genome.fa.s28.2.7.7.80.10.50.1000.1.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_018397281.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_39.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1667509

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 576 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)
4115--4149	2	17.5	2	93	0	61	54	0	45	0	0.99
23914--23944	16	1.9	16	93	0	53	6	19	12	61	1.53
26061--26116	20	2.7	22	84	10	66	14	10	0	75	1.06
26071--26120	22	2.5	20	83	9	66	18	8	0	74	1.06
26059--26126	20	3.4	20	68	12	50	13	8	0	77	0.98
26107--26190	33	2.6	33	94	1	143	25	8	0	66	1.19
34277--34338	29	2.1	29	81	0	70	46	17	19	16	1.84
49965--50114	29	5.3	28	74	12	112	42	20	16	20	1.89
51611--51679	29	2.4	29	92	4	113	44	18	20	15	1.86
54922--54949	2	14.0	2	100	0	56	50	0	50	0	1.00
57710--57748	21	2.0	20	90	10	62	41	5	5	48	1.47
88656--88829	22	7.8	23	75	8	155	32	12	17	37	1.88
88643--88829	65	2.8	67	82	6	200	31	12	18	37	1.88
94328--94371	21	2.1	21	86	0	61	50	4	22	22	1.67
97093--97156	24	2.7	24	85	0	92	25	23	26	25	2.00
101070--101180	31	3.6	31	87	0	168	37	22	13	26	1.91
101847--102041	47	4.1	47	83	0	237	24	31	15	28	1.96
101831--102041	94	2.2	94	84	3	280	25	31	15	27	1.96
102118--102176	23	2.6	22	76	7	64	22	33	8	35	1.84
114154--114198	23	2.0	22	82	4	54	28	13	13	44	1.81
114899--114939	21	2.0	21	90	9	66	39	19	21	19	1.93
124705--125860	142	8.2	142	77	9	777	22	15	26	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
124673--125695	283	3.6	283	80	4	1042	23	15	26	35	1.94
124688--125703	71	14.3	71	75	6	731	23	15	26	35	1.94
125637--125751	60	1.9	61	83	1	151	22	19	25	33	1.97
125572--125821	131	1.9	131	81	6	301	22	16	25	35	1.95
125698--125891	71	2.7	71	79	3	223	22	15	26	35	1.94
125511--125896	202	1.9	202	80	3	445	22	16	26	34	1.95
129848--129988	31	4.4	31	80	7	156	35	14	13	36	1.86
130644--130708	23	2.8	23	90	0	103	29	27	18	24	1.98
130644--130732	46	1.9	46	82	8	110	29	29	16	24	1.97
130740--130838	23	4.3	24	70	7	80	26	33	12	28	1.92
130863--130929	22	3.0	23	80	6	75	26	29	8	34	1.87
130947--131070	23	5.4	23	83	0	149	25	32	10	32	1.89
130944--131070	46	2.8	46	92	0	209	24	31	11	32	1.91
131161--131229	23	3.0	23	85	8	95	24	34	11	28	1.91
131163--131240	23	3.4	23	81	0	93	26	34	10	28	1.89
132523--132606	41	2.0	41	97	0	159	34	21	17	26	1.96
138758--139019	31	8.5	31	89	0	301	36	20	19	23	1.95
139618--139911	47	6.3	47	78	6	244	25	29	17	27	1.98
139646--139934	92	3.1	90	78	9	253	25	29	16	28	1.97
139647--139916	139	1.9	140	82	9	336	25	29	16	28	1.97
142899--142943	23	2.0	23	90	0	72	33	15	15	35	1.89
142898--142950	23	2.3	23	80	0	70	35	15	13	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
146671--146738	26	2.6	26	88	2	91	29	16	5	48	1.69
147055--147101	23	2.0	23	95	0	85	31	10	23	34	1.89
147055--147113	23	2.6	23	88	0	73	32	11	20	35	1.89
151272--151319	22	2.2	22	84	0	60	50	16	10	22	1.76
150872--151542	211	3.2	211	80	2	720	40	22	11	24	1.88
151484--151526	22	2.0	22	85	0	59	51	30	6	11	1.65
151529--151597	22	3.1	22	87	0	102	40	26	4	28	1.75
152798--152833	16	2.2	16	100	0	72	30	0	44	25	1.54
159915--159977	26	2.5	25	77	10	65	41	15	4	38	1.69
165597--165624	2	14.0	2	100	0	56	50	0	0	50	1.00
166200--166274	38	1.9	39	89	2	116	46	14	1	37	1.53
169508--169625	55	2.1	55	82	1	137	31	23	20	24	1.98
169443--169643	56	3.6	54	74	4	134	28	23	21	25	1.99
169785--169913	58	2.2	60	84	4	172	30	24	17	28	1.97
