genome.fa.s1242.2.7.7.80.10.50.1000.1.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: VEPZ01001242.1 Hibiscus syriacus cultivar Beakdansim tig00002443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  235367

Tables:   1   2   

This is table  1  of  2  ( 136 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)
9257--9297	21	2.0	21	90	0	64	63	0	21	14	1.30
25748--25778	4	7.8	4	100	0	62	25	0	0	74	0.82
31076--31120	23	1.9	23	86	4	63	31	2	2	64	1.18
32631--32668	20	1.9	20	100	0	76	42	21	2	34	1.67
32767--32799	12	2.6	13	90	4	50	48	0	0	51	1.00
33740--33776	2	18.5	2	100	0	74	51	0	0	48	1.00
34565--34621	29	2.0	29	89	0	87	40	26	15	17	1.90
42015--42042	2	14.0	2	100	0	56	50	0	0	50	1.00
51446--51485	20	2.0	21	90	5	64	62	0	2	35	1.09
57630--57722	21	4.5	21	78	4	100	39	18	24	17	1.91
57630--57722	41	2.3	41	100	0	186	39	18	24	17	1.91
57649--57783	41	3.3	41	82	6	132	37	21	21	19	1.94
57711--57825	20	5.7	20	80	8	108	31	26	18	23	1.97
57708--57845	41	3.4	41	78	6	145	34	25	17	23	1.96
58013--58056	22	2.0	22	91	8	72	22	45	13	18	1.84
58013--58064	22	2.5	21	84	12	63	23	44	11	21	1.84
59673--59717	18	2.5	18	88	0	72	26	44	15	13	1.83
60193--60234	20	2.1	20	86	0	57	35	26	21	16	1.94
60204--60248	20	2.3	20	80	3	56	40	20	22	17	1.92
60236--60322	32	2.7	33	89	3	131	49	19	17	13	1.79
60339--60396	14	3.9	14	79	16	71	10	17	24	48	1.78
60334--60412	32	2.4	33	95	2	142	11	18	22	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60397--60452	20	2.8	19	84	7	67	16	23	23	37	1.93
62454--62521	19	3.8	19	85	14	101	47	17	22	13	1.82
62540--62577	20	1.9	20	100	0	76	15	21	26	36	1.93
63635--63688	24	2.2	24	90	0	81	24	16	20	38	1.92
66163--66289	33	3.8	33	86	4	193	43	19	22	14	1.88
66164--66296	66	2.0	66	95	0	239	42	19	21	16	1.89
66472--66508	14	2.6	14	91	0	65	45	24	0	29	1.53
67817--67883	21	3.2	21	68	4	55	19	20	35	23	1.95
67817--67939	42	2.9	41	79	7	113	22	18	36	21	1.95
69943--70003	20	3.1	19	79	9	68	44	18	24	13	1.85
69992--70028	14	2.6	14	95	0	65	43	24	24	8	1.81
69968--70061	47	2.0	48	89	2	145	39	25	24	10	1.87
70005--70080	33	2.3	33	81	0	98	42	27	19	10	1.84
70052--70117	19	3.4	19	91	4	114	48	22	18	10	1.78
70123--70159	19	1.9	19	94	0	65	2	16	24	56	1.53
70757--70810	20	2.7	20	97	0	99	25	18	24	31	1.97
70717--70831	61	1.9	61	81	3	142	21	20	23	34	1.96
80181--80227	22	2.1	23	92	4	78	23	8	25	42	1.82
83359--83411	18	3.0	18	94	2	90	16	47	22	13	1.82
83419--83521	29	3.6	29	89	0	134	25	5	24	44	1.76
89967--90037	18	4.0	18	92	1	117	18	47	22	11	1.80
90004--90029	13	2.0	13	100	0	52	23	46	23	7	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
90045--90124	29	2.8	29	92	0	124	22	7	22	47	1.76
90074--90169	29	3.3	29	83	2	95	26	6	23	43	1.77
95358--95404	22	2.1	23	92	4	78	25	17	10	46	1.79
97765--97810	21	2.1	22	88	4	67	73	0	8	17	1.07
100921--100948	14	2.0	14	100	0	56	28	0	71	0	0.86
100953--100985	2	16.5	2	87	12	50	48	0	48	3	1.17
100953--100985	17	1.9	17	93	0	57	48	0	48	3	1.17
100953--100985	13	2.5	13	90	9	50	48	0	48	3	1.17
118723--118766	23	2.0	23	86	4	63	63	6	4	25	1.38
120681--120759	34	2.4	34	85	8	101	37	0	1	60	1.05
120900--120953	17	3.2	17	72	0	54	31	0	3	64	1.11
121184--121274	31	3.0	31	95	3	159	34	6	16	42	1.74
121347--121401	18	3.0	18	84	5	74	40	12	10	36	1.79
121349--121401	19	2.8	19	85	2	72	41	13	11	33	1.80
121507--121548	21	2.0	21	95	0	75	23	21	28	26	1.99
