genome.fa.s417.2.7.7.80.10.50.1000.2.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: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2005044

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1058 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)
256502--257523	421	2.4	421	91	3	1597	50	8	11	29	1.67
256502--257523	210	4.8	210	93	1	1593	50	8	11	29	1.67
257547--257655	2	54.5	2	70	13	73	47	0	6	44	1.34
257547--257655	35	3.2	35	78	6	109	47	0	6	44	1.34
257798--257863	22	2.9	22	86	11	80	43	0	6	50	1.27
257834--257863	2	14.5	2	93	6	51	46	0	3	50	1.18
257924--257993	20	3.2	20	74	18	68	37	8	1	52	1.41
257961--258105	18	7.7	18	71	21	100	42	8	6	42	1.61
257960--258145	33	5.2	33	74	20	133	42	8	6	42	1.61
257996--258199	20	10.7	20	67	24	86	41	8	7	42	1.64
257960--258160	38	5.4	39	78	16	173	42	8	6	42	1.61
258135--258259	2	60.0	2	70	19	78	41	4	4	48	1.45
258084--258210	33	4.1	33	78	13	160	40	9	6	43	1.62
258194--258281	22	4.0	22	79	8	72	44	3	3	48	1.36
258135--258254	53	2.3	52	83	7	163	41	5	4	49	1.44
258303--258535	33	6.5	33	70	16	144	43	6	6	42	1.57
258366--258549	51	3.5	51	86	10	280	44	6	5	43	1.54
258303--258444	73	1.9	73	91	0	230	45	5	5	42	1.51
258330--258444	2	55.0	2	67	23	51	46	5	5	42	1.48
258327--258546	18	12.1	18	70	18	134	44	6	6	42	1.56
258414--258535	58	2.1	58	92	0	208	42	6	7	43	1.58
258370--258570	109	1.8	109	89	4	316	44	6	5	43	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
258533--258590	26	2.3	25	82	8	64	53	3	3	39	1.35
258605--258742	62	2.2	61	84	3	179	50	4	9	36	1.55
261260--261306	14	3.7	14	71	26	50	51	4	0	44	1.21
261258--261307	23	2.1	24	96	3	93	48	4	0	48	1.20
261576--261630	16	3.4	16	92	0	92	38	14	27	20	1.91
261922--261979	24	2.4	24	88	0	80	39	18	15	25	1.91
264372--264396	3	8.3	3	100	0	50	0	32	0	68	0.90
268939--268963	6	4.2	6	100	0	50	52	0	0	48	1.00
270395--270505	42	2.6	42	94	0	186	19	19	16	44	1.87
270706--270751	10	4.5	10	78	21	51	41	0	0	58	0.98
270677--270739	23	2.6	25	78	19	71	50	0	0	49	1.00
270694--270755	21	3.0	23	84	13	73	45	0	0	54	0.99
270782--270865	24	3.5	24	73	13	77	39	1	2	57	1.20
270782--270861	26	3.3	24	81	8	81	40	1	2	56	1.21
270924--270988	15	4.4	14	71	19	51	44	0	1	53	1.09
271059--271108	20	2.5	20	100	0	100	34	16	10	40	1.81
271091--271172	15	5.5	15	86	2	112	35	20	7	36	1.81
271091--271172	30	2.8	30	92	1	130	35	20	7	36	1.81
271091--271177	45	2.0	44	90	2	138	33	20	6	39	1.79
271895--271981	7	12.7	7	69	9	54	35	0	0	64	0.94
271885--271990	33	3.2	33	90	2	176	38	0	0	61	0.96
273044--273199	78	2.0	79	94	1	278	33	14	12	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277990--278027	19	2.0	19	100	0	76	47	15	15	21	1.82
293047--293085	20	2.0	20	100	0	78	38	0	0	61	0.96
293305--293347	13	3.4	13	84	12	54	39	4	0	55	1.20
293305--293355	25	2.0	25	85	7	68	37	3	1	56	1.29
302117--302147	2	15.5	2	100	0	62	51	0	48	0	1.00
311312--311347	14	2.6	14	100	0	72	36	13	36	13	1.85
311815--311897	30	2.9	29	76	16	75	21	8	4	65	1.39
311889--311926	20	1.9	20	89	10	60	21	5	0	73	1.02
315809--316068	100	2.6	99	85	2	353	32	17	18	31	1.94
316850--318359	83	18.3	83	84	3	1850	34	23	16	24	1.95
318607--318668	31	2.0	31	96	0	115	45	17	35	1	1.59
318614--318668	19	3.3	18	67	32	50	45	16	36	1	1.58
320781--320846	15	4.4	15	73	19	57	53	0	4	42	1.21
320784--320877	22	4.0	24	73	15	72	52	2	4	41	1.33
