genome.fa.s9066.2.7.7.80.10.50.1000.3.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: VEPZ01009066.1 Hibiscus syriacus cultivar Beakdansim tig00112490_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  821833

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 548 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)
379100--379135	15	2.4	15	95	0	63	25	25	11	38	1.88
389754--389858	45	2.3	45	87	6	142	32	18	19	30	1.95
390473--390502	15	2.0	15	93	0	51	30	16	0	53	1.44
392393--392472	21	3.6	22	81	8	101	23	25	25	26	2.00
392397--392491	42	2.2	42	85	10	122	24	22	25	28	1.99
392397--392491	21	4.4	21	77	9	86	24	22	25	28	1.99
401043--401144	53	1.9	53	91	0	168	30	15	16	37	1.90
401319--401370	27	1.9	27	88	7	79	30	3	7	57	1.45
406649--406708	29	2.0	31	90	6	97	36	6	15	41	1.73
406885--406926	21	2.0	21	90	0	66	23	19	28	28	1.98
409042--409081	21	1.9	21	100	0	80	25	15	30	30	1.95
413552--413634	39	2.2	39	78	8	91	67	6	4	21	1.32
414478--414546	18	3.9	18	96	3	131	27	0	15	56	1.40
414478--414546	35	1.9	36	97	2	131	27	0	15	56	1.40
416699--416728	5	6.0	5	92	0	51	56	20	3	20	1.56
416996--417077	41	2.0	41	100	0	164	46	4	34	14	1.66
419874--420275	36	10.9	37	79	11	325	42	3	9	44	1.54
420060--420127	30	2.2	30	86	5	91	39	2	11	45	1.56
419874--420275	113	3.6	109	78	15	323	42	3	9	44	1.54
420111--420209	23	5.0	22	71	26	71	43	5	8	43	1.56
420150--420216	23	3.2	23	76	24	92	41	4	7	46	1.52
420207--420312	32	3.3	30	80	15	124	40	2	9	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420247--420326	32	2.6	30	83	14	101	36	3	12	47	1.59
421487--421524	5	7.6	5	82	11	51	23	0	0	76	0.79
421657--421681	12	2.1	12	100	0	50	40	8	0	52	1.31
424261--424455	98	2.0	98	89	2	302	33	15	18	31	1.93
425739--426508	85	9.1	85	87	0	1033	35	20	18	26	1.95
425739--426669	170	5.4	170	85	3	1123	34	20	17	26	1.95
426487--426526	16	2.5	16	95	0	71	45	20	5	30	1.72
426403--426609	101	2.0	101	90	1	326	37	21	14	27	1.92
426318--426665	186	1.9	186	90	1	554	35	21	15	27	1.94
426503--426669	85	2.0	85	86	0	235	33	22	16	28	1.95
427249--427546	37	7.9	37	74	16	202	42	3	9	44	1.53
427492--427533	23	1.9	22	85	9	59	52	4	4	38	1.44
427350--427518	81	2.1	81	81	6	191	43	2	8	44	1.50
427520--427560	13	3.0	14	85	7	57	46	4	2	46	1.37
427520--427633	31	3.6	31	79	15	119	41	3	8	46	1.52
427570--427647	31	2.5	31	87	6	106	34	3	12	48	1.60
427667--427739	23	3.3	21	76	23	78	15	6	1	76	1.05
428549--428955	203	2.0	205	95	4	736	22	15	5	56	1.60
429054--429084	16	1.9	16	93	0	53	22	9	0	67	1.19
429904--429977	10	7.1	10	83	8	94	20	29	29	20	1.97
429904--429977	21	3.5	21	92	0	121	20	29	29	20	1.97
430454--430509	24	2.3	24	100	0	112	28	17	16	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431941--432203	130	2.0	130	99	0	517	31	14	17	36	1.90
435007--435462	224	2.0	229	94	5	818	38	10	9	41	1.72
436916--436946	2	16.0	2	93	6	55	48	0	0	51	1.00
437033--437097	24	2.7	24	80	17	73	56	3	3	36	1.30
437380--437427	9	5.1	10	74	20	50	2	16	0	81	0.79
437375--437416	13	3.2	13	93	3	66	0	19	2	78	0.86
437387--437433	6	7.8	6	81	9	60	2	14	0	82	0.75
438946--439004	31	1.9	31	89	0	91	32	13	8	45	1.74
440938--440968	2	15.5	2	100	0	62	51	0	0	48	1.00
442599--442680	39	2.1	39	88	4	121	15	25	10	47	1.78
442731--443075	36	9.5	36	70	7	230	37	13	17	30	1.89
442714--443076	73	5.0	73	94	0	613	37	13	18	30	1.90
443796--443857	22	2.9	22	88	4	92	41	11	11	35	1.77
