genome.fa.s2881.2.7.7.80.10.50.1000.2.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: VEPZ01002881.1 Hibiscus syriacus cultivar Beakdansim tig00005939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1746118

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 968 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)
245633--245676	22	2.0	22	86	0	61	25	22	15	36	1.94
246069--246098	2	15.0	2	100	0	60	50	0	0	50	1.00
247085--247137	26	2.0	26	100	0	106	15	32	7	45	1.74
247090--247133	13	3.4	13	74	0	52	13	25	9	52	1.70
247523--247565	22	2.0	22	81	9	52	34	4	39	20	1.74
255179--255236	29	2.0	29	82	0	71	46	10	15	27	1.78
255591--255659	15	4.5	15	80	10	77	63	0	36	0	0.94
255608--255659	11	4.8	11	79	11	63	65	0	34	0	0.93
255609--255662	20	2.7	20	88	5	74	64	0	35	0	0.94
255927--256030	50	2.1	49	82	8	122	35	0	14	50	1.43
259269--259303	18	1.9	18	88	0	52	28	34	17	20	1.95
259894--259937	20	2.1	20	87	8	61	34	0	29	36	1.58
259880--259905	2	13.0	2	100	0	52	50	0	0	50	1.00
262066--262123	20	3.2	20	64	31	58	50	5	6	37	1.52
262056--262123	33	2.1	33	100	0	136	50	5	5	38	1.51
262119--262158	17	2.5	15	88	8	53	52	2	0	45	1.14
262187--262230	22	2.0	22	90	0	70	47	2	4	45	1.35
262208--262248	17	2.5	17	92	4	66	41	4	2	51	1.36
262242--262279	20	1.9	20	94	0	67	50	5	5	39	1.48
262278--262373	11	8.2	11	70	15	59	41	7	3	47	1.47
262282--262373	24	3.8	24	87	5	132	42	7	3	46	1.48
262282--262376	21	4.1	22	71	18	68	42	7	4	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
262379--262453	21	3.4	21	79	16	98	52	8	0	40	1.31
263081--263123	21	2.1	20	83	12	52	58	2	0	39	1.11
264415--264557	64	2.2	64	83	6	173	35	16	22	25	1.94
264433--264557	64	1.9	65	86	3	180	36	16	21	25	1.93
265049--265083	18	1.9	18	88	11	54	54	5	17	22	1.64
265417--265482	2	33.0	2	100	0	132	50	0	0	50	1.00
266032--266344	149	2.1	148	93	2	531	26	17	21	34	1.95
266312--266356	23	2.0	23	90	0	72	22	26	26	24	2.00
269487--269648	64	2.5	63	83	5	191	33	16	21	27	1.95
269523--269659	64	2.1	67	89	8	210	35	16	18	28	1.93
270136--270170	18	1.9	18	88	11	54	54	5	17	22	1.64
271068--271382	149	2.1	149	93	2	535	26	17	21	34	1.95
271350--271394	23	2.0	23	86	0	63	22	24	26	26	2.00
272428--272474	21	2.2	21	96	0	85	29	25	19	25	1.98
272436--272484	21	2.3	21	89	0	71	32	24	14	28	1.94
273444--273486	18	2.4	18	96	0	77	18	16	34	30	1.93
284153--284201	19	2.7	17	84	9	53	26	20	28	24	1.99
284173--284382	65	3.2	64	79	12	232	24	19	24	30	1.98
286279--286329	2	25.5	2	91	0	84	50	0	3	45	1.20
288101--288142	20	2.1	20	86	0	57	52	0	2	45	1.13
288317--288926	55	11.5	54	80	6	510	22	25	20	31	1.98
288316--288935	164	3.9	163	80	5	638	22	25	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
288970--289024	28	2.0	28	86	10	78	23	32	16	27	1.96
288997--289385	53	7.3	53	87	2	539	22	27	20	29	1.98
290097--290243	79	1.9	79	94	0	258	29	20	17	32	1.95
290322--290468	37	4.1	37	87	4	187	23	17	22	36	1.95
290407--290476	32	2.2	32	100	0	140	27	20	20	32	1.97
293751--293789	20	2.0	20	84	0	51	23	5	23	48	1.70
293969--294031	20	2.9	21	79	9	65	15	25	34	23	1.95
300707--300764	26	2.2	26	82	11	66	44	0	8	46	1.34
300749--300780	16	2.0	16	93	0	55	40	0	18	40	1.51
301030--301418	207	1.9	199	86	6	548	36	17	8	37	1.81
301725--301765	21	2.0	21	95	0	73	56	17	0	26	1.41
301782--301833	15	3.5	15	97	0	95	0	36	0	63	0.95
301967--302023	27	2.2	26	81	6	69	22	15	43	17	1.87
