genome.fa.s8286.2.7.7.80.10.50.1000.2.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: VEPZ01008286.1 Hibiscus syriacus cultivar Beakdansim tig00110949_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  504059

Tables:   1   2   3   

This is table  2  of  3  ( 300 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)
205294--205355	3	21.0	3	86	3	81	62	0	0	37	0.95
205992--206035	15	2.9	16	81	18	58	65	4	0	29	1.12
206119--206158	18	2.2	19	90	4	64	47	5	0	47	1.24
206536--206573	17	2.4	17	86	8	53	26	0	5	68	1.11
210848--210905	24	2.7	20	78	21	71	15	5	36	43	1.69
210955--211033	22	3.6	22	83	6	115	26	16	25	31	1.96
210955--211039	44	1.9	44	95	0	152	25	17	25	30	1.97
211254--211310	18	2.9	19	80	14	71	47	10	10	31	1.72
213922--214081	65	2.5	64	87	7	218	27	18	22	31	1.97
216788--216913	23	5.6	23	72	8	91	26	19	23	30	1.98
216784--216862	21	3.7	21	68	6	59	21	22	22	32	1.98
216784--216913	65	2.0	67	90	4	210	25	20	23	30	1.98
222683--222839	65	2.4	65	84	5	194	29	15	21	33	1.94
223829--223892	22	2.9	22	85	0	92	28	20	21	29	1.98
226134--226189	17	3.3	17	69	0	58	23	16	46	14	1.83
226117--226193	34	2.3	34	83	0	100	28	18	38	14	1.89
226136--226212	34	2.3	33	90	4	118	23	16	42	16	1.88
226149--226221	34	2.1	34	82	5	85	28	15	41	15	1.87
226832--227156	161	2.0	160	98	0	632	24	9	21	44	1.82
233210--233257	23	2.1	23	88	0	69	54	16	8	20	1.68
235823--235858	14	2.6	14	86	0	54	27	0	2	69	1.02
235826--235870	11	4.2	11	85	2	56	24	2	2	71	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
235826--235870	22	2.1	22	87	4	65	24	2	2	71	1.09
237623--237666	17	2.7	16	79	6	52	29	2	4	63	1.26
237629--237682	17	3.2	17	78	7	56	29	1	3	64	1.21
240484--240537	22	2.5	22	82	8	67	35	14	24	25	1.94
248496--248547	22	2.4	22	100	0	104	40	11	25	23	1.88
252815--252859	23	2.0	23	90	0	72	35	26	17	20	1.95
260281--260347	33	2.0	33	94	0	116	23	19	23	32	1.97
273534--273576	19	2.3	19	83	0	50	48	0	0	51	1.00
273603--273636	14	2.5	13	86	9	50	44	0	5	50	1.26
273783--273838	3	18.7	3	100	0	112	32	0	0	67	0.91
274858--275497	321	2.0	323	86	2	892	26	22	23	27	1.99
282471--282594	52	2.4	50	83	2	140	45	16	8	28	1.77
282740--282849	37	3.0	37	77	5	87	42	21	7	28	1.79
283665--283827	83	2.0	83	86	2	229	38	4	11	46	1.61
288110--288159	20	2.5	20	93	0	82	30	6	14	50	1.66
288692--289476	4	198.8	4	79	4	385	45	14	4	35	1.65
288708--289401	8	86.8	8	77	7	424	46	13	3	36	1.59
297910--297951	21	2.0	21	85	0	57	23	16	14	45	1.84
303573--303628	24	2.4	24	85	11	80	42	1	8	46	1.45
303653--303891	36	6.6	38	81	13	160	44	1	6	47	1.36
303651--303840	38	5.2	39	82	12	201	45	1	6	47	1.35
303692--303901	35	6.0	36	84	12	226	43	0	6	49	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
303732--303901	34	4.9	33	80	14	139	42	0	6	50	1.32
303732--303901	69	2.5	70	88	4	222	42	0	6	50	1.32
306011--306048	17	2.2	17	100	0	76	57	7	10	23	1.58
309135--309272	31	4.4	31	84	7	156	26	30	27	15	1.96
309155--309272	63	1.9	62	87	5	175	25	31	27	16	1.96
309566--309638	32	2.3	32	83	6	87	31	28	23	16	1.96
313910--313952	20	2.2	20	87	8	61	39	20	11	27	1.88
318802--318851	19	2.7	19	90	3	75	26	36	10	28	1.88
326582--326621	20	2.0	21	90	5	64	70	2	2	25	1.13
327941--328069	42	3.1	40	77	9	116	27	23	22	26	1.99
328103--328458	39	9.2	39	88	1	500	36	16	17	29	1.92
328463--328676	76	2.8	76	88	3	288	39	14	15	30	1.87
328510--328642	36	3.6	36	70	7	104	41	12	13	32	1.82
