genome.fa.s7980.2.7.7.80.10.50.1000.3.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: VEPZ01007980.1 Hibiscus syriacus cultivar Beakdansim tig00110419_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1499237

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 886 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)
414896--414944	16	2.9	17	74	20	57	65	2	0	32	1.04
414870--414947	3	26.7	3	71	21	51	62	1	1	34	1.11
416647--416803	62	2.4	65	86	7	205	38	12	21	28	1.89
416706--417146	36	13.0	34	68	20	205	41	12	19	27	1.87
416788--417157	36	10.8	36	71	15	230	42	11	18	27	1.85
416719--417146	134	3.2	133	85	6	574	41	12	18	27	1.86
416903--417004	33	2.9	33	80	12	107	41	10	18	29	1.84
417060--417117	20	3.0	20	75	14	77	46	10	18	24	1.80
418251--418472	91	2.6	86	81	10	274	31	19	18	29	1.96
419189--419347	79	2.0	80	96	3	295	25	25	15	34	1.94
422374--422431	17	3.6	16	75	13	57	65	3	5	25	1.29
422366--422433	31	2.3	29	75	9	68	69	2	4	23	1.21
422464--422534	5	13.8	5	83	7	63	61	0	2	35	1.10
422409--422535	15	8.1	15	70	18	73	62	0	2	34	1.08
422412--422510	36	2.8	35	82	10	103	60	0	3	36	1.12
422411--422534	10	12.4	10	73	16	80	62	0	2	35	1.09
428813--429253	226	1.9	227	92	3	737	44	8	7	39	1.62
429305--429359	20	2.8	19	78	15	58	50	16	14	18	1.77
429320--429363	19	2.3	19	82	17	56	52	11	15	20	1.74
429482--429528	20	2.4	19	89	10	76	55	10	17	17	1.69
429486--429533	20	2.6	18	84	15	62	56	10	14	18	1.66
431139--431240	50	2.0	50	100	0	204	28	11	31	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431777--431841	21	3.1	21	80	6	69	40	15	29	15	1.88
433711--433759	19	2.6	19	93	0	80	30	2	10	57	1.43
433876--435230	198	6.9	198	96	3	2454	36	15	16	31	1.90
433876--435230	590	2.3	594	95	3	2470	36	15	16	31	1.90
436673--436734	18	3.4	18	79	0	79	37	9	35	17	1.83
436673--436764	6	15.3	6	79	0	67	36	7	34	20	1.81
436688--436768	3	27.0	3	75	0	72	35	6	34	23	1.80
436676--436752	36	2.1	36	90	0	118	35	9	35	20	1.85
436676--436764	12	7.4	12	84	0	88	35	7	34	21	1.82
436673--436764	18	5.1	18	77	0	76	36	7	34	20	1.81
438215--438627	184	2.3	183	94	0	720	36	14	15	33	1.88
441128--441192	25	2.6	25	80	0	85	35	9	13	41	1.77
441475--441538	23	2.8	23	87	0	92	35	6	20	37	1.78
441475--441547	23	3.2	23	82	7	85	34	5	20	39	1.76
441906--441969	23	2.8	23	87	0	92	35	6	20	37	1.78
441906--441978	23	3.2	23	82	7	85	34	5	20	39	1.76
442330--442393	23	2.8	23	87	0	92	35	6	20	37	1.78
442330--442402	23	3.2	23	82	7	85	34	5	20	39	1.76
442405--442443	20	2.0	20	89	0	60	25	15	10	48	1.76
442755--442817	23	2.8	23	85	2	83	34	6	20	38	1.78
442755--442826	23	3.2	23	80	9	76	33	5	20	40	1.76
441195--443057	424	4.4	429	97	2	3528	39	8	12	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
443092--443140	25	2.0	25	91	0	80	32	8	20	38	1.82
443802--443888	39	2.2	39	95	0	156	48	20	13	17	1.81
444292--444355	23	2.8	23	87	0	92	35	6	20	37	1.78
444292--444364	23	3.2	23	82	7	85	34	5	20	39	1.76
448254--448327	31	2.4	31	90	0	112	20	12	17	50	1.78
448811--448943	32	4.2	32	81	3	117	35	17	10	36	1.84
457260--457338	30	2.6	30	83	0	104	16	25	16	41	1.88
460741--460800	29	2.0	31	90	6	97	35	6	16	41	1.75
460865--460930	19	3.5	19	89	0	87	39	9	13	37	1.77
461037--461078	21	2.0	21	95	0	75	23	21	28	26	1.99
461363--461432	34	2.1	32	86	5	95	32	15	28	22	1.95
463133--463166	15	2.3	15	89	0	50	50	0	41	8	1.34
471093--471148	3	18.7	3	92	0	85	64	0	3	32	1.11
