genome.fa.s8342.2.7.7.80.10.50.1000.2.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: VEPZ01008342.1 Hibiscus syriacus cultivar Beakdansim tig00111069_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1228932

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 636 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)
330212--330398	64	3.0	63	78	10	204	32	19	17	30	1.95
330961--330986	2	13.0	2	100	0	52	50	0	0	50	1.00
333120--333148	3	10.0	3	92	7	51	68	0	31	0	0.89
340099--340128	7	4.3	7	100	0	60	73	0	26	0	0.84
340541--340570	12	2.4	12	94	5	51	80	0	0	20	0.72
346866--346925	28	2.1	28	96	0	111	26	3	53	16	1.59
357663--357701	17	2.3	17	95	0	69	38	2	17	41	1.64
357788--357829	14	2.7	16	78	17	52	45	2	0	52	1.13
357777--357840	15	4.2	15	74	18	60	46	1	1	50	1.20
362483--362520	20	1.9	20	100	0	76	55	18	15	10	1.68
367657--367695	20	2.0	20	90	10	62	28	20	7	43	1.79
367764--367788	13	1.9	13	100	0	50	12	0	8	80	0.92
368709--368733	4	6.2	4	100	0	50	52	0	0	48	1.00
368899--369047	74	2.0	74	98	0	289	43	4	7	44	1.50
370316--370365	25	2.0	25	100	0	100	56	8	4	32	1.47
371891--372173	119	2.4	120	86	3	374	49	7	9	33	1.65
377034--377121	24	3.8	24	73	7	74	10	14	18	56	1.65
377023--377122	23	4.3	23	75	1	92	12	13	18	57	1.66
377132--377210	31	2.5	31	97	0	149	44	26	15	13	1.84
379370--379433	29	2.2	29	86	5	85	17	31	28	23	1.97
379492--379576	29	2.9	29	89	6	136	15	35	29	20	1.93
379594--379652	23	2.6	23	86	5	75	13	35	23	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
381456--381632	21	8.5	21	77	5	164	31	23	20	24	1.98
381456--381632	42	4.3	42	84	5	182	31	23	20	24	1.98
381512--381639	41	3.1	41	79	5	125	32	21	20	25	1.97
381622--381717	21	4.6	21	89	2	140	22	21	27	28	1.99
381567--381695	41	3.1	40	79	10	118	27	20	24	27	1.99
381761--381836	21	3.6	21	79	10	84	25	21	22	31	1.98
381597--381843	133	1.9	132	88	5	372	27	21	23	27	1.99
381926--381950	6	4.2	6	100	0	50	36	48	16	0	1.46
382445--382481	6	6.5	6	96	3	60	0	16	54	29	1.43
382480--382521	6	7.0	6	100	0	84	50	0	16	33	1.46
384296--384334	20	2.0	20	90	5	62	35	0	0	64	0.94
384589--384614	2	13.0	2	100	0	52	50	0	0	50	1.00
385217--385365	60	2.5	60	83	2	174	42	5	20	31	1.75
385269--385395	60	2.1	60	77	2	130	44	5	18	32	1.72
387289--387313	13	1.9	13	100	0	50	40	12	24	24	1.88
388453--388555	54	1.9	53	88	5	154	38	21	17	22	1.93
392547--392806	132	2.0	132	96	0	475	39	15	11	33	1.83
393911--393943	17	1.9	18	88	11	52	57	0	0	42	0.98
396470--397770	650	2.0	649	99	0	2566	24	16	23	35	1.95
403305--403437	50	2.5	52	86	6	180	39	15	16	28	1.89
406862--406913	21	2.5	21	87	0	68	19	15	26	38	1.91
406830--407036	68	3.0	68	89	4	290	26	18	21	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407682--407711	13	2.3	13	94	0	51	60	0	36	3	1.14
418893--418976	39	2.2	39	95	0	150	7	42	33	16	1.75
420444--420507	16	3.5	17	75	19	58	68	0	7	23	1.15
421063--421216	50	3.0	52	80	7	179	50	11	11	26	1.72
421068--421253	52	3.6	53	77	7	141	48	14	11	25	1.78
423037--423117	41	2.0	41	100	0	162	41	25	7	24	1.81
429341--429394	2	27.0	2	100	0	108	50	0	0	50	1.00
429453--429495	22	2.0	22	86	9	61	60	0	0	39	0.97
442854--442879	3	8.7	3	100	0	52	69	30	0	0	0.89
442893--442995	51	2.0	51	100	0	206	36	7	29	26	1.84
444666--444707	21	2.0	21	85	0	57	50	0	0	50	1.00
444614--444699	26	3.3	26	79	4	77	46	1	1	51	1.16
455916--455978	30	2.1	30	100	0	126	34	17	6	41	1.75
