genome.fa.s8292.2.7.7.80.10.50.1000.2.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: VEPZ01008292.1 Hibiscus syriacus cultivar Beakdansim tig00110956_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1591938

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 906 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)
255542--255605	25	2.4	27	73	21	64	59	6	0	34	1.23
259997--260024	2	14.0	2	100	0	56	50	0	0	50	1.00
262075--262154	38	2.1	39	84	9	103	50	3	1	45	1.28
263947--264274	177	1.9	173	87	3	478	37	13	9	40	1.76
264653--264699	18	2.7	18	86	3	69	29	29	8	31	1.87
265218--265254	19	1.9	19	100	0	74	43	5	32	18	1.73
275050--275079	2	15.0	2	92	0	51	0	46	0	53	1.00
282164--282211	21	2.3	21	86	10	64	56	2	6	35	1.36
285559--285621	2	31.5	2	100	0	126	49	0	0	50	1.00
296621--296660	15	2.7	15	92	0	62	42	25	32	0	1.55
299969--300210	126	1.9	126	97	0	457	33	18	17	30	1.94
303396--303462	12	5.7	11	76	11	53	19	14	16	49	1.80
303393--303464	24	3.0	23	81	16	85	20	13	16	48	1.80
316272--316336	21	3.1	20	80	4	76	58	24	4	12	1.53
316279--316345	21	3.2	21	80	4	82	58	26	1	13	1.44
317415--317452	20	1.9	20	100	0	76	47	5	10	36	1.61
323551--323646	14	7.3	14	76	13	96	12	12	18	56	1.67
323551--323670	24	4.7	25	84	11	138	12	10	19	57	1.64
323849--323952	24	4.4	24	75	1	93	10	12	18	58	1.62
325928--325970	21	2.0	21	100	0	86	46	23	20	9	1.79
325968--326037	18	3.9	18	73	14	72	32	8	31	27	1.87
329316--329510	78	2.5	78	88	1	275	29	20	18	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330252--330326	39	1.9	39	83	5	98	46	21	24	8	1.77
337052--337131	35	2.3	35	88	0	115	42	23	1	32	1.62
337620--337891	138	1.9	137	89	4	418	49	8	5	36	1.57
338069--338149	35	2.3	36	89	6	121	35	0	18	45	1.50
344067--344092	2	13.0	2	100	0	52	50	0	0	50	1.00
344648--344698	26	2.0	26	92	0	84	23	19	21	35	1.96
349107--349186	31	2.6	30	80	11	90	42	1	3	52	1.27
349140--349189	20	2.5	20	78	12	59	40	2	2	56	1.22
349109--349201	11	9.2	10	67	21	52	39	1	3	55	1.23
349241--349305	19	3.3	19	76	16	78	52	4	4	38	1.43
349733--349819	31	2.8	30	81	10	95	54	4	1	40	1.29
351189--351216	2	14.0	2	100	0	56	50	0	0	50	1.00
351651--351706	25	2.2	26	83	6	69	62	7	0	30	1.22
352631--352675	23	2.0	23	82	8	56	37	13	6	42	1.70
360286--360311	13	2.0	13	100	0	52	30	23	23	23	1.99
365887--365945	20	2.8	20	75	22	57	44	0	0	55	0.99
365856--365963	14	7.9	14	68	22	61	39	0	4	55	1.21
368683--368750	22	2.9	23	76	19	61	41	0	1	57	1.08
368715--368760	22	2.0	22	87	4	65	45	0	0	54	0.99
368738--368778	21	2.0	21	85	0	55	48	0	0	51	1.00
369944--369984	21	2.0	21	85	0	55	51	0	0	48	1.00
369995--370079	13	7.0	13	68	23	60	55	2	0	42	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369999--370079	25	3.4	25	76	10	105	55	2	0	41	1.13
369978--370082	47	2.2	47	100	0	210	57	1	0	40	1.10
369972--370054	22	3.6	22	76	9	94	57	1	0	40	1.06
370482--370517	11	3.2	11	84	7	54	11	13	47	27	1.77
370530--370614	2	45.5	2	71	13	65	50	0	0	49	1.00
373746--373903	20	7.8	20	79	2	138	26	23	14	35	1.93
373768--373911	60	2.4	60	89	0	216	27	22	14	35	1.93
373746--373917	40	4.2	41	75	8	156	27	23	13	35	1.93
374507--374547	19	2.2	19	86	0	55	34	2	19	43	1.64
375041--375221	59	3.2	59	65	23	172	30	3	22	43	1.71
375029--375226	108	1.8	108	97	0	378	29	3	24	42	1.71
375839--375946	20	5.4	20	77	8	103	39	12	22	25	1.88
375839--375968	20	6.4	20	76	10	68	40	10	22	26	1.87
