genome.fa.s2.2.7.7.80.10.50.1000.29.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: NW_018397255.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_44.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14367614

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  29  of  31  ( 3649 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13309613--13309683	13	5.9	12	76	20	60	69	0	0	30	0.89
13309625--13309769	29	4.9	29	68	16	91	64	0	2	32	1.10
13309612--13309678	19	3.5	19	78	13	66	67	0	0	32	0.91
13309499--13309683	20	10.7	17	62	24	50	65	1	1	31	1.09
13309729--13309910	23	7.8	23	68	24	107	65	0	1	32	1.07
13309539--13310195	336	2.0	319	91	7	1070	63	1	2	33	1.15
13310057--13310127	10	7.0	10	70	9	54	71	0	0	28	0.86
13310060--13310130	25	3.1	21	82	13	70	69	0	0	30	0.89
13310062--13310123	21	2.9	21	83	9	72	70	0	0	29	0.87
13309539--13310022	30	16.7	29	68	24	228	63	1	1	32	1.14
13310285--13310517	79	2.9	79	92	0	376	28	19	6	46	1.73
13310502--13310536	15	2.3	15	95	0	61	40	20	2	37	1.67
13315602--13315628	7	3.9	7	100	0	54	40	0	0	59	0.98
13319049--13319187	74	1.9	74	89	0	215	43	3	7	45	1.50
13332191--13332218	6	4.7	6	100	0	56	85	0	0	14	0.59
13333113--13333176	23	2.9	23	90	4	96	31	10	12	45	1.77
13333108--13333184	23	3.7	20	78	11	82	33	9	12	44	1.75
13333477--13333532	15	3.8	15	76	4	51	35	12	23	28	1.91
13333733--13333798	15	4.1	15	73	19	53	30	6	1	62	1.29
13333749--13333822	33	2.2	33	87	2	103	29	5	0	64	1.15
13333876--13333943	15	4.3	15	71	21	59	27	1	1	69	1.06
13333862--13333912	25	2.1	24	82	10	59	27	1	1	68	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13333881--13333951	33	2.1	34	85	12	94	29	1	1	67	1.07
13337368--13337405	20	1.9	20	88	0	58	68	0	0	31	0.90
13337646--13337693	17	2.8	17	87	9	71	52	0	2	45	1.12
13339532--13339575	7	6.3	7	97	0	79	15	43	25	15	1.87
13344069--13344093	2	12.5	2	100	0	50	52	0	48	0	1.00
13345263--13345409	47	3.2	47	83	7	194	29	17	27	25	1.98
13345380--13345434	23	2.4	23	87	0	83	34	21	25	18	1.96
13345278--13345410	45	2.9	48	84	6	193	29	18	27	25	1.98
13345405--13345688	45	6.2	45	79	4	273	29	19	26	23	1.98
13345288--13345525	115	2.1	115	85	4	320	29	19	27	23	1.98
13345403--13345634	47	5.0	47	79	5	242	28	19	27	25	1.99
13345403--13345680	92	3.0	91	83	5	335	29	19	26	24	1.98
13346277--13346577	31	9.7	31	88	1	424	19	19	21	38	1.93
13350006--13350037	2	16.0	2	100	0	64	50	0	50	0	1.00
13353875--13353930	28	2.1	28	83	9	73	32	0	0	67	0.91
13354482--13354523	17	2.3	18	88	8	59	42	0	0	57	0.99
13360232--13360503	31	8.9	31	70	10	175	36	11	20	31	1.89
13360203--13360453	61	4.1	60	80	4	227	38	12	18	30	1.88
13360215--13360453	122	2.0	122	80	3	275	38	12	19	29	1.88
13371043--13371079	19	2.0	18	89	5	56	29	18	16	35	1.93
13377094--13377131	16	2.4	16	86	4	51	36	10	15	36	1.82
13383996--13384098	38	2.7	38	80	3	109	30	16	24	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13386716--13386759	22	2.0	22	86	0	61	4	27	0	68	1.09
13390352--13390417	21	3.1	21	93	4	107	3	34	0	62	1.11
13392570--13392684	54	2.1	54	85	0	149	22	19	13	45	1.84
13395656--13395696	20	2.0	21	86	13	59	68	4	4	21	1.28
13397716--13397746	15	2.1	15	93	0	53	32	3	12	51	1.56
13402499--13402544	14	3.3	14	84	0	56	2	43	8	45	1.47
13408801--13408842	16	2.7	16	88	3	59	26	2	0	71	0.98
13408822--13408875	26	2.1	26	83	10	67	42	0	0	57	0.98
13410739--13410842	53	2.0	53	84	3	138	39	15	6	38	1.74
13416085--13416160	35	2.2	36	79	9	86	27	9	30	32	1.88
13416551--13416581	4	7.8	4	92	0	53	29	0	22	48	1.51
13420135--13420172	16	2.3	17	95	4	69	57	0	7	34	1.28
13421586--13421618	6	5.7	6	89	7	50	84	3	12	0	0.72
13430633--13430672	21	2.0	20	85	5	53	37	15	5	42	1.68
