genome.fa.s7773.2.7.7.80.10.50.1000.2.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: VEPZ01007773.1 Hibiscus syriacus cultivar Beakdansim tig00110054_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  557494

Tables:   1   2   3   

This is table  2  of  3  ( 357 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)
189509--189552	21	2.1	21	82	0	52	31	15	43	9	1.79
190565--190603	13	3.1	13	88	3	53	48	2	7	41	1.45
191142--191204	24	2.6	24	97	0	117	33	20	25	20	1.97
197006--197156	65	2.3	65	86	5	200	27	19	23	29	1.98
197006--197206	65	3.1	63	79	10	194	26	18	24	30	1.98
199562--199617	24	2.4	24	81	3	69	48	17	21	12	1.80
205255--205903	320	2.0	320	98	0	1262	40	17	17	23	1.91
214386--214441	25	2.2	25	100	0	112	25	19	0	55	1.43
215586--215614	2	14.5	2	100	0	58	51	0	0	48	1.00
216813--216883	13	5.8	13	72	18	64	78	5	1	14	0.99
216812--216877	24	2.8	23	82	11	73	80	4	1	13	0.94
216979--217090	34	3.2	33	75	21	109	44	6	2	46	1.42
216977--217142	38	4.4	39	78	10	170	45	6	3	45	1.43
217188--217235	2	24.5	2	95	4	89	50	0	0	50	1.00
228352--228390	20	2.0	20	85	10	53	48	2	17	30	1.61
230910--230973	24	2.7	23	77	20	69	29	21	15	32	1.95
233233--233259	13	2.1	13	100	0	54	37	7	14	40	1.74
233476--233569	42	2.2	42	90	0	152	15	18	17	48	1.81
234293--234337	17	2.6	18	85	7	65	20	46	20	13	1.83
234340--234553	29	7.3	29	76	10	152	35	3	18	42	1.68
234340--234553	58	3.7	57	76	10	168	35	3	18	42	1.68
241923--242075	28	5.4	28	78	9	132	35	3	16	43	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
242018--242082	30	2.2	30	88	2	96	32	1	15	50	1.53
243948--244010	23	2.6	24	78	19	60	52	0	0	47	1.00
243965--244028	22	2.9	23	84	6	71	48	0	0	51	1.00
243976--244055	32	2.5	32	80	14	92	48	2	0	48	1.14
244100--244170	19	3.7	18	72	10	52	49	1	1	47	1.18
246938--247190	55	4.6	55	81	5	278	30	24	17	27	1.97
247202--247316	37	3.1	37	88	3	169	23	19	19	38	1.93
248475--248587	9	13.6	9	67	24	54	11	13	0	75	1.05
248476--248548	7	9.7	7	73	14	56	12	13	0	73	1.09
248537--248587	10	5.3	10	74	25	56	9	11	0	78	0.97
248540--248599	27	2.1	27	90	6	93	13	13	0	73	1.10
248475--248587	38	3.1	37	75	17	112	11	13	0	75	1.05
252979--253021	22	2.0	22	86	9	61	37	30	18	13	1.90
261643--261681	20	2.0	20	84	0	51	33	17	7	41	1.79
261655--261728	30	2.5	30	93	2	123	31	18	6	43	1.76
261655--261721	15	4.5	15	79	3	73	32	17	7	41	1.78
262608--262664	29	2.0	29	100	0	114	36	17	14	31	1.89
270030--270078	20	2.5	20	82	0	62	61	0	20	18	1.35
271373--271405	16	2.1	16	94	5	59	39	0	0	60	0.97
272043--272157	51	2.3	51	89	0	167	48	10	4	36	1.57
276080--276121	22	2.0	21	85	4	57	47	0	0	52	1.00
278302--278359	2	29.0	2	100	0	116	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
278422--278549	65	2.0	65	90	0	202	34	13	18	33	1.90
281265--281304	3	13.7	3	89	5	64	37	0	0	62	0.95
284996--285044	18	2.7	18	87	0	71	38	4	28	28	1.75
287203--287237	5	6.6	5	87	12	52	40	0	0	60	0.97
287201--287237	12	3.2	12	88	11	60	40	0	0	59	0.97
292037--292101	32	2.0	32	81	0	76	32	20	16	30	1.95
296120--296288	5	33.8	5	96	0	212	39	11	20	28	1.87
296390--296473	2	45.0	2	71	21	67	55	2	0	41	1.12
296393--296476	5	17.6	5	78	18	90	57	2	0	40	1.12
296372--296471	25	4.0	24	73	21	82	58	2	0	40	1.10
296373--296476	18	6.1	18	74	14	78	57	1	0	40	1.10
296385--296476	15	6.4	14	81	14	109	56	2	0	41	1.11
296453--296656	5	40.8	5	98	0	309	56	17	3	22	1.55
301217--301262	24	1.9	24	86	8	67	2	17	4	76	1.06