328560--328727	38	4.4	39	73	8	128	33	18	14	33	1.92
347474--347501	11	2.5	11	100	0	56	75	0	0	25	0.81
347483--347580	36	2.8	36	80	7	96	72	0	5	22	1.04
347484--347588	33	3.2	33	81	11	92	72	0	4	21	1.09
347517--347599	34	2.4	34	80	11	91	69	1	2	26	1.08
348201--348308	37	2.9	36	89	5	162	32	12	13	41	1.82
348880--349067	83	2.3	85	83	4	240	27	19	22	30	1.98
349134--349370	36	6.7	36	73	16	147	40	13	20	26	1.89
349168--349354	102	1.8	102	83	4	252	40	13	19	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
349265--349373	37	3.0	37	89	2	175	38	13	22	25	1.91
350577--350690	32	3.6	30	74	9	93	35	23	11	28	1.90
351620--351754	69	2.0	69	92	0	225	25	14	21	37	1.92
351826--351886	13	5.0	13	86	11	85	4	14	1	78	0.99
351826--351891	24	2.8	24	82	13	82	4	15	3	77	1.06
355082--355191	39	3.1	35	78	11	102	70	1	1	25	1.06
355049--355163	33	3.5	32	76	16	94	72	0	5	21	1.10
355050--355144	35	2.9	33	80	11	97	73	0	5	21	1.02
355072--355209	36	3.8	36	76	10	104	70	2	2	24	1.12
355114--355210	39	2.5	38	82	12	135	68	3	1	27	1.11
355084--355209	38	3.3	39	78	11	129	69	2	1	26	1.10
355114--355231	39	3.1	36	78	18	107	68	3	1	26	1.14
355760--355871	37	3.0	37	92	0	179	31	13	13	41	1.83
358265--358373	37	2.9	37	77	10	123	46	14	4	33	1.65
358265--358373	38	2.9	38	76	14	118	46	14	4	33	1.65
359928--360932	6	168.0	6	95	2	1495	45	35	2	16	1.62
362676--362823	32	4.6	32	79	0	143	39	16	14	29	1.88
362598--362767	64	2.7	64	79	1	162	38	12	16	32	1.87
362954--363040	42	2.1	42	88	0	129	24	21	14	39	1.91
363539--363623	32	2.8	30	78	7	107	16	14	12	56	1.67
363727--363810	29	2.9	29	89	1	132	17	19	15	47	1.83
364415--364447	17	2.0	17	94	5	59	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370362--370398	18	2.1	19	90	10	60	40	0	0	59	0.97
371597--371655	21	2.7	22	73	5	66	23	25	18	32	1.97
371640--371790	20	7.6	20	90	3	144	31	21	20	26	1.98
371684--371791	20	5.4	20	94	0	153	27	25	20	26	1.99
372611--372664	24	2.2	24	86	0	72	18	18	20	42	1.89
374918--374952	6	5.8	6	86	0	52	60	20	2	17	1.49
375000--375269	140	1.9	140	97	0	513	28	13	15	42	1.84
375240--375399	20	8.6	20	74	16	139	34	24	16	25	1.95
375248--375399	54	2.8	54	89	1	234	34	25	16	23	1.95
375389--375446	20	2.9	21	77	10	68	12	15	27	44	1.82
375611--375654	7	6.1	7	82	12	54	45	29	0	25	1.54
375611--375654	14	3.1	14	90	3	61	45	29	0	25	1.54
377224--377283	23	2.6	23	81	2	66	28	15	25	31	1.95
380673--380925	70	3.6	70	97	0	470	51	18	15	15	1.76
388346--388392	25	2.0	25	87	8	71	51	4	19	25	1.65
394495--394573	26	3.0	26	100	0	158	35	7	26	30	1.84
395284--395332	16	3.1	16	81	0	62	57	16	6	20	1.60
396047--396116	34	2.1	32	84	5	86	22	28	15	32	1.95
396483--396576	20	4.7	20	88	2	125	29	23	28	18	1.97
396483--396576	41	2.3	40	87	5	127	29	23	28	18	1.97
396620--396671	21	2.5	21	96	0	95	21	17	40	21	1.91
404286--404349	21	3.0	21	77	9	58	23	34	23	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408279--408384	31	3.4	30	77	8	97	33	19	17	29	1.95
408264--408384	63	2.0	61	86	6	172	31	20	17	30	1.96
409553--409679	45	2.8	45	82	0	155	22	18	18	40	1.92
409566--409639	15	4.9	15	71	0	58	22	17	18	40	1.91
409607--409646	15	2.7	15	84	0	53	20	17	15	47	1.83
410712--410949	129	1.9	128	92	2	408	42	23	5	28	1.77
412456--412514	23	2.6	23	78	5	66	57	3	0	38	1.15
424744--424787	17	2.6	17	85	3	54	34	4	6	54	1.47
426635--426677	21	2.0	21	90	0	68	32	27	23	16	1.96
427568--427592	2	12.5	2	100	0	50	48	0	0	52	1.00

Tables:   1   2   3