444225--444386	54	3.0	53	84	7	227	25	19	16	38	1.91
451762--451825	25	2.5	26	83	16	73	65	0	4	29	1.13
451759--451818	23	2.5	24	78	17	72	66	0	5	28	1.12
452507--452535	2	14.5	2	100	0	58	51	0	0	48	1.00
452382--452786	157	2.6	158	80	11	429	44	7	6	41	1.58
464809--464833	2	12.5	2	100	0	50	52	0	0	48	1.00
466214--466251	18	2.1	18	90	0	58	2	13	34	50	1.55
466198--466245	15	3.2	15	75	0	51	4	14	35	45	1.64
470839--471276	134	3.3	134	84	3	565	28	15	23	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
472996--473024	13	2.1	14	93	6	51	20	34	6	37	1.80
474222--475385	233	5.0	232	87	2	1582	34	17	15	32	1.91
474896--474969	20	3.6	20	70	13	60	37	22	17	21	1.94
475168--475576	190	2.1	190	84	4	502	33	17	15	34	1.91
475357--476009	233	2.8	232	87	3	879	34	16	15	33	1.90
477721--477749	2	15.0	2	92	7	51	48	0	0	51	1.00
484114--484403	107	2.7	107	85	4	386	41	16	19	23	1.90
496696--496903	103	2.0	105	95	2	377	33	25	17	23	1.96
505222--505269	22	2.2	23	82	14	57	47	22	2	27	1.62
506221--506280	2	30.0	2	100	0	120	50	0	0	50	1.00
506561--506868	160	2.0	155	87	4	438	49	7	15	27	1.72
506562--506896	157	2.1	159	85	4	448	47	7	16	28	1.74
506624--506933	157	2.0	160	84	4	416	48	7	16	27	1.72
507934--507970	2	18.5	2	100	0	74	51	0	0	48	1.00
521165--521212	19	2.5	19	100	0	96	18	20	18	41	1.90
521302--521346	5	8.6	5	97	2	72	24	55	20	0	1.43
521344--521373	5	6.0	5	100	0	60	40	20	40	0	1.52
521468--521563	39	2.5	39	98	0	183	29	19	17	33	1.95
521901--521948	6	8.0	6	100	0	96	0	16	50	33	1.46
522052--522207	21	7.6	21	86	1	129	34	25	18	21	1.96
522094--522165	20	3.6	20	94	0	126	41	23	23	11	1.86
536313--536347	18	1.9	18	94	0	61	28	34	14	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536401--536440	21	1.9	21	89	0	62	37	17	17	27	1.92
536557--536620	30	2.1	31	88	2	94	32	23	9	34	1.87
536557--536633	30	2.5	30	85	6	84	33	23	9	33	1.86
540203--540227	2	12.5	2	100	0	50	52	0	0	48	1.00
540773--540837	30	2.2	30	91	0	103	26	24	13	35	1.93
540784--540830	16	3.1	16	71	22	55	25	25	12	36	1.92
540786--540839	17	3.4	17	73	19	62	29	24	12	33	1.92
541956--542080	31	4.0	31	90	2	189	38	22	18	20	1.93
546223--546378	31	5.0	31	94	1	260	38	23	18	19	1.93
547173--547217	21	2.1	21	87	0	63	15	24	28	31	1.96
548133--548187	22	2.6	21	81	13	69	29	21	16	32	1.95
551003--551092	2	45.5	2	97	2	173	50	50	0	0	1.00
551662--551704	14	3.1	14	82	0	59	37	18	9	34	1.83
553053--553194	71	2.0	72	98	1	277	32	16	11	39	1.84
554334--554391	17	3.2	17	73	17	55	34	0	5	60	1.19
554351--554388	20	1.9	20	88	0	58	36	0	5	57	1.21
554342--554421	37	2.2	37	81	4	90	36	2	2	58	1.25
554992--555044	23	2.3	23	90	0	79	37	26	13	22	1.91
555006--555052	23	2.1	23	88	4	69	38	23	12	25	1.90
555403--555453	20	2.7	18	72	19	50	60	3	1	33	1.26
558183--558262	3	28.0	3	72	14	62	56	0	5	38	1.21
558183--558263	8	9.9	8	84	12	94	55	0	4	39	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558188--558263	11	6.9	11	73	19	61	55	0	5	39	1.23
558174--558263	25	3.6	26	83	8	116	54	0	4	41	1.20
558174--558259	14	6.4	14	71	21	60	54	0	4	40	1.21
558394--558696	116	2.6	114	85	4	396	33	18	17	30	1.94
558479--558705	115	2.0	116	87	1	305	34	18	16	29	1.94
559462--559599	66	2.1	68	97	2	262	19	15	21	42	1.89
561719--561766	21	2.3	21	92	0	78	52	16	10	20	1.73
567454--567494	3	14.7	3	80	14	52	60	0	2	36	1.10
568719--568831	6	18.8	6	75	3	75	7	3	42	46	1.50
568675--568762	24	3.7	24	76	7	90	9	9	42	39	1.68

Tables:   1   2   3   4   5