457362--457446	33	2.5	35	86	5	122	50	14	11	23	1.75
457677--457718	2	21.0	2	100	0	84	50	0	0	50	1.00
457816--457862	24	1.9	25	86	4	69	25	17	2	55	1.53
458004--458076	31	2.4	31	100	0	146	24	9	30	35	1.87
458333--458394	25	2.5	25	94	0	106	11	33	25	29	1.91
464499--464549	24	2.1	25	85	10	70	45	7	0	47	1.32
466854--466897	23	1.9	23	82	17	56	15	11	0	72	1.11
467232--467269	11	3.5	11	85	7	60	89	10	0	0	0.49
467236--467261	9	2.9	9	100	0	52	92	7	0	0	0.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
471576--471614	11	3.5	11	89	10	53	17	12	0	69	1.19
473926--473956	14	2.1	15	94	5	55	32	0	6	61	1.21
477139--477199	23	2.7	23	79	7	70	67	9	0	22	1.20
477305--477383	25	3.4	25	67	25	82	70	6	2	20	1.20
477218--477420	44	4.6	44	88	6	297	67	7	3	21	1.30
477373--477422	19	2.5	20	80	6	57	70	4	2	24	1.15
477218--477420	89	2.3	88	89	6	297	67	7	3	21	1.30
478578--478617	21	1.9	21	85	10	55	57	10	0	32	1.32
490082--490122	20	2.0	20	85	0	55	48	0	19	31	1.49
492546--492585	14	2.9	14	84	0	53	42	0	7	50	1.30
497985--498032	2	24.5	2	95	4	89	52	0	47	0	1.00
507385--507424	21	1.9	21	94	0	71	22	25	22	30	1.99
512004--512055	22	2.4	22	96	0	95	32	11	5	50	1.62
512454--512503	22	2.3	21	86	3	73	66	10	8	16	1.44
513407--513479	36	2.0	36	91	0	119	13	15	32	38	1.86
513636--513685	15	3.4	15	86	5	66	36	8	20	36	1.82
513628--513685	15	3.9	15	81	4	55	39	6	20	32	1.79
513687--513727	14	2.9	14	88	0	55	29	14	19	36	1.92
514012--514074	23	2.7	23	80	5	63	46	1	1	50	1.20
514050--514124	20	3.8	20	73	14	59	44	1	0	54	1.08
514049--514213	59	2.9	56	75	19	146	47	1	0	50	1.11
514175--514218	22	2.0	23	86	4	63	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514146--514226	31	2.5	33	83	15	100	50	0	0	49	1.00
514410--514525	42	2.8	43	84	6	150	47	16	16	19	1.83
516154--516191	2	18.5	2	89	5	58	50	0	2	47	1.15
516947--517008	31	2.0	31	100	0	124	22	6	19	51	1.69
517520--517643	20	6.3	20	87	3	189	46	24	12	16	1.81
517516--517643	58	2.2	59	91	4	206	47	23	11	17	1.80
517798--517848	22	2.3	22	82	0	75	19	43	13	23	1.87
518199--518356	20	8.2	20	78	10	150	12	16	22	48	1.80
518213--518317	55	1.9	54	88	1	156	12	16	23	47	1.80
521641--521697	3	19.0	3	92	7	98	66	0	0	33	0.92
521648--521724	19	4.3	17	77	19	52	71	1	0	27	0.94
521645--521725	6	14.2	5	83	11	54	71	1	0	27	0.93
521642--521724	31	2.7	30	83	9	98	71	1	0	27	0.94
521641--521720	9	8.7	10	79	20	79	70	1	0	28	0.96
522143--522276	19	7.2	19	68	22	72	23	21	8	46	1.79
522124--522276	38	4.1	38	89	5	224	24	20	9	45	1.81
522219--523059	112	7.5	112	88	5	1152	29	19	13	38	1.89
522219--523059	225	3.8	225	91	3	1256	29	19	13	38	1.89
522219--523059	337	2.5	334	89	5	1236	29	19	13	38	1.89
523496--523550	22	2.5	22	87	0	83	38	16	12	32	1.86
523891--524091	54	3.8	53	83	6	232	24	21	14	38	1.92
523891--524091	104	1.9	104	85	6	278	24	21	14	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526208--526548	114	3.0	114	94	0	574	31	20	14	33	1.93
528801--528826	9	2.9	9	100	0	52	7	0	0	92	0.39
529125--529155	2	15.5	2	100	0	62	51	0	0	48	1.00
532142--532195	14	3.8	14	80	2	54	50	9	14	25	1.73
533772--533813	17	2.5	17	81	14	52	71	2	0	26	0.98
535875--535925	3	17.0	3	92	8	86	66	0	0	33	0.92
535876--535952	19	4.3	17	77	19	52	71	1	0	27	0.94
535879--535953	6	13.2	5	82	12	51	72	1	0	26	0.93
535875--535952	31	2.6	30	82	10	88	70	1	0	28	0.95
536678--536776	21	4.7	21	74	9	94	24	31	19	25	1.98

Tables:   1   2   3   4   5   6