genome.fa.s8384.2.7.7.80.10.50.1000.2.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: VEPZ01008384.1 Hibiscus syriacus cultivar Beakdansim tig00111146_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  473027

Tables:   1   2   3   

This is table  2  of  3  ( 242 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)
230273--230424	18	8.7	17	67	20	66	36	0	8	55	1.31
230430--230529	26	3.6	26	78	19	121	27	0	19	54	1.45
230430--230598	58	3.0	58	92	3	265	32	0	14	53	1.41
230455--230566	32	3.7	32	78	18	148	32	0	15	52	1.43
230546--230588	22	2.0	22	100	0	86	39	0	9	51	1.34
231266--231312	15	2.8	18	72	21	57	34	23	0	42	1.54
231247--231318	31	2.3	30	76	6	81	31	16	0	51	1.45
231822--231937	2	57.5	2	80	14	123	47	2	3	46	1.33
231937--231974	2	19.0	2	100	0	76	50	0	50	0	1.00
232484--232535	20	2.6	20	96	0	95	38	26	13	21	1.90
232591--232784	20	9.6	20	76	8	76	35	25	19	19	1.95
232587--232784	40	5.0	39	81	4	200	35	26	19	19	1.95
232591--232783	60	3.2	60	83	0	251	35	25	19	19	1.95
233165--233235	33	2.2	33	92	0	115	11	22	18	47	1.80
233356--233410	14	3.6	14	73	21	56	41	23	25	9	1.83
233356--233426	33	2.2	33	94	0	124	43	25	22	8	1.81
233422--233519	19	5.7	19	70	22	81	10	24	22	42	1.84
233444--233533	14	5.7	14	74	23	81	8	25	23	42	1.83
233427--233541	33	3.5	33	95	0	212	9	24	20	45	1.81
235240--235700	93	5.1	93	91	6	804	22	12	18	45	1.83
235474--235700	81	2.6	84	91	8	352	22	11	19	46	1.82
235382--235700	174	1.8	174	99	0	629	22	12	18	46	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
235744--235872	19	7.3	19	75	17	125	45	28	17	8	1.77
235780--235872	33	2.8	32	91	4	150	46	27	18	7	1.76
235744--235872	52	2.5	52	74	14	140	45	28	17	8	1.77
235868--236002	19	7.6	19	75	16	128	11	19	23	45	1.82
235890--235946	14	3.7	14	77	20	60	10	21	22	45	1.82
235873--235965	33	2.8	33	95	0	168	10	20	21	47	1.80
237904--237939	14	2.6	14	95	0	63	33	0	22	44	1.53
238046--238147	19	5.6	19	84	13	151	44	17	23	14	1.86
238176--238468	19	16.4	19	83	14	392	14	20	18	47	1.83
238154--238468	52	5.9	52	87	9	330	14	20	18	46	1.83
238176--238440	128	2.1	122	84	12	194	14	21	16	47	1.83
240751--240775	12	2.1	12	100	0	50	0	28	0	72	0.86
240950--240996	24	2.0	24	87	8	69	38	21	14	25	1.92
241679--242047	20	18.5	20	85	5	442	20	18	25	34	1.96
245922--246003	29	2.8	29	90	1	128	32	15	9	41	1.80
250689--250770	29	2.8	29	94	1	137	32	14	9	42	1.79
260121--260160	15	2.7	15	80	3	55	57	2	5	35	1.34
260166--260210	23	2.0	23	82	8	56	37	4	2	55	1.32
261673--261749	37	2.1	37	85	4	102	48	1	3	46	1.28
262974--263018	21	2.1	21	95	0	81	26	15	35	22	1.94
277854--277927	32	2.3	33	90	6	116	17	25	8	48	1.74
282436--282506	29	2.4	29	79	9	72	61	5	12	19	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
282456--282549	29	3.2	28	79	5	89	59	3	15	21	1.50
296469--296682	110	1.9	112	93	2	369	34	11	21	32	1.90
307303--307336	13	2.6	13	95	0	59	20	14	35	29	1.93
312420--312493	29	2.6	29	80	8	89	39	25	14	20	1.91
315363--315790	153	2.8	153	92	1	675	24	21	16	37	1.93
315424--315800	150	2.5	150	89	2	468	25	22	15	37	1.92
316310--316355	24	2.0	23	87	8	67	47	17	15	19	1.82
316388--316430	21	2.0	21	95	0	77	25	32	23	18	1.97
317122--317215	31	3.0	31	81	6	111	34	18	19	28	1.95
321250--321765	103	5.0	103	99	0	1014	31	20	24	23	1.98
322167--322199	3	11.0	3	100	0	66	0	33	0	66	0.92
325022--325073	24	2.2	24	85	0	68	15	13	15	55	1.69
325033--325084	24	2.4	19	71	28	50	11	11	19	57	1.63
