAGGTTAACAGCACGGCATTATCGAGTTTTGCCTGCTGGTGTTCTCTAACTTAGCTGTTGCCAGTTCGTTCTTTGGTGTCACGCTGGGGTTGTTCGATTATCTGGCGGACCTGTTTAAGATTGATAACTCC             <  2:2077236/233‑1           AATAATGACCGCCCAGATGGTGGCGCACAGCCCGG‑CACCGCCGATCCCGTAAATAAAGCAGTTCGGGAAGATCAGATACAACAACGCAGGTGGCAGGAAGGTTAACAGCACGGCATTATCGAGTTTTGACTGCTGGTGATCTCTAACTTAGCTGTTGCCAGTTCGTTCTTTGGTGTCACGCTGGGGTTGTTCGATTATCTGGCGGACCTGTTTAAGATTGATAACTCCCACGGCGGGtg  >  1:2077236/1‑237                                                            GTAAATAAAGCCGTTCGGGAAGATCAGATACAACAACGCAGGTGGCAGGAAGGTTAACAGCACGGCATTATCGAGTTTTGCCTGCTGGTGTTCTCTAACTTAGCTGTTGCCAGTTCGTTCTTTGGTGTCACGCTGGGGTTGTTCGATTATCTGGCGGACCTGTTTAAGATTGATAACTCCCACGGCGGG    <  1:337338/189‑1                                                            GTAAATAAAGCCGTTCGGGAAGATCAGATACAACAACGCAGGTGGCAGGAAGGTTAACAGCACGGCATTATCGAGTTTTGCCTGCTGGTGTTCTCTAACTTAGCTGTTGCCAGTTCGTTCTTTGGTGTCACGCTGGGGTTGTTCGATTATCTGGCGGACCTGTTTAAGATTGATAACTCCCACGGCGGG    >  2:337338/1‑189                                                                                                                             |||||||||||||||||||||||||                                                                                                      GCACTGCGGGAATAATGACCGCCCAGATGGTGGCGCACAGCCCGG‑CACCGCCGATCCCGTAAATAAAGCCGTTCGGGAAGATCAGATACAACAACGCAGGTGGCAGGAAGGTTAACAGCACGG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_007779/3746683‑3746805 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTCCCTAACTTAGCTGTTGCCAGTTCGTTCTTTGGTGTCACGCTGGGGTTGTTCGATTATCTGGCGGACCTGTTTAAGATTGATAACTCCCACGGCGGGCG  <  NC_007779/3746914‑3746814

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.