genome.fa.s1372.2.7.7.80.10.50.1000.2.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: VEPZ01001372.1 Hibiscus syriacus cultivar Beakdansim tig00002684_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  540953

Tables:   1   2   3   

This is table  2  of  3  ( 247 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)
258771--259064	131	2.2	131	82	3	347	26	30	18	24	1.98
260136--260175	2	20.0	2	100	0	80	0	50	0	50	1.00
260664--260768	30	3.5	30	84	2	122	20	14	7	58	1.60
262216--262240	13	1.9	13	100	0	50	8	16	52	24	1.70
264072--264132	29	2.1	29	81	0	68	60	4	13	21	1.51
266091--266131	14	2.7	16	77	11	50	60	9	0	29	1.28
266057--266167	53	2.1	53	80	9	120	60	5	3	30	1.36
269161--269222	32	2.0	32	93	3	108	30	6	25	37	1.81
275718--275761	23	1.9	23	90	0	70	22	15	18	43	1.88
275917--275959	19	2.2	19	84	12	52	67	4	6	20	1.33
291552--291816	107	2.5	108	78	8	263	30	8	17	43	1.79
293353--294200	203	4.2	203	87	0	1214	33	18	19	28	1.96
294050--294113	17	3.3	19	67	20	51	39	10	25	25	1.88
293345--294200	405	2.1	405	86	1	1205	33	18	19	28	1.96
294127--294279	42	3.7	41	80	3	155	30	25	17	26	1.97
294126--294285	40	3.9	40	80	7	169	28	25	18	27	1.98
294127--294279	82	1.9	83	84	1	209	30	25	17	26	1.97
297108--297170	18	3.4	18	86	4	72	15	22	23	38	1.93
297119--297183	20	3.3	20	91	4	98	15	20	24	40	1.91
302034--302060	14	1.9	14	100	0	54	59	0	3	37	1.15
317147--317195	21	2.4	21	83	6	57	36	2	14	46	1.56
318039--318122	3	29.0	3	90	7	138	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
318038--318133	18	5.1	19	89	8	76	31	0	0	68	0.90
318143--318247	38	2.7	39	79	16	128	34	20	0	44	1.58
318429--318465	18	2.1	18	89	0	56	72	0	0	27	0.84
325284--325321	20	2.0	20	89	5	60	44	0	0	55	0.99
325285--325328	22	2.0	23	86	4	63	47	0	0	52	1.00
328910--329029	29	4.2	29	76	8	120	42	20	4	33	1.71
329072--329101	13	2.3	13	100	0	60	13	23	46	16	1.82
329078--329117	18	2.3	17	95	4	71	10	22	50	17	1.76
329069--329138	30	2.3	31	82	2	97	18	24	41	15	1.89
329130--329180	10	5.1	10	75	15	52	37	25	21	15	1.93
336231--336354	29	4.3	29	79	2	115	41	20	4	33	1.74
336421--336486	12	4.8	13	74	20	55	21	21	40	16	1.91
336414--336467	18	2.9	17	86	13	72	20	24	38	16	1.92
336447--336484	12	3.2	12	88	0	58	21	21	42	15	1.89
336499--336553	9	5.6	10	81	10	69	34	27	21	16	1.95
336506--336554	10	4.8	11	78	16	61	36	24	20	18	1.94
336499--336554	19	2.9	19	82	10	69	33	26	21	17	1.96
338908--338945	2	19.0	2	100	0	76	50	0	0	50	1.00
343811--343884	30	2.5	31	77	6	80	35	21	6	36	1.80
343896--343940	20	2.2	20	84	7	56	26	22	2	48	1.62
344822--344894	30	2.4	30	80	13	87	31	19	8	41	1.81
345893--345948	6	9.7	6	80	5	53	1	16	1	80	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
348497--348758	131	2.0	131	97	0	497	38	16	9	35	1.82
355081--355153	23	3.3	22	69	11	69	21	21	10	45	1.83
355064--355159	43	2.2	43	88	3	140	20	19	14	44	1.86
355119--355176	23	2.5	23	74	0	62	13	25	12	48	1.77
356085--356130	20	2.3	21	78	21	62	32	19	13	34	1.90
358773--358824	20	2.7	20	85	8	72	28	17	13	40	1.87
362572--362606	18	1.9	18	88	0	52	65	2	5	25	1.28
363204--363485	57	4.9	57	85	6	331	41	17	8	31	1.80
363243--363485	57	4.3	58	88	4	334	42	17	8	32	1.79
364833--364898	28	2.4	28	82	5	80	18	6	37	37	1.75
368566--368628	20	2.9	21	79	9	65	17	23	34	23	1.96
384007--384159	21	7.4	21	66	4	105	18	19	27	34	1.95
384174--384242	21	3.3	21	69	18	72	14	21	27	36	1.93