471464--472239	113	6.9	112	95	1	1309	29	19	13	38	1.89
472404--472448	23	2.0	23	82	8	56	42	20	4	33	1.72
472973--473264	83	3.5	83	96	0	530	36	22	14	26	1.92
474399--474471	6	12.5	6	75	16	57	0	17	1	80	0.78
474399--474471	21	3.4	21	83	9	94	0	17	1	80	0.78
474399--474468	11	6.5	10	78	18	70	0	17	1	81	0.77
485127--485197	28	2.6	28	76	12	76	61	0	5	32	1.19
485084--485164	18	4.2	19	73	20	62	66	2	4	25	1.24
487313--487389	3	25.7	3	97	0	145	64	0	1	33	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
492223--492348	4	31.5	4	88	0	108	37	0	11	50	1.39
492234--492360	32	4.1	32	88	8	199	34	0	14	51	1.42
492254--492361	4	29.0	4	76	14	97	31	0	17	50	1.46
492224--492356	14	9.2	14	88	6	176	36	0	12	51	1.40
492230--492360	18	7.2	18	85	3	145	35	0	13	51	1.42
495601--495733	42	3.2	42	90	2	205	19	15	17	48	1.82
495930--495992	23	2.6	24	78	19	60	50	1	0	47	1.10
495964--496010	22	2.1	23	88	4	69	44	2	0	53	1.12
496004--496048	23	2.0	23	86	0	63	57	0	4	37	1.19
496565--496620	14	3.9	14	77	13	60	33	17	3	44	1.66
499417--499445	2	14.5	2	100	0	58	51	0	0	48	1.00
502318--502406	35	2.5	35	96	3	162	51	3	6	38	1.45
504269--504336	22	3.1	22	82	0	82	33	19	22	25	1.97
519291--519365	16	4.7	16	79	0	87	24	26	14	34	1.94
519291--519365	32	2.3	32	93	0	123	24	26	14	34	1.94
519477--519517	17	2.4	17	95	0	73	46	0	7	46	1.30
519487--519584	51	1.9	52	97	2	189	40	2	6	51	1.38
519439--519568	68	1.9	67	84	7	174	44	1	5	48	1.35
522754--522916	65	2.5	64	83	3	211	27	15	26	30	1.96
522865--522914	19	2.7	18	82	11	66	26	16	34	24	1.95
523125--523164	20	2.0	21	85	14	57	45	7	5	42	1.54
529240--529290	19	2.7	19	85	8	70	25	15	35	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
529509--529548	20	2.0	21	85	14	57	45	7	5	42	1.54
529601--529660	21	2.9	21	80	14	63	50	0	0	50	1.00
529675--529859	31	5.8	30	72	20	108	50	3	4	41	1.42
529738--529799	14	4.4	14	74	11	54	41	3	8	46	1.49
529682--529852	66	2.6	63	77	15	154	49	3	5	42	1.42
529874--529924	21	2.4	21	83	6	68	49	5	3	41	1.45
529884--529927	14	3.1	14	80	0	52	50	4	4	40	1.43
529934--530049	60	1.9	60	96	0	214	42	12	6	39	1.67
530192--530231	21	1.9	21	84	0	53	22	0	25	52	1.47
530477--530521	2	23.0	2	95	4	83	51	0	0	48	1.00
530611--530698	4	22.0	4	88	0	68	37	52	10	0	1.36
530659--530698	6	6.7	6	91	0	62	45	55	0	0	0.99
530611--530698	16	5.5	16	84	0	77	37	52	10	0	1.36
530611--530698	10	8.8	10	71	0	68	37	52	10	0	1.36
530887--530948	19	3.3	19	77	6	72	24	30	0	45	1.54
531024--531050	2	13.5	2	100	0	54	51	0	0	48	1.00
531079--531180	13	7.2	13	71	16	69	44	4	4	46	1.46
531091--531151	28	2.3	26	85	5	77	45	4	4	44	1.46
544118--544174	30	1.9	30	92	0	96	43	8	7	40	1.63
544199--544232	17	2.0	17	88	0	50	61	2	0	35	1.11
545445--545483	20	1.9	21	85	15	55	35	0	10	53	1.35
545871--545900	14	2.1	14	93	0	51	50	10	0	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549236--549289	26	2.1	26	100	0	108	25	11	40	22	1.87
549833--549888	22	2.7	21	84	13	64	62	0	0	37	0.95
559983--560015	17	1.9	17	93	0	57	33	9	12	45	1.73
560119--560160	22	1.9	22	85	0	57	19	23	23	33	1.97
569702--569748	18	2.7	18	90	3	69	36	8	27	27	1.86
570119--570658	256	2.1	252	86	7	745	40	18	10	29	1.85
577834--577944	53	2.1	51	95	3	195	41	10	13	34	1.79
582942--582992	27	2.0	24	85	14	68	56	5	3	33	1.42
583582--583665	30	2.8	29	85	5	105	53	3	1	41	1.26
583583--583663	10	8.1	10	71	17	53	54	3	1	40	1.26

Tables:   1   2   3   4   5   6   7   8