genome.fa.s8217.2.7.7.80.10.50.1000.2.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: VEPZ01008217.1 Hibiscus syriacus cultivar Beakdansim tig00110847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2417150

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  2  of  14  ( 1575 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)
239182--239340	64	2.5	65	87	8	220	27	18	23	30	1.97
239872--239915	19	2.3	19	96	0	79	20	36	13	29	1.91
240047--240076	14	2.1	14	93	0	51	40	23	0	36	1.55
241711--242098	205	1.9	208	88	4	597	29	19	17	34	1.94
244030--244178	23	6.5	23	92	0	244	19	20	25	34	1.96
251784--251818	13	2.7	13	90	0	52	28	17	17	37	1.92
251797--251962	85	2.0	85	95	0	296	30	21	16	30	1.96
255093--256251	580	2.0	580	96	0	2156	32	17	20	29	1.95
256751--256782	16	1.9	17	93	6	57	37	18	0	43	1.51
262244--262345	49	2.1	50	84	1	134	29	19	16	34	1.94
262485--262526	22	1.9	22	90	9	68	28	11	14	45	1.80
269097--269157	31	2.0	31	96	0	113	14	13	21	50	1.76
269786--269856	20	3.5	20	92	5	108	38	12	12	36	1.82
269868--269922	20	2.8	19	76	10	58	29	14	12	43	1.82
272628--272682	20	2.8	19	81	5	65	38	14	10	36	1.81
272668--272710	20	2.2	20	100	0	86	34	23	4	37	1.76
272677--272723	20	2.3	20	85	0	58	31	25	4	38	1.75
274584--274650	17	3.9	17	70	0	62	56	2	19	20	1.55
274586--274656	34	2.1	34	83	0	88	57	4	16	21	1.56
274613--274747	17	8.0	17	71	4	103	61	2	14	21	1.46
274613--274746	51	2.6	51	77	5	128	61	2	14	20	1.45
274649--274775	33	3.8	34	93	1	204	60	3	14	20	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
274649--274775	67	1.9	67	93	3	220	60	3	14	20	1.50
276031--276073	22	2.0	21	82	8	52	9	23	44	23	1.82
276867--276947	21	3.8	22	76	9	69	16	23	34	25	1.95
276912--276949	20	1.9	20	88	0	58	13	26	34	26	1.93
280747--280786	21	1.9	21	85	10	55	35	10	2	52	1.48
282638--282692	20	2.8	20	97	0	101	20	25	32	21	1.97
283423--283494	31	2.3	31	92	0	117	43	5	15	36	1.70
284366--284413	12	4.0	12	78	10	53	16	12	18	52	1.75
284369--284470	24	4.2	24	82	0	123	17	10	17	53	1.71
284385--284418	12	2.8	12	86	0	50	8	17	20	52	1.71
290725--290763	17	2.5	17	88	12	57	46	0	0	53	1.00
294528--294567	21	1.9	21	84	0	53	62	10	10	17	1.53
301937--301961	13	1.9	13	100	0	50	36	16	24	24	1.94
305242--305300	14	4.6	14	70	20	56	57	23	13	5	1.56
305259--305319	23	2.7	23	94	0	104	57	24	13	4	1.56
305270--305336	10	6.5	10	75	11	55	58	20	11	8	1.60
305461--305504	23	1.9	23	81	9	54	45	2	9	43	1.48
307150--307197	23	2.1	22	81	11	53	66	4	2	27	1.21
315031--315099	15	4.3	17	72	17	58	18	26	33	21	1.97
315043--315099	15	3.7	15	77	9	69	17	26	35	21	1.95
315031--315099	32	2.2	32	92	5	113	18	26	33	21	1.97
318314--318539	64	3.5	64	83	6	273	33	19	19	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319245--319279	12	2.9	12	95	0	61	31	2	25	40	1.70
319245--319291	24	2.0	24	83	8	60	31	6	23	38	1.80
319307--319380	29	2.6	29	97	2	141	43	16	21	18	1.88
319465--319572	15	7.2	15	89	0	171	15	21	32	30	1.94
319464--319572	30	3.6	30	96	0	191	16	21	32	30	1.95
322958--323179	64	3.5	64	83	7	249	33	18	19	28	1.96
323885--323919	12	2.9	12	95	0	61	31	2	25	40	1.70
323885--323931	24	2.0	24	83	8	60	31	6	23	38	1.80
323947--324049	29	3.6	29	98	1	199	43	16	21	18	1.88
324134--324241	15	7.2	15	89	0	171	15	21	32	30	1.94
324133--324241	30	3.6	30	96	0	191	16	21	32	30	1.95
326513--326565	22	2.3	23	80	12	63	62	1	3	32	1.24
328160--328500	43	7.4	43	66	21	172	22	17	25	34	1.96
