genome.fa.s8312.2.7.7.80.10.50.1000.2.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: VEPZ01008312.1 Hibiscus syriacus cultivar Beakdansim tig00111005_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1258310

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 670 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)
226313--226343	15	2.1	14	94	5	53	22	9	9	58	1.59
235165--235194	2	15.0	2	100	0	60	50	0	0	50	1.00
238210--238247	2	19.0	2	94	0	67	47	0	2	50	1.15
242264--242295	2	16.0	2	100	0	64	50	0	0	50	1.00
244312--244368	29	2.0	29	100	0	114	22	28	35	14	1.93
252686--252787	30	3.5	29	71	22	88	64	0	0	34	1.00
252684--252840	9	17.1	9	70	21	89	62	1	0	35	1.08
252708--252892	30	5.8	32	72	18	134	57	1	2	38	1.20
252710--252872	44	3.8	40	73	19	100	58	1	1	38	1.16
252716--252889	26	6.0	28	73	24	116	57	1	2	38	1.22
252714--252889	13	13.4	13	75	18	93	57	1	2	38	1.21
252748--252889	39	3.7	38	76	17	134	55	2	2	39	1.26
253076--253130	22	2.5	22	80	16	60	32	5	29	32	1.80
253107--253143	19	1.9	19	100	0	74	37	5	29	27	1.79
253052--253133	44	1.9	41	82	7	101	32	6	26	34	1.81
253550--253610	20	3.0	20	79	11	79	22	16	19	40	1.90
253573--253666	35	2.7	35	84	0	125	27	17	22	32	1.96
253681--253726	19	2.4	19	88	3	65	23	17	28	30	1.97
253690--253728	19	2.1	19	95	0	69	23	15	28	33	1.95
253820--253903	2	47.0	2	68	29	57	54	2	0	42	1.13
253813--253903	23	3.8	24	84	10	116	53	2	1	42	1.20
253967--254023	3	19.0	3	100	0	114	33	0	66	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
254632--254738	6	17.4	7	89	8	82	66	0	30	2	1.06
254645--254738	3	31.3	3	95	0	170	68	0	31	0	0.90
255628--255658	10	3.0	10	95	4	53	22	0	0	77	0.77
261397--261440	20	2.2	20	87	0	61	40	4	11	43	1.61
265420--265490	29	2.4	29	80	4	79	30	5	23	39	1.78
265410--265486	29	2.6	29	76	13	77	31	6	23	38	1.80
271070--271134	26	2.4	26	84	5	85	40	3	12	44	1.57
274687--274746	30	2.0	29	87	3	84	40	0	3	56	1.16
274728--274765	20	1.9	20	89	10	60	50	0	0	50	1.00
275190--275226	14	2.6	14	86	0	56	10	16	18	54	1.71
275196--275244	24	2.0	24	88	0	71	12	14	18	55	1.69
275577--275654	31	2.5	31	87	0	111	46	16	14	23	1.83
284402--284427	9	2.9	9	100	0	52	57	0	34	7	1.27
293332--293367	18	1.9	19	88	5	56	27	5	5	61	1.41
294950--295054	31	3.4	31	98	0	201	30	9	11	48	1.71
297040--297089	21	2.4	21	79	0	64	14	0	34	52	1.42
297040--297089	14	3.6	14	75	20	50	14	0	34	52	1.42
297683--297748	2	33.0	2	100	0	132	50	0	0	50	1.00
297871--297984	60	1.9	60	83	7	151	29	15	18	35	1.92
298685--298730	21	2.2	21	84	0	56	13	28	36	21	1.91
300831--300979	60	2.5	60	87	4	203	30	26	4	39	1.74
300861--300960	29	3.4	29	66	17	71	30	24	4	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
300831--300996	60	2.8	60	83	5	176	29	25	6	38	1.80
303437--303506	34	2.1	34	94	0	122	21	10	28	40	1.85
305588--305670	37	2.2	37	89	0	121	16	8	32	42	1.79
305603--305686	37	2.3	37	91	0	132	16	8	32	42	1.78
306407--306608	71	2.7	73	85	9	250	34	17	11	36	1.86
314846--314934	29	3.1	29	85	0	124	17	40	28	13	1.88
315151--315234	29	2.9	29	83	0	96	13	29	39	17	1.88
327260--327301	22	2.0	21	90	4	66	35	14	9	40	1.78
327982--328029	21	2.4	19	80	19	53	41	2	2	54	1.24
329873--329901	14	2.0	15	93	6	51	62	0	0	37	0.96
330250--330319	28	2.5	28	88	0	104	34	17	21	27	1.95
331249--331281	16	2.1	16	100	0	66	33	6	12	48	1.65
331992--332487	247	2.0	247	95	0	902	39	6	18	35	1.76
332280--332570	150	1.9	150	97	0	555	44	3	15	35	1.65
