genome.fa.s8275.2.7.7.80.10.50.1000.2.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: VEPZ01008275.1 Hibiscus syriacus cultivar Beakdansim tig00110933_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1991061

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 944 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)
283497--283590	3	31.7	3	72	6	66	61	1	1	36	1.10
291179--291217	4	9.8	4	82	0	51	46	20	5	28	1.72
291175--291209	16	2.1	17	89	5	54	42	17	8	31	1.79
296994--297287	147	2.0	147	100	0	588	44	9	10	35	1.72
298285--298442	21	7.8	20	72	7	86	38	24	17	18	1.93
298405--298458	20	2.7	20	82	8	65	44	25	16	12	1.84
298448--298600	20	7.7	20	79	8	141	35	26	16	20	1.94
298410--298598	40	4.7	40	80	2	184	37	26	16	19	1.93
298429--298578	60	2.5	60	81	4	169	36	28	16	19	1.93
299414--299642	20	11.4	20	85	3	228	19	17	25	37	1.94
299610--299707	21	4.8	20	75	10	81	21	19	21	37	1.94
299610--299708	42	2.4	43	77	11	100	21	19	22	37	1.94
299954--299979	2	13.0	2	100	0	52	50	0	0	50	1.00
301507--301594	44	2.0	42	91	4	140	50	0	0	50	1.00
304096--304235	60	2.3	61	83	3	185	38	6	22	32	1.80
304212--304259	21	2.3	21	100	0	96	41	0	18	39	1.51
313333--313373	14	3.0	13	86	10	55	29	2	0	68	1.03
313334--313393	21	2.7	21	87	10	75	26	5	0	68	1.10
320801--320848	2	24.0	2	100	0	96	50	0	0	50	1.00
321671--321697	6	4.5	6	100	0	54	62	0	0	37	0.95
329008--329052	21	2.1	21	83	0	54	20	17	11	51	1.75
334350--334374	2	12.5	2	100	0	50	0	48	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
335915--335963	24	2.0	25	84	4	64	46	4	4	44	1.41
336004--336038	18	1.9	18	88	0	52	60	0	0	40	0.97
336002--336052	23	2.2	23	89	0	75	54	0	1	43	1.11
336091--336176	27	3.1	27	70	18	70	47	0	3	48	1.18
336230--336308	37	2.1	37	82	13	92	49	3	0	46	1.19
347280--347331	26	2.0	26	84	0	68	40	0	19	40	1.51
354721--354770	24	2.1	24	85	7	66	24	2	14	60	1.45
355245--355277	16	2.1	16	94	0	57	15	6	0	78	0.93
367638--367698	32	1.9	32	86	0	86	22	11	14	50	1.75
371422--371598	86	2.1	87	96	2	331	33	29	10	26	1.89
386384--386410	2	13.5	2	100	0	54	51	0	0	48	1.00
390570--391499	147	6.4	145	75	8	350	42	12	12	32	1.80
390845--391506	147	4.5	147	81	3	733	42	12	12	32	1.80
390498--391506	292	3.5	292	76	7	971	43	12	11	32	1.79
390498--391506	439	2.3	425	79	6	1073	43	12	11	32	1.79
393100--393145	23	2.0	23	82	0	56	39	8	15	36	1.78
393768--394218	182	2.5	181	91	1	708	26	15	13	43	1.84
394127--394178	20	2.6	20	75	0	59	15	13	13	57	1.65
394091--394667	112	5.1	112	91	0	884	25	14	13	46	1.80
394091--394667	225	2.6	224	91	0	904	25	14	13	46	1.80
395098--395209	35	3.2	35	88	0	161	43	21	0	33	1.59
395203--395277	35	2.1	35	82	4	89	34	0	21	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397268--397379	35	3.2	35	83	0	134	35	1	21	41	1.64
398138--398175	18	2.1	19	85	5	51	13	0	5	81	0.85
399932--399994	15	4.3	15	83	4	83	38	7	19	34	1.81
399932--399994	30	2.1	30	97	2	119	38	7	19	34	1.81
399977--400046	20	3.5	20	96	0	131	40	10	14	35	1.79
400142--400184	23	2.0	23	81	9	54	46	2	4	46	1.36
400200--400259	25	2.3	25	86	13	77	51	1	1	45	1.21
400198--400298	28	3.6	27	78	20	93	52	1	0	44	1.19
400247--400358	30	3.7	31	71	17	101	49	0	0	49	1.13
400265--400369	52	2.0	51	85	10	142	48	0	0	49	1.14
400558--400677	42	2.9	42	97	0	222	45	19	20	15	1.86
403969--404069	50	2.0	50	98	0	193	29	15	12	41	1.85
404553--404617	29	2.3	27	80	15	69	58	4	9	27	1.49
404567--404653	29	3.0	30	77	5	88	57	3	10	28	1.48