384003--384268	41	6.5	40	90	3	347	16	20	25	37	1.93
385173--385377	41	5.0	41	90	2	315	38	24	21	16	1.93
385239--385352	20	5.6	20	66	19	74	38	26	22	12	1.89
389175--389221	24	1.9	25	86	4	69	29	21	10	38	1.87
391758--391798	20	2.0	20	95	0	73	19	34	4	41	1.73
406811--406935	60	2.1	60	98	0	241	32	9	6	51	1.60
406841--406935	28	3.2	28	69	16	93	33	9	5	51	1.57
419283--419367	28	3.0	28	98	0	161	23	17	27	31	1.97
421752--421800	16	3.1	16	77	16	57	30	0	28	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
422456--422496	13	3.1	13	89	3	55	75	0	24	0	0.80
434483--434523	2	21.0	2	95	5	75	51	0	0	48	1.00
435908--435943	14	2.5	15	91	8	58	69	0	0	30	0.89
436239--436287	24	2.0	24	100	0	98	24	24	0	51	1.49
439784--439846	21	3.0	21	81	2	65	31	31	9	26	1.88
443183--443223	19	2.2	19	86	4	57	36	12	24	26	1.91
451268--451303	13	2.6	14	91	4	56	50	16	0	33	1.46
451407--451436	5	5.8	5	92	7	51	80	0	0	20	0.72
451407--451436	11	2.9	10	90	9	51	80	0	0	20	0.72
452639--452679	3	14.3	3	80	10	50	58	0	4	36	1.20
452639--452679	14	2.9	14	88	0	64	58	0	4	36	1.20
452641--452679	17	2.3	17	91	8	62	58	0	5	35	1.20
452981--453909	177	5.3	175	90	2	1396	29	19	17	33	1.95
455572--455766	52	3.8	52	88	1	277	22	22	17	37	1.94
457265--457334	1	70.0	1	71	0	50	1	12	0	85	0.66
457265--457336	9	7.7	9	87	6	99	1	13	0	84	0.68
457265--457334	10	7.3	10	85	6	83	1	12	0	85	0.66
457246--457336	38	2.3	38	86	9	119	2	15	0	82	0.77
457232--457332	7	14.4	7	74	17	77	2	14	0	81	0.87
457240--457336	19	5.1	19	79	13	101	3	15	0	81	0.81
457260--457336	29	2.7	29	84	8	104	1	15	0	83	0.72
459729--459817	42	2.1	42	97	0	169	24	12	15	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
465316--465368	3	18.3	3	88	7	83	62	0	1	35	1.06
465316--465362	14	3.3	14	96	3	85	63	0	0	36	0.94
481321--481363	18	2.4	18	84	7	52	30	18	2	48	1.60
490401--490439	17	2.3	17	100	0	78	5	28	0	66	1.12
491056--491094	17	2.3	17	100	0	78	66	0	28	5	1.12
492684--492727	21	2.1	21	86	0	61	20	0	34	45	1.51
497426--497488	29	2.2	29	80	11	67	55	1	6	36	1.35
497546--497580	15	2.2	16	90	5	54	22	22	2	51	1.61
498176--498215	20	1.9	22	90	10	66	40	0	0	60	0.97
498176--498224	20	2.4	19	83	16	55	40	2	0	57	1.10
499048--499111	26	2.7	24	86	13	96	50	18	12	18	1.78
500083--500161	34	2.3	34	95	0	140	32	7	29	30	1.85
505021--505164	44	3.3	44	84	3	166	30	22	9	37	1.85
505271--505349	40	2.0	40	94	0	140	35	27	15	21	1.93
506193--506257	28	2.3	28	83	2	85	38	20	4	36	1.73
512294--512448	44	3.5	44	87	3	206	30	21	9	38	1.85
512546--512624	40	2.0	40	94	0	140	35	26	16	21	1.94
513505--513669	83	2.0	82	96	1	303	43	15	10	30	1.81
515486--515534	20	2.5	20	90	6	73	28	22	18	30	1.97
520798--521097	22	13.0	22	65	20	66	17	6	4	72	1.23
520831--520877	17	2.6	17	78	18	51	23	2	2	72	1.06
520922--520966	21	2.1	22	83	4	56	17	4	2	75	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520955--521019	18	3.6	19	76	10	57	16	7	4	70	1.28
520991--521151	16	9.8	15	68	24	53	13	8	3	74	1.17
520987--521151	52	3.2	52	72	15	130	13	8	3	74	1.17
521080--521131	24	2.2	24	83	13	63	11	13	0	75	1.06
521108--521151	19	2.3	19	80	0	52	15	6	2	75	1.12
521724--521772	18	2.8	18	93	3	82	28	32	8	30	1.86
524792--524875	26	3.2	26	72	20	77	46	0	10	42	1.38
524767--524875	52	2.1	52	82	3	130	44	0	11	43	1.45
524803--524921	26	4.2	29	74	18	99	42	0	10	46	1.43
531425--531480	27	2.1	26	83	9	69	44	0	8	46	1.34

Tables:   1   2   3