genome.fa.s8592.2.7.7.80.10.50.1000.2.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: VEPZ01008592.1 Hibiscus syriacus cultivar Beakdansim tig00111541_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  876692

Tables:   1   2   3   4   

This is table  2  of  4  ( 393 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)
270769--270938	33	4.7	38	84	4	144	10	18	24	46	1.81
272862--272897	14	2.6	14	95	0	63	33	0	22	44	1.53
273004--273083	20	4.4	19	80	16	98	45	17	23	13	1.84
273098--273367	105	2.6	109	90	7	425	14	22	17	45	1.84
273120--273353	72	3.3	71	81	11	295	14	22	17	46	1.84
273098--273367	53	5.1	52	89	8	406	14	22	17	45	1.84
275024--275272	20	12.4	20	83	3	223	19	17	24	38	1.92
275220--275337	21	5.7	21	79	5	80	21	18	20	39	1.92
275240--275338	42	2.4	43	77	11	100	22	19	21	37	1.94
279028--279077	25	2.0	24	84	7	64	64	4	4	28	1.30
279743--279769	8	3.4	8	100	0	54	33	0	11	55	1.35
279803--279841	17	2.4	17	95	4	71	51	5	0	43	1.24
280746--280842	2	54.0	2	73	20	72	55	0	0	44	0.99
280737--280843	34	3.1	34	86	8	144	56	0	0	43	0.99
283166--283251	31	2.8	31	89	3	120	31	12	10	45	1.76
287736--287771	2	18.0	2	100	0	72	50	0	0	50	1.00
288117--288175	2	30.0	2	96	3	111	50	0	0	49	1.00
290020--290068	2	24.5	2	100	0	98	51	0	0	48	1.00
290356--290436	26	3.1	26	80	3	92	44	14	8	32	1.76
290356--290409	13	4.2	13	92	0	90	44	14	5	35	1.69
290356--290436	39	2.1	39	83	0	99	44	14	8	32	1.76
299884--299915	16	2.0	16	100	0	64	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
300611--300658	22	2.2	23	85	14	66	62	2	2	33	1.18
302251--302393	60	2.4	60	78	4	155	31	23	7	37	1.83
307010--307228	43	5.1	43	90	0	303	26	21	23	27	1.99
307032--307284	43	5.9	43	87	1	177	27	21	23	27	1.99
307078--307278	86	2.3	86	83	3	262	26	22	23	26	2.00
308469--308709	133	1.8	133	95	0	437	47	19	12	19	1.81
308914--308944	4	7.8	4	92	0	53	19	51	3	25	1.62
311433--311816	41	9.4	41	83	3	470	34	19	19	26	1.96
311416--311816	165	2.4	165	84	4	524	34	19	19	26	1.96
323962--323994	17	1.9	17	93	0	57	36	0	0	63	0.95
327019--327067	21	2.3	21	86	6	64	44	4	2	48	1.33
327613--327661	21	2.3	21	86	6	64	44	4	2	48	1.33
326742--328272	298	5.2	298	94	1	2673	43	8	8	40	1.65
327911--327956	20	2.2	20	84	3	56	45	4	2	47	1.34
326742--328272	594	2.6	594	95	0	2753	43	8	8	40	1.65
326742--328272	593	2.6	586	94	2	2634	43	8	8	40	1.65
345799--345952	59	2.6	57	80	10	168	41	7	19	31	1.78
352080--352110	2	15.5	2	100	0	62	51	0	0	48	1.00
354180--354230	19	2.6	20	90	3	77	43	23	17	15	1.88
354180--354334	20	7.6	20	72	11	109	39	21	21	17	1.92
354264--354344	43	2.0	42	80	7	94	40	17	23	18	1.91
354419--354475	6	9.5	6	100	0	114	33	50	15	0	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355166--355257	6	15.5	6	98	1	177	0	16	51	32	1.45
355342--355393	20	2.6	20	93	0	86	11	17	19	51	1.75
372166--372194	15	1.9	15	100	0	58	44	0	0	55	0.99
380379--380427	14	3.4	14	78	15	64	34	2	2	61	1.19
380372--380419	15	3.3	15	77	16	64	29	2	4	64	1.23
385484--385531	24	1.9	26	87	8	73	14	10	4	70	1.29
387846--388771	106	9.0	106	86	6	1271	34	24	17	24	1.96
387846--388771	318	3.0	308	88	4	1399	34	24	17	24	1.96
389153--389200	15	3.3	15	77	16	64	29	2	4	64	1.23
389160--389207	13	3.4	14	78	18	55	35	2	2	60	1.20
397143--397181	4	9.8	4	94	0	69	25	0	2	71	0.98
399505--399555	15	3.2	16	81	13	61	39	0	0	60	0.97
400918--400951	11	3.1	11	100	0	68	26	0	0	73	0.83