412463--412621	52	3.2	52	62	18	138	43	18	11	27	1.84
412427--412630	97	2.1	97	96	1	374	40	16	14	28	1.88
412758--412786	15	1.9	15	100	0	58	6	37	13	41	1.72
417634--417670	16	2.2	18	90	9	60	45	2	0	51	1.15
421373--421743	161	2.2	171	88	6	546	24	13	20	41	1.89
421376--421743	174	2.2	161	88	6	520	24	13	20	41	1.89
431686--431728	2	21.5	2	100	0	86	48	0	0	51	1.00
435328--435417	42	2.1	44	87	4	130	37	31	8	22	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439580--439666	34	2.6	34	98	0	165	39	17	14	28	1.89
441272--441333	24	2.6	24	76	0	70	50	16	9	24	1.75
442141--442199	27	2.1	28	93	3	102	25	11	15	47	1.79
442160--442217	27	2.1	27	81	6	64	25	12	13	48	1.77
443710--444096	183	2.1	183	91	2	627	45	7	2	43	1.47
450400--450617	103	2.1	103	93	1	375	26	12	22	38	1.90
450634--450701	23	3.0	23	84	0	82	22	26	25	26	2.00
453409--453486	39	1.9	39	89	5	120	32	6	8	52	1.58
458853--458947	11	8.9	11	72	14	65	49	5	2	43	1.37
458881--458941	31	1.9	32	96	3	115	50	4	0	44	1.23
465309--465370	24	2.6	23	73	16	54	33	8	0	58	1.28
467913--468030	57	2.1	57	100	0	236	30	21	18	29	1.97
472977--473064	9	8.5	11	69	18	55	72	0	2	25	0.96
472974--473059	39	2.2	39	83	8	104	70	0	2	26	0.99
472974--473050	30	2.6	30	76	10	86	72	0	2	24	0.97
472972--473065	12	7.3	13	69	15	54	73	0	2	24	0.94
475975--476010	18	2.0	18	100	0	72	50	16	16	16	1.79
478044--478151	42	2.6	42	76	5	128	35	31	20	12	1.90
478898--479012	42	2.7	42	97	0	212	48	10	20	20	1.78
481942--482073	39	3.4	38	76	14	119	22	34	6	35	1.81
482858--483464	192	3.1	195	77	5	610	18	30	12	38	1.87
492032--492110	38	2.1	39	85	4	108	37	7	25	29	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495988--496034	14	2.9	16	78	21	53	70	23	4	2	1.16
499326--499356	12	2.6	12	94	0	53	9	45	0	45	1.36
509531--509743	72	2.9	72	94	0	363	45	17	17	18	1.86
517874--517912	20	2.1	18	85	9	51	51	2	0	46	1.14
522214--522262	22	2.2	22	85	10	64	38	0	4	57	1.18
526367--526406	20	2.1	20	90	9	66	10	15	12	62	1.54
536753--536801	22	2.2	23	82	10	66	53	4	6	36	1.45
542686--542776	18	5.1	18	73	20	66	20	31	29	17	1.96
542710--542790	33	2.5	33	90	6	128	22	30	27	19	1.98
542903--542944	21	2.0	21	90	0	66	23	19	28	28	1.98
542973--543012	20	1.9	21	85	10	55	37	37	10	15	1.80
549307--549650	174	2.0	169	97	2	643	29	14	18	36	1.91
549789--549847	30	2.0	30	87	6	86	8	28	13	49	1.71
550673--550716	23	2.0	23	95	4	81	25	29	13	31	1.94
558572--558599	14	2.0	14	100	0	56	28	7	0	64	1.20
559215--559619	165	2.5	165	92	0	648	34	6	34	24	1.81
565822--565863	22	2.0	21	86	13	59	54	0	0	45	0.99
565833--565869	13	2.7	13	91	8	56	48	0	0	51	1.00
567579--567613	16	2.3	16	90	9	56	65	11	5	17	1.43
567693--567731	16	2.4	16	86	0	60	58	15	10	15	1.62
568804--568940	34	3.9	35	78	12	138	58	17	8	15	1.62
568817--568850	10	3.4	10	87	0	50	58	20	8	11	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
568828--568934	24	4.4	24	67	13	74	56	19	9	14	1.66
571856--571939	27	3.3	27	71	19	97	42	7	3	46	1.48
571841--571941	50	2.0	50	100	0	202	44	5	3	45	1.46
572255--572473	29	7.6	29	73	10	171	37	8	1	52	1.40
572233--572450	86	2.5	86	86	5	305	36	7	1	54	1.39
572457--572495	15	2.4	17	83	12	55	46	5	0	48	1.24
574229--574277	15	3.2	15	80	13	55	63	14	4	18	1.46
577995--578078	32	2.5	34	76	14	93	44	1	7	47	1.38
577982--578105	35	3.6	36	77	14	118	45	2	6	45	1.42
578149--578217	25	2.8	24	76	8	68	46	1	7	44	1.40

Tables:   1   2   3   4   5   6   7   8