339258--339282	2	12.5	2	100	0	50	52	48	0	0	1.00
340340--340455	56	2.0	58	93	3	200	44	0	1	52	1.17
340339--340459	57	2.1	59	90	6	203	44	0	1	52	1.16
340458--340519	19	3.3	19	78	15	58	37	1	0	61	1.06
341124--341183	31	1.9	31	93	0	102	45	8	6	40	1.61
342955--343251	99	3.0	98	90	1	468	26	20	14	38	1.91
342955--343251	49	6.0	49	90	2	459	26	20	14	38	1.91
342955--343251	148	2.0	149	91	0	479	26	20	14	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
343761--343808	18	2.7	18	96	0	87	43	25	2	29	1.66
345151--345255	32	3.3	32	78	5	104	25	25	26	21	2.00
346302--346357	26	2.2	26	90	0	85	23	14	23	39	1.91
347528--347701	60	2.9	59	88	3	242	37	16	14	31	1.89
350706--350740	17	2.1	17	88	0	52	65	11	0	22	1.24
352815--352843	2	14.5	2	100	0	58	48	0	0	51	1.00
356883--356912	13	2.3	13	100	0	60	26	23	20	30	1.98
357226--357279	26	2.1	26	82	6	65	35	5	11	48	1.62
365030--365158	22	5.9	22	81	0	105	31	14	27	26	1.95
365017--365130	44	2.6	44	82	0	138	31	16	26	25	1.97
365026--365150	66	1.9	66	86	0	178	31	14	27	27	1.95
365052--365152	44	2.3	44	85	0	130	30	14	27	26	1.95
366519--366559	3	13.7	3	89	0	64	65	2	29	2	1.18
367646--367682	18	2.1	18	94	0	65	8	10	43	37	1.69
370063--370108	3	15.3	3	88	8	67	34	2	0	63	1.07
375290--375367	26	3.2	25	67	22	76	24	23	10	42	1.85
375305--375379	20	3.5	20	70	20	62	26	25	10	37	1.89
376004--376041	11	3.4	11	89	7	58	71	10	13	5	1.30
377616--377715	36	2.7	38	89	3	150	36	16	13	35	1.87
377690--377988	105	2.9	105	83	2	343	31	15	12	40	1.85
378133--378193	28	2.2	27	85	11	79	26	9	16	47	1.77
378140--378210	29	2.4	29	86	11	101	28	12	14	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378204--378349	63	2.3	63	87	3	206	32	13	14	40	1.84
378318--378387	27	2.5	28	90	6	108	32	8	15	42	1.77
378255--378447	89	2.1	92	82	3	248	34	11	12	40	1.80
378162--378512	153	2.2	156	81	7	397	33	12	13	40	1.82
378732--378891	62	2.5	64	79	9	175	30	13	15	41	1.84
379128--379181	28	1.9	28	88	7	83	20	11	16	51	1.74
379229--379469	40	5.6	43	74	16	189	26	34	18	21	1.96
379215--379481	131	2.0	131	94	0	464	26	33	17	22	1.96
379691--379733	3	14.3	3	88	9	61	34	2	0	62	1.08
379690--379741	24	2.2	24	93	6	88	38	1	0	59	1.08
382924--383016	33	2.8	33	83	1	116	20	7	27	44	1.78
382923--383007	32	2.6	32	84	1	107	21	7	24	47	1.75
383015--383487	258	1.9	251	86	5	680	31	10	16	41	1.83
383844--383892	16	2.9	16	90	6	71	28	24	6	40	1.79
384547--384622	21	3.5	22	75	13	95	34	3	7	53	1.48
385279--385319	16	2.6	16	88	3	57	34	21	7	36	1.82
385464--385504	22	1.9	22	95	5	75	24	0	14	60	1.34
385663--385691	13	2.2	13	100	0	58	13	0	6	79	0.93
386144--386594	231	2.0	227	94	1	785	45	7	7	39	1.61
386660--386705	20	2.3	19	89	10	74	54	10	17	17	1.70
386826--386872	20	2.4	19	82	10	67	53	10	17	19	1.72
386835--386877	20	2.3	19	88	11	63	51	11	16	20	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389103--389167	21	3.1	21	80	6	69	40	15	29	15	1.88
389201--389266	33	2.0	33	88	5	98	28	0	50	21	1.49
391058--391106	19	2.6	19	90	6	73	30	4	10	55	1.52
391231--392704	198	7.5	197	97	1	2708	36	15	16	32	1.90
391231--392704	394	3.7	394	97	1	2717	36	15	16	32	1.90
394165--394226	18	3.4	18	79	0	79	37	9	35	17	1.83
394165--394250	6	14.3	6	77	0	64	37	8	34	19	1.82
394180--394254	3	25.0	3	73	0	60	36	6	34	22	1.81
394168--394246	36	2.2	36	90	0	122	35	8	35	20	1.84
394168--394250	12	6.9	12	83	0	94	36	8	34	20	1.83

Tables:   1   2   3   4   5   6