403318--403355	18	2.1	18	95	0	67	26	39	7	26	1.83
406080--406113	2	17.0	2	100	0	68	50	0	0	50	1.00
408321--408356	19	1.9	19	94	5	65	36	2	5	55	1.38
408322--408363	19	2.2	18	87	8	57	38	2	4	54	1.34
410395--410425	16	1.9	16	93	0	53	25	9	9	54	1.63
410814--410869	29	1.9	29	88	0	85	19	26	39	14	1.90
410966--411028	10	5.6	11	75	17	51	25	34	28	11	1.90
411001--411057	14	4.1	14	95	0	105	21	42	29	7	1.79
411074--411118	23	2.0	23	86	0	63	24	24	40	11	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411129--411213	29	2.9	29	91	0	143	21	29	35	14	1.92
415715--415773	23	2.6	23	75	0	73	30	16	11	40	1.85
417802--417851	25	2.0	25	100	0	100	36	0	20	44	1.52
417822--417884	17	3.7	17	75	17	51	42	3	12	41	1.59
419415--419475	26	2.3	26	85	0	77	24	4	18	52	1.65
419432--419483	26	2.0	26	84	0	68	26	5	19	48	1.71
420798--420843	17	2.8	17	84	15	69	39	21	17	21	1.93
427141--427202	32	1.9	32	86	0	88	51	0	3	45	1.17
427153--427210	28	2.1	28	83	0	71	51	0	3	44	1.18
427141--427217	32	2.3	32	82	4	82	53	0	3	42	1.19
431213--431249	14	2.6	14	91	0	56	24	16	21	37	1.93
431399--431717	159	2.0	160	84	3	419	29	15	7	46	1.75
431360--431813	159	2.9	157	79	6	364	31	16	7	45	1.74
448671--448701	2	16.0	2	93	6	55	48	0	0	51	1.00
451844--451884	20	2.0	20	85	0	55	75	4	14	4	1.14
453220--453452	38	6.5	36	76	12	187	46	8	3	41	1.52
453310--453519	74	2.8	72	82	10	203	44	9	4	42	1.55
454674--454766	30	3.1	30	82	0	105	37	5	19	37	1.75
476806--476851	14	3.3	14	84	9	58	21	34	34	8	1.84
478222--478256	18	1.9	18	88	0	52	28	11	37	22	1.89
484221--484281	23	2.7	23	81	0	77	19	21	22	36	1.95
485044--485080	18	2.1	18	89	0	56	24	24	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493017--493087	20	3.5	20	75	3	70	8	21	28	42	1.82
492992--493101	41	2.7	40	84	4	148	17	18	25	39	1.92
493001--493101	20	4.9	20	68	6	60	16	17	26	38	1.92
493211--493239	6	5.0	6	95	4	51	31	51	17	0	1.45
493678--493901	41	5.5	41	92	2	369	37	23	20	18	1.94
499051--499136	30	2.9	30	78	11	97	34	15	4	45	1.67
503946--503999	26	2.0	27	86	10	76	46	18	11	24	1.81
504086--504237	79	1.9	79	98	0	295	34	19	13	31	1.91
506400--506443	23	2.0	23	86	8	65	29	4	0	65	1.12
508609--508643	17	2.0	18	88	5	54	45	0	2	51	1.16
509621--509666	21	2.1	21	88	4	65	50	0	10	39	1.38
511560--511622	25	2.5	24	82	12	74	42	0	1	55	1.09
511569--511617	12	3.7	13	81	10	55	42	0	2	55	1.11
511806--511830	11	2.3	11	100	0	50	52	8	8	32	1.60
517676--517731	28	2.0	28	100	0	112	35	32	10	21	1.88
520052--520136	41	2.1	41	82	4	100	47	3	1	48	1.26
521119--521158	21	1.9	21	90	10	64	40	2	10	47	1.50
525560--525777	108	2.0	108	98	1	420	41	11	12	33	1.80
532144--532213	32	2.3	30	80	9	79	35	5	1	57	1.32
536323--536378	2	28.0	2	100	0	112	50	0	0	50	1.00
540473--540510	14	2.7	14	87	0	58	47	2	15	34	1.60
540466--541100	323	2.0	320	94	2	1121	32	6	8	51	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542141--542217	37	2.1	37	82	4	93	46	3	2	46	1.34
542350--542394	20	2.5	18	80	19	58	22	17	11	48	1.78
542363--542400	20	1.9	20	88	0	58	21	23	10	44	1.83
543117--543374	88	2.9	88	88	1	365	26	16	25	31	1.96
543426--543468	21	2.2	20	87	8	61	72	0	0	27	0.85
555851--556000	58	2.6	58	84	5	189	33	21	6	38	1.79
555890--556013	29	4.3	28	77	11	117	33	23	6	36	1.81
562465--562626	29	5.7	29	76	4	150	35	20	6	37	1.78
562465--562624	57	2.8	56	82	5	169	35	20	6	37	1.78
573246--573308	25	2.5	25	100	0	126	42	0	0	57	0.99

Tables:   1   2   3   4