genome.fa.s8627.2.7.7.80.10.50.1000.2.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: VEPZ01008627.1 Hibiscus syriacus cultivar Beakdansim tig00111594_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1073793

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 615 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)
327031--327184	32	4.8	32	69	16	95	38	12	14	33	1.85
328534--328590	30	1.9	30	85	0	78	45	10	17	26	1.81
328805--328863	24	2.4	25	91	5	93	64	3	18	13	1.42
329522--329576	18	3.1	18	75	15	60	43	1	0	54	1.10
329517--329554	19	2.1	19	85	5	51	39	5	0	55	1.23
329629--329710	33	2.5	32	84	2	101	10	9	34	45	1.72
329647--329696	16	3.1	16	82	2	64	12	8	32	48	1.69
329633--329712	32	2.5	33	83	2	99	11	8	33	46	1.71
330326--330359	17	2.0	17	94	0	59	38	23	0	38	1.55
335868--335937	3	23.3	3	91	0	113	71	0	0	28	0.86
336351--336454	42	2.5	41	83	6	129	33	22	20	24	1.97
336200--337349	258	4.5	258	90	0	1775	33	17	15	33	1.92
336879--336972	42	2.3	41	81	7	118	32	20	20	26	1.97
337125--337233	42	2.6	41	81	5	121	31	21	22	25	1.98
339443--339504	8	7.6	8	81	3	70	4	12	0	82	0.82
339443--339503	24	2.5	24	86	7	79	4	13	0	81	0.83
339443--339527	25	3.6	23	82	7	89	7	14	0	78	0.94
339460--339518	16	3.7	16	80	6	57	8	8	0	83	0.83
343442--344267	283	2.9	283	90	0	1289	23	20	15	40	1.90
348891--349000	47	2.4	46	86	4	143	40	9	20	30	1.83
349671--349700	15	2.0	15	93	0	51	30	10	20	40	1.85
355802--355911	47	2.4	46	86	4	143	40	9	20	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357108--357140	3	11.0	3	93	0	57	66	3	0	30	1.06
358926--358996	21	3.4	21	74	0	70	26	19	11	42	1.85
358905--358992	42	2.1	42	80	0	95	27	15	11	45	1.81
358936--359018	42	2.0	42	83	4	105	28	19	13	38	1.89
359448--359494	12	3.9	12	94	0	85	57	0	40	2	1.11
359446--359532	12	6.4	14	73	23	55	59	0	34	5	1.21
360235--360261	13	2.1	13	100	0	54	22	25	14	37	1.93
364050--364108	29	2.1	28	84	9	75	45	6	1	45	1.40
364678--364977	35	8.3	36	80	11	264	43	4	12	40	1.61
364680--364975	71	4.2	72	83	9	308	43	4	12	40	1.62
364992--365095	2	54.0	2	74	21	89	42	0	5	51	1.25
364999--365096	36	2.9	33	78	19	105	40	0	6	53	1.26
364997--365096	52	2.0	51	82	11	125	41	0	6	53	1.26
367112--367150	3	13.0	3	100	0	78	33	0	0	66	0.92
378578--378942	37	10.1	36	75	12	243	43	4	11	41	1.60
378637--378964	35	9.1	35	70	18	144	43	4	11	39	1.62
378661--378964	70	4.2	71	78	10	280	44	4	11	39	1.61
378638--378844	105	2.0	105	82	7	251	42	5	11	40	1.63
378780--378966	37	5.2	37	72	21	114	45	3	12	37	1.60
378948--379003	28	1.9	30	92	7	98	46	3	7	42	1.48
378948--378999	26	1.9	27	92	7	88	46	3	7	42	1.51
378988--379053	2	34.5	2	79	14	77	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
378993--379096	25	4.3	24	75	19	76	44	0	7	47	1.38
381244--381279	2	18.0	2	100	0	72	50	0	0	50	1.00
381272--381584	119	2.6	118	86	8	406	39	4	5	49	1.47
381501--381529	13	2.2	13	100	0	58	51	0	0	48	1.00
381609--381686	3	26.0	3	79	14	54	37	3	0	58	1.16
381802--381833	15	2.1	15	94	0	55	25	18	25	31	1.98
384736--384838	36	2.9	36	89	0	143	40	20	10	28	1.85
385308--385393	43	2.0	43	90	0	136	33	8	20	37	1.83
385538--385596	31	1.9	31	85	0	82	20	20	13	45	1.84
385559--385588	12	2.6	12	94	5	53	23	16	10	50	1.75
387468--387517	10	4.8	10	83	9	64	78	0	20	2	0.86
391927--392114	73	2.6	73	94	0	322	35	15	10	38	1.83
392111--392439	121	2.7	123	92	1	554	39	15	19	25	1.91
392354--392715	139	2.6	139	84	4	482	38	15	19	26	1.91
