genome.fa.s9625.2.7.7.80.10.50.1000.2.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  2  of  25  ( 2922 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)
326446--326480	4	8.5	4	93	6	61	25	0	0	74	0.82
326488--326596	15	7.5	15	76	17	54	22	6	1	69	1.20
326446--326596	9	16.9	9	76	11	55	22	4	2	70	1.19
326548--326598	3	17.3	3	95	4	95	31	0	0	68	0.90
326744--326783	17	2.5	16	84	11	55	30	0	0	70	0.88
326821--326927	5	21.4	5	69	22	57	14	1	4	79	0.98
326827--326906	16	4.9	16	76	14	74	13	1	2	82	0.83
326827--326908	21	3.8	20	77	15	83	14	1	2	81	0.85
328342--328375	17	2.0	17	100	0	68	41	5	17	35	1.74
334423--334563	28	5.0	28	78	13	137	37	19	5	36	1.76
334430--334568	57	2.4	57	84	8	185	38	19	5	36	1.76
334430--334600	28	6.0	28	75	15	127	39	19	4	36	1.72
334423--334600	57	3.1	54	79	11	178	39	19	5	35	1.73
335804--335840	18	2.1	18	85	14	51	32	13	10	43	1.79
337530--337712	29	6.4	29	75	8	169	37	20	5	37	1.76
337718--337763	17	2.6	18	86	3	67	8	26	47	17	1.76
338933--338982	17	2.8	19	73	14	52	32	16	6	46	1.71
341903--342093	29	6.8	28	79	10	192	39	21	4	34	1.74
341915--342081	84	2.0	86	85	7	234	37	20	5	36	1.76
341902--342087	55	3.3	56	81	9	209	39	20	4	34	1.74
342108--342146	17	2.2	18	86	4	53	12	17	46	23	1.83
345033--345194	29	5.6	29	76	15	156	40	19	5	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
345195--345232	18	2.2	18	90	4	60	10	18	50	21	1.76
349132--349158	4	6.8	4	100	0	54	77	0	22	0	0.76
356388--356454	2	34.5	2	73	16	52	50	1	4	43	1.31
357955--357986	3	10.7	3	93	0	55	71	0	0	28	0.86
359668--359735	26	2.7	26	77	8	79	45	1	16	36	1.56
359815--360126	156	2.0	156	96	0	570	23	12	22	41	1.88
365548--365592	16	2.8	16	96	0	81	35	20	0	44	1.51
366271--366355	33	2.6	33	84	1	109	28	8	31	31	1.86
368813--368878	13	4.8	13	75	14	53	66	3	0	30	1.06
368795--368881	25	3.5	25	76	14	81	63	2	0	34	1.07
368823--368874	19	2.5	21	84	9	63	65	3	0	30	1.10
368811--368874	19	3.3	18	74	21	58	65	3	0	31	1.08
368805--368915	11	10.3	11	67	19	56	63	3	0	32	1.18
368811--368915	40	2.6	40	76	18	101	63	3	0	31	1.18
368867--368916	25	2.0	25	84	7	66	60	6	2	32	1.32
368930--369000	8	9.6	7	78	18	65	56	2	2	38	1.29
368930--369000	13	5.9	12	72	18	51	56	2	2	38	1.29
368963--368999	19	1.9	19	88	0	56	54	2	0	43	1.14
368803--369000	24	8.6	23	66	22	62	59	4	2	33	1.31
384180--384612	215	2.0	218	98	1	845	29	15	18	35	1.92
396016--396091	35	2.2	35	92	0	125	39	23	1	35	1.63
396487--396734	130	1.9	130	92	0	415	36	14	12	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
396501--396765	130	2.0	129	81	4	300	40	13	13	33	1.83
398850--398935	33	2.8	31	80	15	90	52	5	6	34	1.53
398875--398935	16	3.8	16	78	6	61	52	4	4	37	1.45
398846--398938	29	3.1	29	75	15	91	51	5	6	36	1.51
399207--399362	52	3.0	52	81	0	177	24	13	23	38	1.91
400301--400376	20	3.7	20	84	5	89	30	13	31	25	1.93
400238--400448	115	1.8	116	80	6	259	33	15	25	26	1.95
400838--400915	39	2.0	39	89	0	120	30	24	14	30	1.94
400877--401104	55	4.1	55	86	2	298	29	19	17	32	1.95
403841--403902	20	3.1	20	100	0	124	33	14	17	33	1.90
404419--404492	23	3.2	24	78	14	75	24	17	20	37	1.93
404419--404518	46	2.2	46	81	0	110	24	19	22	35	1.96
404440--404515	23	3.3	23	86	0	80	26	19	22	31	1.98
413709--413837	53	2.4	53	87	2	170	27	13	21	36	1.92
414118--414152	16	2.2	16	100	0	70	37	17	25	20	1.94