13433273--13433297	13	1.9	13	100	0	50	44	32	8	16	1.76
13433569--13433623	21	2.6	21	79	0	56	29	7	12	50	1.67
13433596--13433637	21	2.0	21	90	9	68	28	0	9	61	1.27
13433728--13433815	21	4.1	21	80	4	95	27	4	17	51	1.64
13433728--13433815	43	2.0	43	82	0	104	27	4	17	51	1.64
13433850--13433890	21	2.0	21	90	0	64	31	4	12	51	1.60
13436428--13436500	34	2.1	34	87	5	103	27	8	28	35	1.86
13438022--13438114	28	3.3	28	79	8	100	34	10	10	44	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13447038--13447109	34	2.1	35	84	2	92	38	22	13	25	1.91
13447120--13447187	34	2.0	34	85	0	91	38	22	16	23	1.93
13456135--13456177	20	2.2	20	82	0	50	32	2	2	62	1.20
13456532--13456560	2	14.5	2	100	0	58	48	0	0	51	1.00
13458879--13458928	21	2.4	21	100	0	100	50	12	10	28	1.71
13468221--13468247	2	13.5	2	100	0	54	0	51	0	48	1.00
13472653--13472693	2	20.5	2	94	0	73	48	0	2	48	1.14
13474603--13474676	29	2.6	28	77	14	87	17	29	12	40	1.86
13479087--13479117	15	2.1	15	93	0	53	67	0	0	32	0.91
13479091--13479140	21	2.5	20	81	12	57	64	4	0	32	1.12
13487989--13488022	17	2.0	17	88	0	50	14	32	32	20	1.93
13488192--13488315	58	2.1	58	100	0	248	21	40	26	11	1.87
13490741--13490767	14	1.9	14	100	0	54	22	3	7	66	1.33
13493113--13493172	30	2.0	30	96	0	111	25	13	11	50	1.75
13494797--13494850	22	2.5	22	75	3	56	35	11	9	44	1.72
13504089--13504223	50	2.7	50	95	1	234	34	13	21	30	1.92
13513321--13513439	34	3.5	34	68	13	91	28	14	27	29	1.95
13513332--13513457	68	1.9	64	83	6	162	29	11	26	33	1.91
13515780--13515892	54	2.1	54	83	0	136	27	14	23	34	1.93
13537667--13538372	243	2.9	244	79	3	637	46	7	12	34	1.69
13555456--13555490	15	2.3	15	85	0	52	25	0	8	65	1.21
13561763--13561942	69	2.6	69	85	3	247	35	12	10	42	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13562209--13562245	14	2.5	16	79	20	53	45	0	0	54	1.00
13562371--13562413	20	2.0	22	82	8	54	44	4	9	41	1.57
13571343--13571566	28	7.9	28	85	2	295	37	12	10	38	1.79
13571343--13571566	57	4.0	56	87	2	295	37	12	10	38	1.79
13571352--13571566	85	2.5	85	93	0	358	38	12	10	38	1.77
13572452--13572500	24	2.0	24	100	0	98	46	4	0	48	1.20
13586140--13586183	21	2.0	22	91	4	72	61	6	0	31	1.22
13589015--13589086	28	2.6	27	77	14	74	23	12	20	43	1.86
13590634--13590718	31	2.7	31	98	0	161	18	25	25	29	1.98
13594792--13594820	13	2.2	13	100	0	58	51	6	6	34	1.55
13597455--13597501	24	2.0	24	95	0	85	53	4	21	21	1.63
13605117--13605196	41	2.0	41	87	0	115	46	15	10	28	1.77
13605142--13605198	21	2.8	20	78	5	60	45	17	8	28	1.78
13614723--13614991	138	2.0	132	93	4	457	28	12	23	34	1.92
13618236--13618359	30	4.2	28	78	10	122	41	8	7	41	1.64
13618236--13618359	60	2.1	58	84	3	158	41	8	7	41	1.64
13618236--13618359	28	4.2	30	78	12	123	41	8	7	41	1.64
13620434--13620725	44	6.5	44	78	5	248	43	11	14	29	1.81
13620434--13620725	86	3.3	88	76	10	227	43	11	14	29	1.81
13637849--13638004	35	4.5	35	80	3	152	34	8	14	42	1.75
13651582--13651770	74	2.6	72	77	10	195	22	20	13	43	1.86
13652275--13652329	25	2.2	25	93	0	92	36	16	10	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13662145--13662177	7	4.6	7	96	3	57	39	3	27	30	1.72
13668518--13668581	27	2.3	29	83	5	87	0	39	0	60	0.97
13668536--13668587	18	2.7	19	77	11	54	0	40	0	59	0.97
13669524--13669564	18	2.2	18	86	4	55	36	4	0	58	1.20
13669521--13669566	19	2.4	19	82	7	58	34	4	0	60	1.16
13672944--13673065	63	1.9	63	93	0	208	35	15	22	27	1.94
13674854--13675086	107	2.2	107	100	0	466	30	14	19	35	1.92
13677979--13678028	14	3.5	14	81	5	55	22	2	0	76	0.89
13678171--13678200	15	1.9	16	93	6	53	33	0	3	63	1.11
13684930--13684971	21	2.0	21	85	0	57	33	16	16	33	1.92

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31