genome.fa.s3170.2.7.7.80.10.50.1000.2.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: VEPZ01003170.1 Hibiscus syriacus cultivar Beakdansim tig00006666_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  749787

Tables:   1   2   3   

This is table  2  of  3  ( 344 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)
308049--308240	78	2.4	80	83	7	241	42	7	3	46	1.49
310030--310088	23	2.4	24	78	16	68	30	1	3	64	1.20
310388--310481	15	5.9	15	68	16	55	38	2	2	57	1.23
310197--310503	137	2.3	127	80	10	325	37	6	8	47	1.58
310539--310585	20	2.3	20	80	20	53	48	4	0	46	1.21
311066--311132	18	3.3	20	78	16	68	34	2	1	61	1.20
315783--315926	72	2.0	72	86	0	198	25	20	18	35	1.95
321463--321494	13	2.4	14	90	10	50	43	0	0	56	0.99
321489--321559	3	24.0	3	92	2	117	63	0	2	33	1.09
321863--322522	113	5.9	112	86	8	785	30	20	12	36	1.90
321863--322522	112	5.9	112	88	6	869	30	20	12	36	1.90
322476--322778	149	2.0	153	96	2	569	38	15	12	34	1.84
323293--323738	83	5.4	83	95	1	785	35	20	14	28	1.92
324849--324918	9	8.0	9	77	6	72	0	17	0	82	0.66
324847--324914	19	3.5	19	82	13	86	0	17	0	82	0.67
324851--324914	16	3.8	16	74	23	60	0	17	0	82	0.66
324858--324918	14	4.5	14	77	22	60	0	18	0	81	0.68
324853--324917	28	2.3	27	85	12	87	0	16	0	83	0.66
334938--334974	14	2.6	15	83	12	51	51	8	2	37	1.46
337642--337671	14	2.1	15	93	6	53	40	0	0	60	0.97
337670--337728	3	19.7	3	92	0	100	62	0	1	35	1.05
337955--338031	22	3.5	22	80	0	82	33	12	12	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
338734--339180	73	6.1	73	97	0	804	30	19	13	36	1.91
339334--339417	3	28.3	3	73	7	73	41	1	1	55	1.15
340745--341096	136	2.6	137	84	8	440	37	7	9	45	1.65
344757--344854	48	2.0	48	100	0	196	50	4	4	41	1.40
347601--347875	134	2.1	134	98	0	532	32	19	15	32	1.93
348182--348285	4	24.8	4	70	13	66	25	5	2	66	1.28
348238--348281	18	2.4	18	92	0	70	29	2	2	65	1.16
350370--350419	22	2.3	22	96	0	91	28	16	8	48	1.74
350367--350443	27	3.1	27	75	17	69	24	12	7	54	1.64
350390--350450	27	2.2	28	79	5	70	22	16	6	54	1.65
357397--357431	18	1.9	18	94	0	61	20	14	34	31	1.92
357733--357771	21	1.9	20	89	5	60	58	2	12	25	1.47
358340--359522	81	14.6	81	87	0	1585	34	12	21	31	1.91
360561--360610	22	2.3	22	93	6	84	22	16	26	36	1.94
369805--369956	61	2.5	61	86	0	205	30	28	15	25	1.96
371144--371596	59	7.7	57	73	13	316	30	24	11	34	1.90
371198--371571	117	3.2	117	89	3	531	31	24	10	33	1.89
371105--371471	176	2.1	176	80	10	412	30	23	10	34	1.89
371144--371531	176	2.2	175	79	9	382	30	23	10	34	1.89
373676--373734	30	2.0	30	86	3	84	37	20	6	35	1.79
376242--376304	20	3.2	20	93	0	108	49	22	12	15	1.79
376849--376922	34	2.2	34	100	0	148	10	18	20	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378632--378672	21	2.0	21	95	0	73	17	17	31	34	1.93
378666--378784	62	1.9	61	84	6	159	21	14	32	31	1.93
379108--379199	21	4.4	21	95	0	157	20	36	19	22	1.95
380741--380796	20	2.8	20	97	0	103	35	21	19	23	1.96
380848--380920	34	2.1	34	84	0	92	30	23	20	26	1.99
381201--381235	6	5.8	6	86	0	52	17	2	20	60	1.49
381992--382062	20	3.5	20	90	1	97	32	12	23	30	1.92
381984--382065	20	4.0	21	88	1	80	32	12	23	31	1.91
386646--386687	21	2.0	21	90	9	68	45	7	4	42	1.52
389613--389646	16	2.2	16	89	5	52	35	0	0	64	0.94
390239--390280	15	2.8	16	89	7	61	45	23	0	30	1.53
390793--390829	19	1.9	19	94	0	65	35	27	16	21	1.94
390793--390841	19	2.5	19	86	3	62	36	26	16	20	1.93
390855--390903	20	2.5	20	89	0	71	20	30	24	24	1.98