416238--416552	134	2.4	133	85	2	420	30	13	21	34	1.92
417848--417896	20	2.5	19	83	9	62	12	14	0	73	1.10
418526--420821	4	587.8	4	93	5	4008	49	25	0	24	1.52
421271--421428	53	3.0	53	90	1	253	37	18	17	25	1.93
421978--422015	19	2.0	20	84	5	51	42	15	7	34	1.76
428871--429197	131	2.5	131	83	4	390	38	18	11	31	1.86
429209--429485	138	2.0	139	99	0	547	41	9	12	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429403--429584	91	2.0	91	100	0	364	48	10	13	27	1.75
436156--436213	27	2.2	27	81	12	75	34	3	1	60	1.24
436348--436412	31	2.1	32	82	2	78	52	9	4	33	1.54
436501--436535	15	2.4	15	90	4	54	48	0	5	45	1.26
437718--437814	48	2.0	49	97	2	187	32	12	22	31	1.91
445263--445430	84	2.0	84	100	0	336	32	22	11	33	1.91
450981--451021	22	1.9	21	85	5	55	41	36	2	19	1.65
451338--451388	23	2.2	23	82	6	59	74	3	13	7	1.18
453730--453770	21	1.9	22	85	5	57	36	19	14	29	1.92
457767--457832	2	33.5	2	93	3	116	48	0	1	50	1.10
466098--466314	54	4.0	54	88	2	303	31	18	17	33	1.94
469449--469770	59	5.5	58	74	5	247	37	10	22	30	1.87
469450--469817	117	3.1	117	84	1	461	36	10	22	30	1.87
469744--469877	59	2.3	59	79	6	157	35	9	21	32	1.86
470007--470762	44	17.2	45	89	4	1057	38	6	23	31	1.80
470245--470762	89	5.8	89	91	2	758	38	6	23	31	1.81
472828--472904	38	2.1	37	90	4	120	64	2	6	25	1.30
472939--472987	25	2.0	25	84	8	64	59	0	4	36	1.17
472964--473009	23	2.0	23	83	8	58	67	0	4	28	1.10
472959--473030	21	3.5	20	75	11	65	66	0	6	26	1.16
474069--474254	83	2.2	83	80	5	205	25	18	20	36	1.95
474434--474692	110	2.4	108	83	7	314	23	19	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
475285--475486	67	3.0	65	81	9	210	38	9	21	31	1.85
475280--475498	65	3.3	67	81	5	230	38	9	20	31	1.85
475447--475753	36	8.9	36	73	14	234	38	13	19	28	1.89
475393--475660	138	1.9	138	86	0	383	41	12	19	27	1.87
475554--475609	29	1.9	29	82	7	69	42	12	8	35	1.74
475481--475759	101	2.8	100	83	2	333	39	12	18	29	1.87
475688--475759	37	1.9	37	88	0	108	38	13	20	26	1.90
477220--477357	69	2.0	69	94	0	240	23	15	23	36	1.93
477408--477474	28	2.4	28	80	7	73	4	16	1	77	1.00
477425--477488	11	5.5	11	76	21	60	3	18	1	76	1.00
477431--477483	13	4.3	12	78	21	65	1	16	1	79	0.92
480671--480717	17	2.7	17	81	12	60	72	0	12	14	1.13
480671--480715	18	2.6	17	83	13	56	71	0	13	15	1.15
480818--480888	28	2.6	28	77	14	78	73	0	5	21	1.04
480811--480924	58	1.9	59	81	10	135	69	0	6	23	1.17
480970--481005	2	18.5	2	91	5	56	52	0	2	44	1.15
480999--481077	18	4.4	18	73	16	56	67	0	3	29	1.08
481043--481073	14	2.2	14	94	0	53	67	0	0	32	0.91
484206--484273	29	2.3	29	82	2	82	38	8	19	33	1.82
484876--485197	59	5.5	58	76	2	281	36	10	22	30	1.88
484877--485244	117	3.1	117	89	1	524	35	10	22	30	1.88
485433--486152	44	16.2	45	93	1	1125	37	6	24	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485432--486152	89	8.1	89	93	1	1128	37	6	23	31	1.81
490511--490540	3	10.3	3	92	7	53	0	30	0	70	0.88
491513--492029	54	9.6	54	88	0	759	29	17	17	35	1.94
493594--493627	17	2.0	17	88	11	52	55	2	0	41	1.15
503421--503552	40	3.3	39	84	6	151	31	26	17	25	1.97
504006--504434	209	2.0	211	96	2	808	35	14	10	39	1.81
506494--506551	28	2.1	28	100	0	116	6	17	6	68	1.34
506501--506547	14	3.4	14	71	11	51	6	21	6	65	1.38
507411--507570	65	2.5	66	86	5	211	31	22	17	28	1.97
514875--514918	21	2.1	21	86	0	61	11	38	13	36	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25