392927--393015	3	29.3	3	79	15	67	38	3	0	58	1.15
392930--392967	20	1.9	20	88	0	58	31	5	0	63	1.17
397817--397981	87	1.9	88	94	1	296	41	11	11	35	1.78
399725--399766	15	2.6	16	82	17	52	61	0	4	33	1.17
401255--401289	19	1.9	18	88	11	54	31	17	22	28	1.96
401642--401992	183	1.9	184	87	2	510	26	20	19	33	1.96
401890--402193	55	5.8	54	70	14	242	32	20	18	28	1.96
401950--402237	47	5.7	47	69	18	188	33	20	19	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
401640--402040	183	2.2	183	84	3	493	27	19	19	33	1.96
401893--402237	102	3.4	102	84	2	431	32	19	19	27	1.96
401910--402237	103	3.2	102	85	3	426	32	20	19	27	1.97
402327--402482	73	2.1	73	89	0	231	21	17	19	41	1.91
402327--402482	36	4.3	37	90	2	226	21	17	19	41	1.91
402327--402503	73	2.4	73	84	1	221	20	18	20	40	1.92
402475--402779	89	3.4	88	84	2	396	27	18	20	33	1.96
402830--402923	40	2.4	40	87	3	129	41	19	14	24	1.89
402955--403055	42	2.4	41	79	6	114	35	22	18	22	1.96
403192--403243	20	2.6	20	93	0	86	32	19	28	19	1.96
402940--403697	251	2.9	262	87	5	1015	33	17	17	31	1.93
404885--405017	44	3.1	43	81	4	144	32	20	14	33	1.92
414008--414191	101	1.8	101	86	0	269	39	9	13	38	1.77
414107--414266	78	2.1	78	86	2	223	39	11	13	35	1.82
415101--415405	148	2.1	148	89	1	459	37	17	6	38	1.76
415149--415384	73	3.2	73	66	14	178	35	16	6	40	1.76
415149--415438	148	2.0	147	89	2	447	37	15	6	40	1.73
415636--416198	260	2.2	260	84	3	675	34	16	11	38	1.84
416214--416255	21	2.1	21	86	8	61	23	16	7	52	1.68
416977--417023	20	2.4	19	86	10	67	55	6	19	19	1.64
416765--417237	181	2.6	182	89	1	691	42	13	17	26	1.86
417149--417204	20	2.8	19	81	7	67	55	8	16	19	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419390--419450	20	3.0	21	85	7	54	45	11	27	14	1.80
419399--419462	21	3.1	21	88	4	94	40	10	31	17	1.84
419496--419561	33	2.0	33	90	0	105	28	0	48	22	1.51
421347--421395	19	2.6	19	96	0	89	32	2	10	55	1.45
421514--422483	200	4.9	200	94	3	1710	37	14	17	30	1.90
421514--422483	393	2.4	394	94	2	1707	37	14	17	30	1.90
423945--424032	6	14.7	6	81	0	68	37	7	32	21	1.83
423962--424036	3	25.0	3	77	0	78	36	6	33	24	1.81
423945--424026	36	2.3	36	91	0	128	37	8	32	20	1.83
423945--424032	12	7.3	12	85	0	95	37	7	32	21	1.83
425786--425841	25	2.2	25	96	0	103	37	10	14	37	1.81
426198--426323	23	5.5	23	97	0	225	35	4	18	41	1.71
426734--426806	23	3.2	23	88	0	110	34	5	20	39	1.76
426734--426831	46	2.1	45	81	7	108	33	7	17	41	1.77
427456--427528	23	3.2	23	90	0	110	41	21	4	32	1.72
427926--427998	23	3.2	23	92	0	119	38	21	5	34	1.77
427133--428389	470	2.6	483	94	3	2162	41	11	7	40	1.68
429484--429516	16	2.1	16	100	0	66	12	6	33	48	1.65
429793--429853	19	3.3	18	88	2	59	52	11	1	34	1.47
429805--429853	19	2.6	19	96	0	89	55	10	2	32	1.45
431743--431807	21	3.1	21	93	0	103	16	30	10	41	1.83
434038--434083	19	2.4	19	81	3	65	19	17	10	52	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434217--434264	20	2.4	18	81	18	60	20	16	10	52	1.73
434005--434476	182	2.6	183	88	2	677	26	16	13	42	1.86
434747--434819	23	3.2	23	92	0	119	38	21	5	34	1.77
435226--435298	23	3.2	23	90	0	110	38	20	5	35	1.76
435702--435773	23	3.2	23	92	4	119	37	22	5	34	1.77
434523--438100	476	7.5	477	95	1	6467	40	11	7	41	1.69
436176--436248	23	3.2	23	92	0	119	38	21	5	34	1.77
436654--436726	23	3.2	23	92	0	119	38	21	5	34	1.77
437130--437202	23	3.2	23	92	0	119	38	21	5	34	1.77
437605--437677	23	3.2	23	86	0	101	39	20	5	34	1.76

Tables:   1   2   3   4   5   6