121577--121616	20	1.9	21	85	10	55	37	37	10	15	1.80
121831--121900	34	2.1	32	84	5	86	32	14	30	22	1.94
123473--123520	21	2.3	21	85	0	60	25	39	12	22	1.89
123524--123617	21	4.5	21	92	5	129	18	35	26	20	1.95
124140--124303	33	4.9	34	85	3	224	56	3	2	37	1.30
124137--124303	67	2.5	67	98	0	316	55	3	2	38	1.31
124138--124310	34	5.2	33	82	8	215	55	4	2	38	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
124693--125706	128	7.9	128	98	0	1940	32	19	25	22	1.97
124693--125706	383	2.6	384	98	0	1958	32	19	25	22	1.97
125774--125814	8	5.2	8	82	5	57	36	29	0	34	1.58
129602--129628	9	3.0	9	100	0	54	66	0	22	11	1.22
131590--131848	20	12.6	20	75	8	126	38	18	22	20	1.93
131675--131846	40	4.2	40	84	6	209	35	16	25	23	1.95
131714--131835	63	1.9	63	98	0	235	34	15	26	23	1.95
131675--131848	83	2.1	83	91	0	276	35	16	25	22	1.95
131918--131985	6	11.5	6	98	1	129	32	51	16	0	1.45
132761--132891	20	6.4	20	83	5	163	20	26	16	35	1.94
132772--132910	63	2.2	63	93	0	233	20	27	16	35	1.94
132761--132910	43	3.6	40	78	7	147	20	26	16	36	1.93
132897--132942	23	2.0	23	95	0	83	28	21	23	26	1.99
132899--132956	23	2.6	22	86	5	73	25	22	27	24	2.00
132759--133039	20	13.6	20	72	9	100	19	23	19	38	1.94
132989--133039	19	2.6	20	90	3	77	15	17	23	43	1.88
134983--135020	20	1.9	20	89	10	60	28	21	34	15	1.94
139361--139458	44	2.1	47	85	7	130	26	11	22	39	1.87
149161--149268	16	6.6	16	72	22	73	73	0	18	8	1.08
149161--149272	32	3.4	32	75	18	106	73	0	18	8	1.07
149185--149272	9	10.4	9	73	18	73	72	0	17	10	1.11
149186--149266	35	2.5	31	84	11	99	74	0	14	11	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
149110--149268	8	19.5	8	69	17	53	73	1	16	8	1.13
150404--150919	153	3.3	153	93	1	845	29	15	26	27	1.96
150404--150864	51	9.0	51	97	0	850	29	15	27	26	1.96
150407--150971	51	10.9	51	91	3	628	29	15	26	28	1.96
150728--151017	51	5.4	56	81	7	196	29	16	23	30	1.96
150868--151027	56	2.9	56	82	4	164	29	13	21	35	1.92
161594--161629	15	2.4	15	90	0	63	69	0	0	30	0.89
164921--164963	21	2.0	21	81	0	50	30	30	25	13	1.94
165498--165799	149	2.0	147	94	1	532	27	15	20	36	1.93
165778--165821	22	2.0	22	86	0	61	20	25	27	27	1.99
171849--171891	21	2.0	21	81	0	50	30	30	25	13	1.94
172425--172716	149	2.0	149	94	0	512	27	14	20	37	1.91
176837--176887	19	2.6	20	90	3	77	43	5	15	35	1.71
181028--181075	19	2.5	20	89	3	71	43	6	14	35	1.71
186790--187026	83	2.9	82	84	3	298	30	18	17	33	1.94
188618--188734	43	2.7	43	83	1	135	47	15	17	19	1.83
193645--193703	9	6.1	10	75	11	52	18	20	30	30	1.96
193699--193756	17	3.4	17	97	0	107	17	43	24	15	1.87
193746--193775	7	4.4	7	91	8	53	16	30	30	23	1.96
193746--193771	13	2.0	13	100	0	52	15	30	30	23	1.95
194644--194767	63	2.0	63	82	6	153	16	28	29	25	1.97
200118--200335	109	2.0	109	100	0	436	28	17	23	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
201081--201149	10	7.1	10	76	12	72	18	23	30	27	1.98
201081--201151	19	3.7	19	88	5	90	18	25	29	26	1.98
201145--201202	17	3.4	17	97	0	107	17	43	24	15	1.87
201192--201234	7	6.4	7	84	10	63	13	30	30	25	1.94
201192--201230	13	3.0	13	92	0	69	12	30	30	25	1.93
202104--202227	63	2.0	63	82	6	153	16	28	29	25	1.97
205161--205219	3	19.3	3	80	3	64	57	1	3	37	1.25
205501--205534	5	7.0	5	86	6	52	76	0	2	20	0.92
205502--205532	14	2.2	14	94	0	53	77	0	3	19	0.90
220516--220714	20	8.6	24	70	22	142	23	23	9	43	1.82

Tables:   1   2