genome.fa.s33.2.7.7.80.10.50.1000.1.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_018397286.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_459.0, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  854433

Tables:   1   2   3   

This is table  1  of  3  ( 244 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)
7739--7800	6	10.3	6	77	11	56	20	1	1	75	0.97
7760--7807	24	2.0	24	84	8	62	20	4	0	75	0.97
9395--9540	59	2.5	59	76	8	152	40	9	10	39	1.73
19787--19839	22	2.4	22	87	0	70	35	5	13	45	1.67
19828--19895	35	1.9	36	81	3	84	41	5	10	42	1.63
21017--21071	28	2.0	28	92	0	92	61	12	3	21	1.46
25362--25397	8	4.2	8	86	13	54	38	0	0	61	0.96
25364--25399	18	2.0	18	100	0	72	44	0	0	55	0.99
26257--26429	73	2.4	73	82	5	199	21	22	17	38	1.93
27274--27317	23	2.0	22	82	8	54	45	2	6	45	1.42
27412--27802	212	1.9	201	78	7	408	38	6	5	44	1.54
46532--46574	16	2.7	16	77	0	50	11	6	37	44	1.68
48762--48807	2	23.0	2	95	0	83	50	2	0	47	1.13
55167--55195	12	2.5	12	94	5	51	17	0	3	79	0.87
59079--59171	46	2.0	46	91	0	150	36	10	16	36	1.83
69522--69554	16	2.1	16	88	11	50	69	9	3	18	1.28
78213--78266	20	2.9	19	83	8	58	53	0	0	46	1.00
80112--80139	2	14.0	2	100	0	56	0	50	0	50	1.00
81919--82106	97	1.9	98	94	1	333	29	14	20	35	1.93
83363--83411	23	2.1	23	88	7	73	14	4	6	75	1.14
86520--86560	2	20.5	2	100	0	82	48	0	51	0	1.00
92698--92734	15	2.3	15	90	9	56	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92698--92742	23	1.9	24	95	4	83	55	2	0	42	1.12
96765--96945	74	2.4	74	82	1	202	25	20	14	39	1.91
101135--101184	20	2.7	18	78	6	55	38	14	14	34	1.85
101197--101245	11	4.5	11	78	17	57	36	18	10	34	1.85
113167--113282	36	3.2	36	87	3	153	29	11	27	31	1.91
116584--118539	142	13.8	142	79	4	1787	29	17	18	34	1.93
121036--121698	333	2.0	333	81	2	778	32	13	19	34	1.90
122277--122521	45	5.5	45	79	2	253	31	19	20	28	1.97
122273--122521	90	2.8	88	78	3	282	31	19	20	28	1.97
122447--122524	21	3.7	21	69	5	68	28	21	20	29	1.98
122282--122529	135	1.8	134	84	2	336	33	19	19	28	1.96
125200--125278	12	6.3	12	73	12	61	26	3	0	69	1.05
125210--125279	13	5.4	13	71	6	61	25	2	0	71	1.00
125263--125324	28	2.2	28	80	5	72	27	4	1	66	1.21
126466--126510	24	1.9	23	81	4	54	51	0	0	48	1.00
126636--126703	5	13.6	5	71	22	54	23	2	0	73	0.97
126637--126683	13	3.5	13	85	11	60	25	0	0	74	0.82
129915--129939	11	2.3	11	100	0	50	60	0	16	24	1.36
132478--132528	23	2.2	23	85	0	66	27	7	39	25	1.83
132486--132531	23	2.0	23	91	0	74	26	13	39	21	1.90
132487--132551	23	2.8	22	79	9	67	29	10	35	24	1.89
132717--132772	23	2.4	23	81	0	67	35	14	26	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
132774--132830	24	2.4	24	96	0	105	24	12	31	31	1.92
133063--133121	23	2.6	23	81	5	66	25	20	30	23	1.98
133084--133127	23	1.9	23	85	0	61	29	18	27	25	1.98
133641--133696	21	2.7	21	97	0	103	10	3	21	64	1.40
133830--133958	61	2.1	61	85	4	170	34	17	13	34	1.89
133830--133958	31	4.2	30	87	2	159	34	17	13	34	1.89
140435--140459	7	3.6	7	100	0	50	28	28	12	32	1.92
143552--143622	31	2.3	31	75	0	79	26	33	12	26	1.92
143554--144068	138	3.8	138	83	3	587	30	29	14	25	1.95
147075--147241	23	7.3	23	76	9	155	40	18	12	28	1.87
147075--147248	22	7.7	22	75	8	145	39	18	13	28	1.89
147078--147241	44	3.6	43	81	7	166	41	18	12	27	1.86
158233--158313	23	3.5	23	77	5	74	35	8	30	24	1.86
158356--158409	23	2.3	24	75	9	58	37	11	29	22	1.89