328203--328460	51	5.4	51	67	20	214	23	17	25	32	1.97
328134--328822	94	7.0	95	89	6	920	23	17	24	33	1.96
328406--328828	105	4.0	105	95	0	720	24	18	24	32	1.97
329567--329608	21	2.0	21	86	9	59	0	28	2	69	1.01
329648--329694	14	3.1	15	85	14	62	0	17	0	82	0.66
329648--329695	13	3.6	13	91	5	78	0	18	0	81	0.70
339103--339146	20	2.2	20	88	8	63	72	2	6	18	1.17
340331--340383	22	2.3	23	80	12	63	62	1	3	32	1.24
340434--340465	2	16.0	2	93	0	55	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340439--340545	49	2.3	47	79	14	121	58	0	6	33	1.30
348245--348294	23	2.1	24	88	3	75	64	14	4	18	1.44
348533--348603	2	35.5	2	100	0	142	49	0	0	50	1.00
355024--355057	16	2.1	16	100	0	68	32	17	20	29	1.96
365497--365551	22	2.5	22	85	5	67	38	23	9	29	1.85
366709--366735	2	13.5	2	100	0	54	51	0	0	48	1.00
366882--366923	16	2.7	16	96	3	77	28	4	4	61	1.36
369964--369997	17	2.0	17	100	0	68	17	29	17	35	1.93
371423--371488	30	2.2	30	88	0	96	9	33	24	33	1.87
372147--372208	16	3.9	16	84	0	88	62	22	4	9	1.44
372144--372208	32	2.0	32	93	0	112	61	23	6	9	1.48
372272--372380	31	3.3	36	62	28	87	38	22	15	23	1.92
372278--372405	62	2.1	62	95	0	229	42	20	13	24	1.87
372373--372463	47	1.9	47	82	8	114	48	18	12	20	1.80
373379--373426	10	4.4	10	78	19	51	54	25	12	8	1.65
373386--373427	14	3.3	14	75	25	56	52	26	14	7	1.67
373379--373427	24	2.0	24	100	0	98	53	24	14	8	1.68
373733--373950	114	1.9	113	90	0	346	35	13	5	44	1.69
380956--381000	21	2.1	21	87	0	63	22	33	26	17	1.96
382589--382681	44	2.1	44	93	0	159	20	15	10	53	1.71
382585--382674	24	3.9	25	63	18	68	18	14	11	55	1.68
382654--382790	68	2.0	68	89	0	211	21	16	15	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
383950--383978	2	14.5	2	100	0	58	48	0	0	51	1.00
384261--384605	159	2.2	160	89	1	525	47	7	17	27	1.74
384261--384647	159	2.4	158	87	1	438	47	6	18	26	1.74
385558--385621	20	3.3	19	76	8	67	57	0	0	42	0.98
385555--385692	36	3.8	36	83	9	165	60	0	0	39	1.02
385548--385692	34	3.9	36	84	9	177	60	0	1	37	1.05
387070--387182	39	2.9	40	81	4	131	26	22	14	37	1.92
387150--387228	39	2.0	39	80	4	88	30	16	12	40	1.86
394341--394584	66	3.7	65	86	1	317	28	15	24	31	1.95
394832--394867	17	2.0	19	89	10	58	63	5	13	16	1.47
396886--396999	60	1.9	59	83	1	147	39	4	21	34	1.74
397501--397704	102	2.0	102	99	0	399	53	15	0	29	1.49
398115--398275	60	2.7	60	89	0	232	43	4	18	33	1.70
398134--398232	31	3.3	31	72	11	96	42	3	21	33	1.68
399522--399582	32	1.9	32	86	0	86	40	14	14	29	1.86
400443--400529	40	2.2	41	81	6	106	25	16	21	36	1.94
400460--400528	20	3.5	20	83	0	93	26	14	23	36	1.93
404067--404243	85	2.1	86	83	8	218	41	19	5	32	1.75
404067--404249	58	3.2	58	76	10	178	40	21	5	32	1.76
404087--404249	29	5.7	29	82	6	163	39	22	5	31	1.77
404262--404331	18	3.9	18	90	0	113	15	20	45	18	1.85
411381--411512	28	4.7	28	82	4	149	39	21	5	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411382--411512	29	4.6	28	83	3	138	39	22	5	32	1.76
411382--411512	56	2.3	56	86	3	174	39	22	5	32	1.76
414066--415289	612	2.0	612	98	0	2376	26	17	18	38	1.92
415332--415740	201	2.0	201	89	2	626	33	16	13	35	1.88
417925--418040	56	2.1	56	98	0	223	22	14	20	42	1.89
418225--418272	21	2.2	21	85	7	60	35	2	0	62	1.07
418239--418316	13	6.2	13	69	16	58	39	1	0	58	1.06
418221--418291	36	2.0	35	84	13	92	35	2	0	61	1.10
418224--418290	29	2.3	30	78	19	79	34	2	0	62	1.10
418235--418302	35	1.9	36	82	14	88	39	2	0	57	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14