330243--330311	30	2.3	30	94	0	120	13	20	11	55	1.68
348447--348522	38	2.0	38	89	0	116	32	6	11	48	1.66
349869--349909	19	2.2	19	87	12	59	26	0	17	56	1.41
350102--350147	20	2.3	20	96	0	83	39	0	6	54	1.26
353661--353738	38	2.1	38	85	0	102	33	7	8	50	1.63
353864--353924	3	21.0	3	77	12	65	27	3	1	67	1.16
353870--353935	28	2.3	28	82	7	71	27	4	1	66	1.20
356426--356469	22	2.0	22	81	0	52	27	4	15	52	1.63
358742--358778	12	2.7	14	80	19	51	13	21	13	51	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361261--361287	14	1.9	14	100	0	54	51	25	0	22	1.48
361753--361987	105	2.3	103	81	9	273	30	19	13	37	1.90
361938--362057	36	3.4	36	79	6	113	30	20	12	35	1.90
362306--362430	28	4.5	27	77	15	121	28	8	16	47	1.74
362305--362430	29	4.5	28	80	12	136	28	7	15	47	1.74
362305--362418	57	2.0	57	83	10	144	28	7	15	48	1.73
362334--362445	29	4.1	25	81	12	75	29	8	14	48	1.72
362387--362756	141	2.6	141	92	1	600	30	11	15	42	1.82
362532--362586	26	2.1	26	86	6	76	32	7	12	47	1.69
362672--362727	26	2.1	27	90	3	87	32	7	16	44	1.74
362689--362983	64	4.5	64	94	4	500	30	11	12	46	1.77
362698--362963	68	4.0	68	97	2	488	31	11	12	44	1.77
363495--363530	15	2.4	15	90	0	63	38	19	2	38	1.66
364007--364249	43	5.7	42	74	10	181	25	31	20	23	1.98
364017--364338	130	2.5	130	89	2	495	26	28	19	25	1.99
364540--364600	3	21.0	3	77	12	65	27	3	1	67	1.16
364546--364611	28	2.3	28	82	7	71	27	4	1	66	1.20
367103--367146	22	2.0	22	81	0	52	27	4	15	52	1.63
368948--368993	20	2.3	20	96	0	83	41	0	4	54	1.20
370340--370396	27	2.2	25	90	6	87	47	0	7	45	1.30
373194--373224	2	15.5	2	100	0	62	48	0	0	51	1.00
374973--375050	29	2.7	29	89	2	111	32	15	8	43	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
379709--379790	29	2.8	29	90	1	119	32	14	12	40	1.83
380844--381392	5	110.6	5	92	7	926	59	0	0	40	0.97
381927--382193	143	1.9	143	87	0	390	41	20	11	25	1.86
384056--384089	10	3.2	10	91	8	50	11	2	8	76	1.12
386520--386582	31	2.0	31	81	6	74	17	6	9	66	1.41
389258--389300	21	2.0	21	81	0	50	27	27	25	18	1.98
389935--389999	13	5.1	13	73	19	57	60	1	20	18	1.45
389948--390011	20	3.3	20	74	12	80	59	3	21	15	1.50
389937--390024	37	2.4	37	100	0	176	60	2	20	17	1.47
390308--390704	30	13.2	30	96	0	722	22	21	23	31	1.98
394019--394061	21	2.0	21	81	0	50	27	27	25	18	1.98
394693--394815	13	10.0	12	67	23	69	60	2	21	16	1.47
394704--394804	20	5.3	20	72	13	106	59	2	21	15	1.50
394693--394817	37	3.4	37	100	0	250	60	2	20	16	1.47
395101--395497	30	13.2	30	95	0	713	23	21	22	32	1.98
408048--408148	32	3.1	32	79	12	91	31	24	25	17	1.97
409278--409320	22	1.9	23	85	4	61	30	2	2	65	1.18
409475--409562	21	3.9	22	71	24	67	32	1	5	60	1.28
413127--413161	18	1.9	18	88	0	52	60	0	11	28	1.32
414286--414368	23	3.6	23	82	8	96	24	16	20	38	1.93
414301--414375	24	3.2	24	88	1	116	25	17	21	36	1.95
416838--416906	20	3.4	20	71	25	63	65	2	2	28	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
421901--421932	15	2.1	15	100	0	64	46	18	0	34	1.49
423743--423825	29	2.9	29	88	0	121	39	18	12	30	1.86
425985--426041	27	2.2	25	90	6	87	47	0	7	45	1.30
431853--431908	27	2.2	25	90	6	85	46	0	7	46	1.30
433334--433416	29	2.9	29	88	0	121	39	16	13	30	1.87
434686--435197	157	3.3	154	85	6	658	48	5	19	26	1.71
438005--438045	20	2.0	20	95	0	73	14	2	14	68	1.32
444061--444093	15	2.1	16	88	5	50	51	15	24	9	1.72
455312--455373	31	2.0	31	81	6	72	17	6	9	66	1.42
461844--461881	4	9.5	4	100	0	76	26	0	26	47	1.52

Tables:   1   2   3