302528--302738	42	5.0	42	79	5	203	32	16	20	30	1.95
304928--304965	20	1.9	20	94	0	67	31	34	15	18	1.92
310904--310984	24	3.5	24	70	20	75	24	24	22	28	1.99
313677--313729	20	2.7	20	88	2	72	33	28	16	20	1.95
313762--313813	19	2.7	19	96	0	95	21	30	21	26	1.98
315217--315247	7	4.6	7	96	4	55	41	0	0	58	0.98
319253--319388	31	4.4	31	91	0	209	33	18	11	36	1.86
326899--327083	60	3.1	59	82	3	192	44	4	18	31	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341777--341857	31	2.6	31	79	13	85	41	1	3	53	1.27
341811--341860	20	2.5	20	78	12	59	40	2	2	56	1.22
341797--341864	31	2.2	31	86	7	93	41	1	2	54	1.24
342589--342671	31	2.7	30	80	9	87	53	3	2	40	1.32
344416--345362	228	4.1	228	96	1	1715	45	7	8	39	1.63
345411--345457	20	2.4	19	89	10	76	55	10	17	17	1.69
345581--345636	20	2.8	19	81	7	67	55	8	16	19	1.67
347864--347907	21	2.1	21	91	0	70	40	11	31	15	1.83
347940--348005	33	2.0	33	87	0	96	30	0	46	22	1.52
349800--349848	19	2.6	19	90	0	71	30	2	12	55	1.48
349967--351131	199	5.9	199	96	1	2146	36	15	17	31	1.91
349967--351131	397	2.9	395	96	0	2154	36	15	17	31	1.91
352604--352695	6	15.3	6	81	0	76	39	6	33	20	1.79
352619--352699	9	9.0	9	79	0	81	38	4	33	23	1.76
352607--352683	36	2.1	36	92	0	127	37	7	33	20	1.82
352607--352695	12	7.4	12	87	0	97	38	6	33	21	1.80
353879--353912	16	2.1	16	88	0	50	47	8	20	23	1.78
354270--354341	23	3.2	23	84	4	92	34	4	22	38	1.73
357472--357536	25	2.6	25	80	0	85	35	9	13	41	1.77
357866--357937	22	3.4	21	84	7	85	40	5	18	36	1.74
358363--358426	21	2.9	22	81	6	76	34	4	21	39	1.75
358356--358426	23	3.2	23	80	8	83	35	4	21	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357536--359063	479	3.2	479	95	3	2725	39	7	12	40	1.71
358835--358905	23	3.2	23	84	8	92	33	4	22	39	1.74
358841--358910	21	3.2	21	78	11	70	32	4	22	40	1.74
359172--359222	25	2.0	25	92	0	84	33	7	19	39	1.81
359568--359604	18	2.1	18	89	0	56	32	5	10	51	1.60
359560--359606	24	2.0	24	86	0	67	34	4	14	46	1.64
359863--359949	39	2.2	39	93	0	147	49	19	13	17	1.79
360345--360417	23	3.2	23	88	0	101	34	4	21	39	1.73
364142--364191	26	2.0	26	96	4	93	54	2	8	36	1.42
364400--364456	30	2.0	28	86	6	78	64	0	5	29	1.15
365310--366041	204	3.6	200	81	6	760	26	19	25	27	1.99
365446--366041	197	3.0	200	83	4	705	26	19	26	27	1.99
374569--374651	42	2.0	42	92	0	139	28	10	22	37	1.88
376712--376747	15	2.5	15	90	4	56	63	16	5	13	1.47
376725--376782	25	2.3	23	78	16	62	68	10	12	8	1.38
391896--391950	21	2.6	21	97	0	101	43	23	16	16	1.87
392095--392145	22	2.3	22	100	0	102	21	45	13	19	1.85
392546--392598	20	2.7	20	90	0	79	16	18	26	37	1.93
392535--392621	20	4.4	20	83	1	77	16	16	22	44	1.85
392585--392628	20	2.2	20	87	0	61	13	13	18	54	1.71
394144--394199	21	2.7	21	83	5	60	21	17	32	28	1.96
394469--394517	20	2.5	20	93	0	80	34	26	20	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394534--394574	20	2.0	20	85	0	55	60	17	9	12	1.57
394575--394613	19	2.0	20	90	5	62	12	15	20	51	1.76
394618--394686	20	3.5	20	87	0	102	20	17	27	34	1.95
394673--394716	20	2.2	20	95	0	79	13	13	22	50	1.77
395245--395314	21	3.3	21	72	5	70	24	37	18	20	1.94
395221--395317	42	2.3	41	82	5	115	23	40	15	20	1.91
396891--396938	20	2.4	20	96	0	87	29	18	20	31	1.97
399362--399415	24	2.2	24	90	0	81	40	20	16	22	1.91
399362--399429	24	2.8	24	81	0	73	38	17	16	27	1.91
400069--400104	17	2.1	17	94	0	63	27	5	33	33	1.80

Tables:   1   2   3