394008--394044	12	3.1	12	88	0	56	45	29	8	16	1.76
394096--394378	140	2.0	140	96	0	521	28	12	15	43	1.83
394349--394425	20	3.8	20	94	0	136	32	23	19	24	1.97
394464--394527	20	3.2	20	90	0	92	15	17	20	46	1.83
394464--394541	40	2.0	40	86	0	111	15	16	23	44	1.85
394476--394541	20	3.3	20	91	0	96	15	15	24	45	1.84
396034--396156	42	2.9	41	75	11	115	27	17	32	21	1.96
396045--396151	21	5.1	21	75	4	81	27	17	33	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396631--396674	20	2.2	20	95	0	79	50	22	13	13	1.77
396661--396753	20	4.7	20	89	0	141	38	23	21	16	1.92
396661--396753	40	2.3	40	92	0	159	38	23	21	16	1.92
396865--396913	20	2.5	20	96	0	89	14	22	26	36	1.92
398823--398928	20	5.4	20	80	5	110	45	22	16	15	1.85
399582--399618	19	1.9	19	88	0	56	24	16	27	32	1.96
400322--400435	44	2.6	44	91	2	185	46	1	8	42	1.45
400664--400766	51	2.0	51	94	0	179	42	10	20	26	1.84
405885--405909	3	8.3	3	100	0	50	0	36	0	64	0.94
411246--411339	30	3.5	27	77	11	77	42	4	0	53	1.20
411246--411313	25	2.7	26	77	6	77	44	2	0	52	1.16
417409--417496	38	2.2	42	86	10	121	29	19	22	28	1.98
418313--418378	19	3.3	19	76	15	69	33	19	22	24	1.97
418387--418434	21	2.3	21	88	0	69	18	16	31	33	1.94
418770--418830	31	2.0	31	83	6	79	39	9	4	45	1.59
419822--419850	8	3.6	8	100	0	58	89	0	0	10	0.48
421836--421904	18	3.8	18	88	0	93	27	33	17	21	1.96
434355--434409	18	3.1	18	97	0	101	23	32	21	21	1.98
439370--440613	4	321.8	4	89	7	1988	48	26	0	24	1.53
442157--442581	4	110.2	4	90	9	688	50	24	0	24	1.49
447674--447713	21	1.9	21	84	0	53	27	30	10	32	1.89
447725--447763	20	2.0	20	89	0	60	23	33	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450694--450722	8	3.6	8	100	0	58	89	0	0	10	0.48
451913--452264	114	3.1	114	83	4	424	36	15	21	26	1.93
453097--453401	152	2.0	152	96	2	569	34	13	17	35	1.88
453097--453400	151	2.0	150	96	3	556	33	13	17	35	1.88
453990--454029	20	1.9	21	85	10	55	67	5	20	7	1.34
455815--455861	21	2.2	21	85	11	60	51	2	0	46	1.13
455930--455987	30	1.9	31	85	3	82	48	1	0	50	1.11
456036--456085	23	2.2	23	85	0	64	54	2	2	42	1.23
456241--456293	16	3.3	16	74	10	54	43	0	3	52	1.19
467271--467310	21	1.9	21	100	0	80	27	35	12	25	1.92
470459--470534	21	3.6	21	89	0	116	32	21	14	31	1.93
477526--477628	52	2.0	52	98	0	197	41	13	23	21	1.88
482114--482212	52	1.9	52	97	0	189	41	13	23	22	1.88
482794--482892	52	1.9	52	97	0	189	41	13	23	22	1.88
482042--484081	680	3.0	680	99	0	4053	34	14	20	30	1.93
483474--483572	52	1.9	52	97	0	189	41	13	23	22	1.88
490019--490161	69	2.1	69	98	1	279	44	15	22	17	1.86
491064--491115	27	1.9	27	84	0	68	25	17	44	13	1.85
492767--492814	8	6.4	7	78	21	53	62	2	0	35	1.07
492755--492814	16	3.9	15	83	14	70	61	1	1	35	1.16
492754--492803	25	2.0	25	84	7	66	62	2	2	34	1.18
498824--498860	19	2.0	19	89	5	58	29	10	24	35	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509446--509495	24	2.1	24	100	0	100	28	16	18	38	1.91
515706--515734	14	2.1	14	100	0	58	51	13	6	27	1.66
516185--516252	36	1.9	36	87	3	102	58	7	2	30	1.40
518031--518389	183	2.0	174	87	8	514	46	9	2	41	1.50
518403--518470	28	2.4	28	92	4	111	44	4	10	41	1.58
523055--523273	108	2.0	109	99	0	431	17	14	19	48	1.81
523432--523469	18	2.1	18	100	0	76	31	10	23	34	1.89
524370--524444	36	2.1	37	97	2	143	30	33	16	20	1.94
525016--525123	42	2.8	38	81	9	121	20	17	15	46	1.84
525236--525609	186	2.0	189	98	1	727	28	19	17	34	1.95

Tables:   1   2   3