320784--320859	23	3.3	22	73	14	64	52	0	3	43	1.19
320792--320848	29	2.0	28	83	13	71	52	0	3	43	1.18
320847--321085	121	2.0	119	86	4	329	37	13	6	42	1.70
329542--329570	15	1.9	15	100	0	58	20	0	17	62	1.33
336267--336296	14	2.1	14	100	0	60	46	20	6	26	1.75
338506--338545	21	1.9	21	85	10	55	30	0	12	57	1.36
338506--338546	20	2.0	21	85	4	57	31	0	12	56	1.36
339720--339747	6	4.7	6	100	0	56	35	46	0	17	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345475--345499	13	1.9	13	100	0	50	68	16	8	8	1.38
359336--359362	2	13.5	2	100	0	54	51	0	0	48	1.00
360609--360703	46	2.1	46	95	0	172	37	11	22	28	1.89
369211--369268	26	2.2	26	90	9	91	56	1	0	41	1.09
369856--369897	13	3.2	13	80	16	50	69	4	0	26	1.08
370398--370490	20	4.6	20	74	12	75	32	26	11	29	1.92
370438--370498	21	3.0	21	83	13	74	32	24	13	29	1.93
370400--370550	40	3.7	41	78	6	119	30	23	11	33	1.91
370440--370551	20	5.6	20	74	7	75	31	22	11	34	1.90
370707--370746	16	2.6	15	84	7	53	27	5	0	67	1.11
373648--373683	18	2.0	18	88	0	54	55	22	2	19	1.56
373886--373988	29	3.9	29	71	21	107	25	27	18	29	1.98
373899--374008	49	2.2	49	91	0	175	23	24	17	34	1.96
373975--374013	20	2.0	20	94	0	69	17	17	20	43	1.88
374139--374166	14	2.0	14	100	0	56	42	21	0	35	1.53
375509--375580	21	3.4	21	77	11	76	23	22	31	22	1.98
375514--375602	42	2.1	42	81	8	101	28	19	33	19	1.96
378108--378160	22	2.4	22	87	0	88	24	13	39	22	1.90
378269--378306	20	2.0	20	89	5	60	47	10	15	26	1.78
379486--379531	17	2.6	18	76	13	51	56	2	6	34	1.37
382874--382930	3	19.3	3	79	16	66	40	0	0	59	0.97
382874--382930	20	2.7	22	86	10	84	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384425--384464	21	1.9	21	85	10	55	50	0	0	50	1.00
386650--386703	14	3.8	14	82	4	63	24	14	9	51	1.71
389987--390028	7	6.1	7	83	5	50	85	0	14	0	0.59
392280--392620	114	3.0	114	94	0	574	32	15	20	31	1.94
394738--394938	54	3.8	52	81	7	212	38	14	21	24	1.91
395310--395364	22	2.5	22	81	0	74	36	12	10	40	1.79
395764--396101	113	3.0	113	95	0	588	38	14	18	28	1.90
396745--396801	3	19.3	3	79	16	66	40	0	0	59	0.97
396745--396801	20	2.7	22	86	10	84	40	0	0	59	0.97
405227--405341	32	3.6	32	79	2	106	27	28	24	19	1.98
405977--406037	23	2.7	23	78	0	77	29	26	24	19	1.99
410254--410295	21	2.0	21	90	0	66	28	23	23	23	2.00
410781--410842	30	2.1	29	82	11	72	35	22	1	40	1.64
410842--410899	30	1.9	30	89	0	89	27	24	10	37	1.88
413445--413475	2	15.5	2	100	0	62	51	0	0	48	1.00
413743--413821	3	27.0	3	75	12	67	70	2	0	26	0.99
415695--415745	24	2.1	25	88	3	77	23	25	25	25	2.00
415707--415792	26	3.5	25	77	12	72	26	27	19	25	1.99
421494--421561	24	2.8	25	77	4	66	25	19	22	33	1.97
423546--424182	111	5.9	105	77	9	604	23	18	23	34	1.96
423492--424182	106	6.4	110	79	7	743	23	18	23	33	1.97
423492--424192	217	3.2	217	91	1	1095	24	18	23	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425299--425340	6	6.8	6	84	15	59	0	16	0	83	0.65
425305--425341	11	3.3	11	92	3	56	0	16	0	83	0.64
435848--435897	22	2.2	23	82	10	59	72	8	10	10	1.30
435913--435957	23	2.0	22	83	8	56	77	4	8	8	1.10
436171--436299	58	2.2	60	77	12	135	65	2	3	27	1.22
436245--436304	24	2.5	24	83	2	77	65	3	1	30	1.19
436269--436332	18	3.6	17	81	6	65	62	0	3	34	1.11
436262--436315	3	18.0	3	84	7	74	62	1	0	35	1.06
437499--437541	16	2.4	18	85	14	54	53	4	0	41	1.21
441510--441958	240	1.9	240	97	0	844	38	2	19	39	1.65

Tables:   1   2   3   4   5   6   7   8   9