genome.fa.s8653.2.7.7.80.10.50.1000.2.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: VEPZ01008653.1 Hibiscus syriacus cultivar Beakdansim tig00111644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1778368

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1032 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)
257289--257499	40	5.1	43	70	19	164	45	3	4	45	1.42
257448--257527	36	2.2	36	86	8	110	48	1	3	46	1.28
257260--257521	84	3.2	80	77	13	240	45	3	4	46	1.41
257509--257593	17	5.5	15	73	14	66	42	0	4	52	1.22
257506--257585	32	2.5	32	89	0	115	46	0	5	48	1.24
257506--257594	15	5.8	15	71	15	65	43	0	5	50	1.25
257664--257725	3	20.7	3	76	12	56	30	4	1	62	1.25
257661--257721	19	3.3	19	75	9	63	31	4	1	62	1.26
258959--258994	4	9.0	4	87	0	54	27	2	0	69	1.02
259342--259378	8	4.5	8	86	6	56	18	0	0	81	0.70
259425--259478	24	2.4	22	79	14	65	20	3	9	66	1.35
259425--259484	23	2.7	21	78	14	66	20	3	8	68	1.30
262667--262707	20	2.0	20	100	0	82	34	0	14	51	1.43
268848--268890	5	8.8	5	84	5	52	20	51	20	6	1.71
268851--268891	19	2.2	19	86	0	55	19	51	21	7	1.71
268887--268924	7	5.6	7	81	6	51	18	28	26	26	1.98
268900--268924	13	1.9	13	100	0	50	16	32	28	24	1.96
272752--272913	81	2.0	80	89	3	245	43	9	8	38	1.66
273156--273453	20	14.6	20	76	9	129	38	20	23	16	1.92
273260--273453	63	3.1	63	83	3	225	35	19	26	18	1.95
273301--273451	40	3.7	40	88	2	185	35	18	27	17	1.94
273440--273483	20	2.2	20	91	0	70	56	15	15	11	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
273156--273471	60	5.2	60	73	7	181	40	19	23	16	1.91
273565--273647	5	15.6	5	96	3	105	26	54	19	0	1.44
274328--274383	6	9.5	6	98	1	105	0	16	51	32	1.44
274461--274504	20	2.2	20	91	0	70	11	18	15	54	1.70
274491--274788	20	14.6	20	76	7	152	18	23	19	38	1.93
274493--274684	40	4.7	40	80	5	222	20	25	17	35	1.95
274501--274684	83	2.2	83	92	0	296	21	26	17	35	1.95
274505--274663	63	2.6	59	76	9	174	22	26	17	33	1.96
274738--274788	19	2.6	20	90	3	77	15	17	23	43	1.88
275317--275389	19	3.6	19	81	16	85	26	2	5	65	1.27
275335--275417	23	3.7	23	76	7	89	25	3	6	65	1.32
275317--275417	4	26.5	4	67	9	59	23	2	6	66	1.30
275426--275483	23	2.5	23	88	0	57	29	5	1	63	1.25
277654--277706	18	3.0	18	75	2	54	33	5	3	56	1.41
281394--281481	19	4.8	19	73	12	60	22	18	34	25	1.96
281428--281476	19	2.5	19	86	3	62	20	12	40	26	1.87
283507--283553	19	2.6	18	80	9	51	53	14	6	25	1.65
284757--284810	21	2.5	22	88	8	76	29	16	27	25	1.97
285907--286012	2	53.0	2	100	0	212	50	0	0	50	1.00
286435--286471	18	2.1	18	100	0	74	24	16	32	27	1.96
289854--289896	21	2.0	21	100	0	86	16	13	37	32	1.88
290055--290110	22	2.5	22	94	0	94	30	19	23	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
291588--291660	18	4.1	18	89	0	110	20	21	30	27	1.98
298922--298999	32	2.5	31	83	8	95	30	29	28	11	1.92
305678--305744	23	3.0	23	86	4	91	23	25	26	23	2.00
305662--305744	22	3.8	21	82	9	85	24	27	26	21	1.99
308077--308144	31	2.2	31	92	2	111	50	4	7	38	1.51
308159--308191	13	2.5	13	100	0	66	36	9	9	45	1.68
309478--309522	18	2.5	18	81	0	54	51	17	6	24	1.70
309655--309744	30	3.0	30	96	0	162	26	21	28	23	1.99
309683--309736	17	3.4	17	65	19	53	24	20	31	24	1.98
309744--309781	14	2.8	14	88	4	51	26	18	26	28	1.98
311350--311401	26	2.0	26	96	0	95	30	9	19	40	1.83
314855--314908	20	2.8	20	85	2	74	38	12	16	31	1.87
318016--318088	19	3.9	18	72	15	51	41	12	13	32	1.82
322337--322362	4	6.5	4	100	0	52	76	0	0	23	0.78