302034--302100	29	2.3	29	74	5	73	11	22	38	26	1.89
302835--302865	11	2.8	11	100	0	62	6	6	0	87	0.68
313124--313171	20	2.3	21	89	3	71	66	0	4	29	1.10
315012--315072	23	2.7	23	94	2	106	42	0	19	37	1.52
315183--315286	37	2.8	37	83	0	136	33	11	13	41	1.80
316037--318029	106	18.9	106	93	1	3268	22	18	25	33	1.97
318779--318828	24	2.1	24	88	7	75	58	14	2	26	1.47
324394--324443	24	2.1	24	88	7	75	58	14	2	26	1.47
325257--326159	106	8.5	106	91	0	1412	22	18	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327087--327141	22	2.5	22	96	0	101	25	10	27	36	1.89
327748--327828	7	11.6	7	75	8	58	4	9	4	80	1.01
327750--327833	20	4.1	20	73	19	64	4	10	5	78	1.07
327748--327822	24	3.1	23	83	11	71	5	9	5	80	1.03
329521--329563	21	2.0	21	86	0	59	30	27	25	16	1.97
330908--331116	103	2.0	103	97	0	391	26	13	24	35	1.92
331136--331188	23	2.3	23	90	0	88	18	30	26	24	1.98
334744--334785	21	2.0	21	85	0	57	28	28	26	16	1.97
334814--334858	22	2.0	22	91	4	72	28	33	26	11	1.91
335709--335738	15	2.0	15	93	0	51	53	0	10	36	1.35
338881--338918	18	2.1	19	85	14	53	68	0	23	7	1.16
340046--340101	20	2.9	19	75	19	62	66	1	8	23	1.30
340188--340274	22	3.9	21	77	16	68	65	0	4	29	1.12
340508--340573	23	3.1	22	81	10	66	69	1	0	28	0.97
340965--341065	37	2.8	37	83	1	105	36	12	9	40	1.77
342911--342949	21	1.9	20	89	5	60	38	15	15	30	1.88
345494--345554	10	5.8	11	71	22	51	70	8	3	18	1.26
345484--345558	32	2.3	32	95	0	132	68	8	2	21	1.28
349018--349086	23	3.0	23	80	0	84	31	26	24	17	1.97
349892--349949	20	2.6	22	86	10	75	25	20	20	32	1.97
349956--350057	45	2.3	45	83	5	118	29	19	16	34	1.94
351471--351518	23	2.0	24	84	4	62	64	10	4	20	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
352267--352317	11	4.4	12	78	11	54	29	1	0	68	1.00
352367--352450	29	3.2	29	60	33	71	57	3	2	36	1.29
352390--352466	21	3.0	28	64	25	78	50	5	5	38	1.47
352368--352466	49	2.0	49	100	0	198	52	4	4	39	1.39
352369--352443	21	3.2	21	67	22	60	57	2	2	37	1.27
352517--352556	16	2.4	16	91	4	62	57	0	0	42	0.98
353507--353536	2	15.5	2	93	6	53	50	0	0	50	1.00
353792--353830	2	19.5	2	100	0	78	48	0	0	51	1.00
355000--355062	2	32.5	2	90	6	103	52	0	0	47	1.00
356365--356397	2	16.5	2	100	0	66	51	0	48	0	1.00
362430--362463	17	1.9	18	88	5	52	67	0	0	32	0.91
367427--367525	29	3.4	28	71	15	74	38	9	12	40	1.74
367624--367713	28	3.1	28	78	9	90	41	10	6	42	1.65
367693--367738	25	1.9	24	86	8	67	45	6	6	41	1.56
367989--368017	11	2.6	11	100	0	58	31	20	10	37	1.86
370973--371018	22	2.1	22	88	8	67	47	0	0	52	1.00
371830--371937	37	2.9	37	95	0	198	40	13	10	35	1.79
373550--373616	3	22.3	3	79	11	75	31	4	2	61	1.31
375021--375089	23	3.0	23	71	0	66	33	27	21	17	1.96
382593--382637	21	2.1	21	100	0	90	48	4	20	26	1.68
386689--386733	18	2.4	19	85	14	58	53	8	0	37	1.32
386740--386896	29	5.3	30	79	11	139	40	7	1	50	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
386740--386896	58	2.7	59	79	4	176	40	7	1	50	1.37
386773--386941	88	1.9	86	81	11	200	39	7	1	52	1.39
387904--388015	29	3.9	29	87	3	138	35	6	0	57	1.30
387885--388024	29	4.8	28	79	8	127	35	5	0	58	1.25
388108--388147	19	2.0	20	95	4	73	57	0	0	42	0.98
390734--390795	22	2.8	22	100	0	124	41	27	0	30	1.56
392618--392674	28	2.0	28	96	0	105	28	12	38	21	1.89
392695--392855	81	2.0	81	83	2	207	27	6	32	32	1.82
396303--396394	45	2.0	45	100	0	184	17	11	32	38	1.86
397325--397365	20	2.0	21	90	4	66	43	12	4	39	1.63

Tables:   1   2   3   4   5   6   7   8   9