169785--169971	61	3.1	59	81	6	180	32	23	14	28	1.95
170815--170868	21	2.6	21	78	0	63	35	7	20	37	1.81
171591--171689	48	2.1	48	96	0	180	41	2	17	39	1.61
171874--172140	68	3.9	68	87	0	345	37	8	17	35	1.81
172623--172668	20	2.3	20	84	0	65	30	13	19	36	1.90
191463--191566	26	4.3	23	72	18	77	46	0	0	52	1.07
191463--191519	26	2.2	27	90	6	91	49	0	1	49	1.11
194410--194513	35	2.9	35	84	2	100	45	14	5	34	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
213205--213316	55	2.0	55	98	0	215	36	23	8	32	1.84
214012--214219	103	2.0	103	97	0	389	28	21	18	31	1.97
214679--214718	20	2.0	20	95	0	71	42	5	5	47	1.47
220911--220950	15	2.8	14	85	7	53	72	0	2	25	0.97
221128--221153	11	2.4	11	100	0	52	73	0	0	26	0.84
240588--240613	2	13.0	2	100	0	52	50	0	0	50	1.00
249433--249624	70	2.6	74	76	14	189	11	16	15	57	1.66
254977--255102	29	4.4	28	76	9	137	41	8	9	40	1.69
254977--255102	58	2.2	57	84	4	164	41	8	9	40	1.69
284062--284143	37	2.2	37	84	4	103	43	13	8	34	1.74
284109--284280	68	2.5	68	83	0	227	35	15	11	37	1.83
289811--289957	36	4.3	36	81	10	157	31	7	14	46	1.73
295445--295482	18	2.2	18	90	4	60	57	0	0	42	0.98
298836--298870	14	2.5	14	95	0	61	14	31	28	25	1.95
309746--309785	20	2.0	20	90	9	64	22	7	5	65	1.38
313166--313305	59	2.3	59	86	7	185	34	13	8	43	1.75
313126--313305	29	6.2	29	74	13	147	36	13	9	41	1.77
317388--317420	17	1.9	17	88	11	50	42	15	3	39	1.62
317602--317702	28	3.5	28	77	10	94	40	13	7	37	1.74
322211--322369	29	5.5	28	77	10	158	40	10	14	34	1.81
322223--322364	59	2.4	59	81	8	148	42	8	14	33	1.76
337090--337157	35	2.0	36	85	8	97	47	13	8	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
337124--337503	29	13.4	28	78	7	392	37	14	10	37	1.81
337048--337503	85	5.3	85	78	7	408	37	14	10	38	1.80
337053--337494	113	3.9	111	79	10	403	37	14	10	38	1.80
343152--343187	11	3.4	11	92	7	65	16	8	8	66	1.42
343150--343183	10	3.3	10	92	8	59	14	8	8	67	1.41
346098--346129	16	2.0	16	93	0	55	12	3	18	65	1.38
346406--346432	12	2.2	12	100	0	54	37	25	22	14	1.93
347368--347630	68	3.9	68	69	4	190	36	9	19	31	1.83
353336--353467	29	4.5	28	72	9	86	39	9	9	41	1.70
353343--353466	59	2.1	58	80	5	135	41	9	8	40	1.69
353344--353467	28	4.3	27	75	14	106	41	9	8	41	1.67
356671--356707	18	2.1	18	94	0	65	27	13	5	54	1.61
359610--359634	12	2.1	12	100	0	50	32	16	8	44	1.76
361800--361842	23	1.9	22	90	4	68	27	11	13	46	1.78
364800--365568	171	4.5	171	76	6	486	35	13	13	37	1.85
365761--367002	168	7.3	168	73	8	732	34	13	14	37	1.86
369407--369957	171	3.2	170	76	6	416	33	15	13	37	1.87
374276--374444	84	2.0	84	95	0	302	36	13	27	22	1.92
378121--378801	344	2.0	344	91	0	1092	31	10	23	33	1.88
381551--381724	29	6.0	28	74	11	127	40	10	13	35	1.79
383270--383295	9	2.9	9	100	0	52	34	53	11	0	1.37
401514--401682	68	2.5	68	83	3	205	37	14	11	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408104--409434	170	7.9	170	74	9	674	34	14	14	36	1.87
408104--411078	341	8.8	339	73	9	1461	33	15	14	36	1.87
408104--409428	511	2.6	510	76	8	1139	34	14	14	36	1.87
409457--410870	512	2.8	505	80	6	1481	33	15	14	37	1.87
409457--411079	512	3.2	502	76	9	1440	32	15	14	37	1.87
409457--411050	171	9.3	170	73	9	632	32	15	14	37	1.87
412636--412907	80	3.4	80	87	3	334	36	23	9	31	1.86
414452--414562	31	3.6	31	77	0	114	24	29	18	27	1.98
416202--416236	16	2.2	16	94	0	61	74	8	0	17	1.06
417922--418680	171	4.4	167	77	6	542	33	14	13	37	1.86

Tables:   1   2   3   4   5