326752--326777	11	2.4	11	100	0	52	50	34	0	15	1.45
329126--329189	29	2.2	28	78	10	76	46	14	14	25	1.81
343355--343547	91	2.1	92	90	2	300	27	22	20	28	1.99
343355--343489	45	3.0	45	67	14	116	28	24	20	26	1.99
343249--343669	224	1.9	227	87	2	634	28	24	17	30	1.97
343480--343849	181	2.0	181	90	1	571	28	23	17	30	1.97
343661--344595	133	7.1	134	82	4	1062	29	23	17	29	1.97
347694--347761	5	13.8	5	76	17	63	76	2	1	19	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350807--350843	18	2.1	18	89	0	56	18	18	13	48	1.80
352068--352103	14	2.6	14	100	0	72	33	8	41	16	1.78
353286--353343	23	2.5	23	77	0	62	37	31	13	17	1.89
353520--353575	23	2.6	22	81	15	64	10	12	1	75	1.14
353549--353581	16	2.0	16	94	5	57	12	12	6	69	1.35
356048--356097	10	5.0	10	82	0	55	26	30	0	44	1.55
356122--356166	23	2.0	22	83	12	56	31	0	4	64	1.13
356136--356174	18	2.2	18	95	4	71	33	0	2	64	1.08
361831--361889	30	2.0	30	82	0	73	30	16	6	45	1.74
361892--361957	12	5.6	12	72	3	62	28	21	12	37	1.89
361894--361957	24	2.7	23	85	2	83	29	18	12	39	1.88
361898--361957	23	2.5	24	83	2	77	30	20	11	38	1.88
363812--363877	12	5.6	12	80	3	80	28	21	15	34	1.93
363814--363877	24	2.7	23	90	2	92	29	18	15	35	1.92
363818--363877	23	2.5	24	89	2	86	30	20	15	35	1.93
363955--364050	38	2.5	38	91	0	147	27	27	19	26	1.99
363988--364055	21	3.5	20	71	17	70	26	26	20	26	1.99
366832--366856	12	2.1	12	100	0	50	8	8	0	84	0.79
368855--368888	17	2.0	17	94	0	59	17	35	8	38	1.81
369326--369389	23	2.7	23	82	2	74	28	18	14	39	1.90
369335--369389	23	2.3	24	84	3	76	27	21	12	38	1.90
369469--369533	17	3.6	17	69	15	58	32	32	15	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369467--369562	38	2.5	38	89	0	147	29	29	17	23	1.97
372354--372389	15	2.4	15	86	13	56	13	16	0	69	1.19
374809--374872	24	2.7	23	82	2	74	29	18	10	40	1.85
374813--374872	23	2.5	24	81	2	68	30	20	10	40	1.85
374948--375045	38	2.6	38	90	0	151	27	26	20	25	1.99
377878--377935	10	5.6	10	84	8	71	68	3	5	22	1.24
377878--377935	21	2.8	20	82	7	71	68	3	5	22	1.24
377998--378022	11	2.3	11	100	0	50	76	0	0	24	0.80
378291--378339	22	2.2	22	85	7	64	48	4	0	46	1.20
378713--378737	11	2.3	11	100	0	50	24	0	0	76	0.80
378797--378856	10	5.8	10	78	7	57	21	5	3	70	1.22
380388--380444	20	2.9	20	68	2	53	35	15	21	28	1.94
381647--381885	120	2.0	120	96	0	442	35	13	16	34	1.88
383811--383857	21	2.3	21	85	10	62	27	4	0	68	1.08
384139--384195	10	5.6	10	78	12	62	68	5	1	24	1.20
384245--384295	27	1.9	26	84	4	66	50	1	0	47	1.12
384962--384992	2	15.5	2	100	0	62	51	0	48	0	1.00
387435--387536	37	2.7	37	86	6	125	39	35	11	13	1.82
387452--387536	37	2.3	38	89	2	127	38	35	12	12	1.82
390634--390772	2	70.0	2	94	1	208	2	49	2	45	1.29
394543--394615	36	2.0	36	92	5	121	21	21	26	30	1.99
401867--401919	20	2.5	20	84	9	61	32	20	11	35	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402435--402473	19	2.1	19	95	0	69	28	38	5	28	1.78
402438--402479	19	2.2	19	86	0	57	28	40	4	26	1.76
410383--410519	45	3.0	45	93	2	229	30	10	21	37	1.88
420168--420207	9	4.6	9	96	3	73	77	0	10	12	0.99
420184--420263	30	2.7	29	82	7	99	76	0	13	10	1.02
420154--420299	9	17.1	8	71	15	64	74	0	15	9	1.10
420214--420292	14	5.1	16	75	20	71	73	1	18	6	1.11
420150--420299	68	2.2	70	80	12	159	74	0	16	9	1.11
420214--420349	43	3.1	42	75	13	116	72	0	19	7	1.13
420303--420336	12	2.7	13	90	4	52	70	0	20	8	1.13

Tables:   1   2   3   4   5   6   7   8   9