375851--375968	40	2.9	40	81	10	109	41	11	21	26	1.86
375953--376028	40	1.9	40	88	0	116	27	13	23	35	1.92
376276--376310	18	1.9	18	88	0	52	48	0	0	51	1.00
392847--392893	24	1.9	25	83	12	62	59	0	0	40	0.97
393845--393909	33	2.0	33	93	0	112	35	29	12	23	1.91
400396--400456	24	2.3	27	83	13	74	11	14	1	72	1.20
402274--402330	26	2.2	25	79	11	62	15	17	8	57	1.63
404200--405075	105	8.3	106	94	0	1436	33	25	18	23	1.97
405266--405518	84	3.0	82	77	6	269	30	25	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407411--407471	24	2.3	27	83	13	74	11	14	1	72	1.20
413370--413416	23	2.0	23	100	0	94	29	21	8	40	1.83
419166--419210	21	2.1	21	91	0	72	48	0	2	48	1.13
425951--425995	18	2.5	18	81	0	54	40	11	24	24	1.87
426965--427068	51	2.0	51	96	0	190	31	20	19	28	1.97
428341--428383	12	3.4	12	79	20	52	55	0	2	41	1.12
433588--433632	15	2.9	16	83	6	65	13	26	31	28	1.94
433668--433732	15	4.1	16	76	11	62	18	24	33	23	1.96
433680--433732	15	3.4	15	80	10	70	16	24	35	22	1.95
433668--433732	32	2.0	32	93	0	112	18	24	33	23	1.96
439204--439421	103	2.1	103	96	0	409	25	11	25	37	1.90
439445--439488	23	1.9	23	95	0	79	18	31	29	20	1.96
439437--439500	23	2.8	22	78	4	74	20	26	28	25	1.99
445531--445573	21	2.0	21	81	0	50	27	30	25	16	1.97
446090--446304	103	2.1	103	96	0	394	26	11	24	37	1.90
446324--446386	23	2.7	23	87	4	92	20	26	26	25	1.99
456634--456674	21	2.0	21	100	0	82	29	4	26	39	1.77
457001--457081	42	1.9	42	85	5	110	35	12	7	44	1.70
461375--461434	2	30.0	2	100	0	120	0	0	50	50	1.00
462693--462718	2	13.0	2	100	0	52	50	0	0	50	1.00
465414--465503	45	2.0	45	93	4	155	31	11	14	43	1.80
470582--470642	23	2.7	23	86	0	86	27	26	26	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475741--475798	29	2.0	29	82	0	71	17	36	24	22	1.95
475874--475906	14	2.4	14	94	0	57	21	39	33	6	1.78
481738--481812	31	2.4	31	84	6	98	46	8	16	29	1.75
483734--483796	2	31.5	2	100	0	126	49	0	0	50	1.00
503126--503151	12	2.2	12	100	0	52	23	26	23	26	2.00
506805--506848	20	2.2	20	88	8	63	38	2	15	43	1.60
507960--507994	17	2.0	18	88	5	54	60	0	0	40	0.97
507992--508044	26	2.0	26	100	0	106	28	26	15	30	1.96
509552--509598	16	3.0	15	79	14	51	74	2	2	21	1.03
510469--510512	23	1.9	23	85	0	61	38	2	4	54	1.33
511095--511195	48	2.1	47	81	3	112	41	6	15	35	1.74
521010--521049	20	2.0	20	100	0	80	50	10	15	25	1.74
523967--523996	14	2.1	14	93	0	51	43	0	6	50	1.28
526396--526421	2	13.0	2	100	0	52	50	0	0	50	1.00
527320--527493	86	2.0	87	98	1	341	48	14	8	28	1.73
528917--528955	15	2.7	15	92	4	62	23	0	10	66	1.22
529105--529134	4	7.2	4	92	7	51	23	0	0	76	0.78
529184--529222	20	2.0	20	94	0	69	28	2	0	69	1.02
532995--534045	106	9.9	106	93	0	1721	33	25	18	23	1.97
532995--534054	211	5.0	212	92	0	1723	33	25	18	23	1.97
535615--535653	15	2.7	15	92	4	62	23	0	10	66	1.22
535713--535746	2	17.0	2	93	0	59	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535896--535944	8	5.8	8	79	13	53	24	2	0	73	0.94
535896--535957	27	2.3	26	81	10	72	24	3	0	72	0.99
535901--535949	13	3.6	14	79	17	59	28	2	0	69	1.00
536012--536061	2	25.0	2	100	0	100	50	0	0	50	1.00
537447--537473	14	1.9	14	100	0	54	44	0	7	48	1.31
538466--538517	17	2.8	18	74	11	52	51	0	5	42	1.25
541855--541903	25	2.0	25	84	4	64	28	6	8	57	1.52
548046--548474	74	5.8	74	84	3	528	32	15	13	38	1.86
548081--548474	150	2.7	148	83	2	522	32	15	12	39	1.85
554167--554250	19	4.2	19	79	11	87	36	5	26	30	1.80

Tables:   1   2   3   4   5   6   7   8