159978--160024	19	2.7	18	78	12	53	53	0	2	44	1.12
163749--163829	41	2.0	41	85	4	110	19	20	24	34	1.96
164004--164143	31	4.5	31	86	1	174	30	15	18	35	1.92
165311--165344	15	2.3	15	100	0	68	20	38	29	11	1.88
168860--168900	20	2.0	21	85	4	57	31	29	17	21	1.96
169100--169145	21	2.2	21	88	0	65	26	21	2	50	1.60
172943--173124	62	3.0	61	80	5	208	22	32	17	28	1.96
179480--179660	60	3.0	60	79	5	215	23	32	16	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
186381--186452	32	2.2	32	100	0	144	23	12	19	44	1.85
186825--186903	22	3.6	22	77	6	97	44	16	11	27	1.82
186824--186915	44	2.1	44	89	0	139	46	16	10	26	1.79
186825--186915	22	4.2	21	72	12	67	46	16	10	26	1.80
186923--186958	11	3.2	11	84	7	54	30	33	11	25	1.90
187161--187265	54	1.9	54	88	0	156	36	14	27	21	1.92
194064--194161	34	2.9	34	87	0	142	36	20	5	37	1.75
194202--194229	10	2.8	10	100	0	56	42	39	17	0	1.50
210231--210267	16	2.4	16	90	4	58	40	0	10	48	1.38
211061--211214	73	2.1	73	85	0	200	37	14	21	26	1.92
212706--212749	21	2.0	22	86	4	63	77	2	20	0	0.88
212703--212750	8	6.4	8	83	9	57	75	2	22	0	0.91
227507--227691	73	2.5	73	89	0	271	38	17	19	24	1.93
228976--229001	2	13.0	2	100	0	52	50	0	0	50	1.00
229223--229499	92	3.0	95	74	13	270	48	2	25	23	1.64
233141--233176	12	2.9	13	88	12	58	41	16	41	0	1.48
234782--234962	60	3.0	60	78	3	229	23	30	18	27	1.97
236555--236589	11	3.2	11	87	0	52	28	0	2	68	1.04
237036--237067	2	16.0	2	93	0	55	46	0	3	50	1.17
238611--238673	33	1.9	32	90	9	101	69	1	0	28	0.97
238645--238730	28	3.2	25	70	23	75	66	0	3	30	1.08
238645--238733	26	3.3	26	68	26	69	65	0	3	31	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
238708--238793	33	2.6	33	85	9	104	65	0	4	30	1.13
239007--239046	15	2.7	15	88	0	62	32	30	7	30	1.85
243537--245902	252	9.4	252	83	2	2721	46	6	12	32	1.68
250405--251889	252	5.9	251	86	4	1789	46	6	13	33	1.68
250405--251889	756	2.0	755	84	3	1977	46	6	13	33	1.68
267871--267903	17	1.9	17	93	0	57	42	9	12	36	1.74
273662--273692	2	15.5	2	100	0	62	51	0	0	48	1.00
274977--275031	23	2.4	23	87	0	83	20	1	16	61	1.43
278878--278906	14	2.1	14	93	6	51	68	6	0	24	1.13
279787--279830	22	2.0	22	82	8	54	31	0	0	68	0.90
280679--280720	15	2.8	15	85	0	57	33	7	16	42	1.75
280947--281037	35	2.6	35	78	0	92	45	14	17	23	1.85
281314--281379	29	2.3	29	81	5	80	19	24	10	45	1.82
290548--290779	40	6.0	37	83	9	154	59	17	0	22	1.40
290578--290787	40	5.2	40	91	1	321	60	19	0	20	1.40
290578--290787	81	2.6	80	90	1	339	60	19	0	20	1.40
294628--294696	32	2.2	32	84	2	86	46	2	0	50	1.16
294824--294861	15	2.5	15	84	16	51	42	0	2	55	1.14
294817--295792	339	2.9	340	82	6	1151	44	7	7	41	1.60
296124--296184	31	2.0	31	93	6	106	49	4	0	45	1.23
296240--296672	136	3.2	136	90	0	670	33	20	15	31	1.93
298205--298230	3	8.7	3	100	0	52	0	0	65	34	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305526--305601	29	2.7	29	83	4	84	39	14	10	35	1.81
308644--308719	37	2.1	37	100	0	152	31	15	7	44	1.75
309478--309656	47	3.9	47	82	4	211	28	17	28	25	1.97
309490--309720	92	2.5	91	78	6	243	29	16	27	26	1.97
309697--309742	22	2.1	22	83	0	56	23	15	28	32	1.95
310473--310664	31	6.2	31	87	0	213	23	19	18	38	1.93
312452--312543	23	4.0	23	76	12	73	27	27	27	18	1.98
316206--316307	51	2.0	51	98	0	195	44	15	12	27	1.83
340846--340915	6	11.7	6	74	17	65	51	1	31	15	1.53
340824--340891	30	2.3	30	92	0	109	52	4	29	13	1.59

Tables:   1   2   3