genome.fa.s8716.2.7.7.80.10.50.1000.18.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  18  of  24  ( 2813 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)
4437843--4437903	20	2.9	21	87	7	79	18	26	34	21	1.96
4443650--4443856	75	2.8	76	88	2	285	21	23	30	24	1.99
4445506--4445689	60	3.1	60	87	4	239	30	23	4	40	1.76
4445829--4445981	61	2.5	61	83	10	181	45	5	14	34	1.69
4445829--4445995	60	2.7	61	81	9	173	44	5	15	34	1.71
4447048--4447081	2	17.0	2	100	0	68	50	0	0	50	1.00
4449276--4449502	20	11.2	20	78	10	196	43	22	19	15	1.88
4449352--4449493	42	3.5	42	85	6	202	40	23	20	15	1.91
4449295--4449502	62	3.4	63	76	14	190	42	22	19	15	1.89
4449598--4449780	6	30.5	6	100	0	366	33	50	16	0	1.45
4450386--4450793	20	20.2	20	76	14	360	15	19	23	40	1.90
4450394--4450696	40	7.5	40	96	0	516	16	20	25	38	1.92
4456696--4456874	35	5.1	35	81	0	205	24	20	17	38	1.93
4456696--4456863	70	2.4	70	88	0	246	24	20	17	37	1.94
4456887--4456920	12	2.9	12	95	4	61	0	14	0	85	0.60
4456887--4456920	11	3.0	11	91	4	50	0	14	0	85	0.60
4460293--4460325	15	2.2	15	94	0	57	57	12	12	18	1.64
4467306--4467374	23	3.0	23	76	0	84	28	23	28	18	1.98
4468308--4468347	15	2.7	15	96	0	71	20	22	7	50	1.73
4479492--4479752	137	1.9	137	86	1	371	24	14	19	41	1.89
4483474--4483546	12	6.6	12	72	20	52	47	9	38	4	1.55
4483486--4483544	21	2.8	21	84	5	75	45	11	38	3	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4485735--4485794	25	2.4	25	100	0	120	50	20	5	25	1.68
4487680--4487748	30	2.3	30	75	9	70	43	17	8	30	1.79
4498828--4499162	28	11.6	28	77	8	305	38	6	4	51	1.47
4498903--4499162	57	4.6	56	80	8	274	38	7	4	50	1.50
4498908--4499155	85	2.9	85	81	8	299	39	6	4	49	1.50
4498898--4499188	57	5.1	56	79	8	272	37	7	4	50	1.50
4498908--4499217	85	3.6	82	78	11	279	38	8	4	49	1.53
4501296--4501337	4	10.5	4	85	10	59	76	2	0	21	0.90
4501299--4501331	17	1.9	17	100	0	66	78	3	0	18	0.87
4501412--4501653	38	6.6	38	85	7	313	43	8	4	44	1.53
4501412--4501653	73	3.3	75	88	4	350	43	8	4	44	1.53
4503225--4503274	17	3.1	15	83	13	57	80	4	0	16	0.87
4503224--4503266	23	1.9	22	86	13	61	79	4	0	16	0.90
4503334--4503777	38	12.0	37	88	5	616	41	8	4	45	1.55
4503351--4503777	110	3.8	113	88	4	622	41	8	4	44	1.55
4503334--4503775	148	3.0	149	89	3	648	41	8	4	45	1.55
4503760--4503790	2	16.0	2	93	6	55	48	0	0	51	1.00
4504100--4504133	7	4.6	7	86	13	50	14	0	2	82	0.79
4504949--4504998	23	2.2	23	100	0	100	34	8	38	20	1.82
4505844--4505873	12	2.4	13	94	5	53	20	0	10	70	1.16
4514153--4514844	217	3.2	217	89	2	1016	32	14	20	32	1.93
4514586--4514687	42	2.5	41	82	6	125	25	19	22	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4514804--4514894	42	2.2	41	86	5	121	27	19	20	31	1.97
4514947--4515031	42	2.0	42	90	0	134	28	18	21	31	1.97
4515070--4515094	13	1.9	13	100	0	50	32	24	20	24	1.98
4514816--4515124	135	2.3	132	89	1	447	31	17	20	30	1.96
4515010--4515213	93	2.2	93	90	0	327	33	17	19	29	1.95
4515175--4515255	42	1.9	42	97	0	153	27	19	20	32	1.97
4514857--4515301	228	2.0	224	90	1	701	32	17	20	29	1.95
4515268--4515446	37	4.9	37	85	2	227	39	21	20	18	1.92
4515268--4515445	73	2.4	73	88	0	266	39	21	20	19	1.93
4515642--4515675	7	4.6	7	86	13	50	14	0	2	82	0.79
4520397--4520462	25	2.6	23	83	9	60	34	1	13	50	1.51
4520415--4520486	25	2.8	25	85	4	81	37	2	9	50	1.50
4520351--4520534	29	6.6	29	72	9	109	34	3	15	45	1.65
4521296--4521338	15	2.9	14	83	16	52	25	13	13	46	1.81
4527722--4527779	29	2.0	30	86	3	82	31	3	18	46	1.66
4529588--4529640	21	2.5	21	78	6	63	20	24	18	35	1.95
4529630--4529681	21	2.5	21	81	3	61	38	19	25	17	1.93
4529670--4529784	20	5.7	20	84	6	133	32	26	18	22	1.97
4529668--4529804	41	3.4	40	82	6	168	35	25	16	22	1.95
4529971--4530014	22	2.0	22	86	0	61	22	43	13	20	1.87
4530291--4530349	20	3.0	20	87	0	73	16	18	22	42	1.89
4531624--4531671	18	2.7	18	93	0	87	27	45	12	14	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4532206--4532272	20	3.4	20	81	2	73	38	23	22	14	1.92
4532261--4532319	14	3.9	14	72	20	55	49	23	16	10	1.77
4532245--4532336	33	2.8	33	90	6	150	46	21	18	13	1.82
4532357--4532430	33	2.2	33	95	0	130	12	17	22	47	1.81
4532369--4532446	19	4.4	19	75	15	85	12	19	21	46	1.83
4532400--4532474	19	3.9	19	87	1	87	14	22	21	41	1.89
4532860--4532928	21	3.3	20	74	6	66	24	40	15	18	1.90
4532850--4532940	41	2.2	42	88	2	139	21	41	15	20	1.89
4534503--4534556	14	3.5	14	75	22	54	46	20	22	11	1.82
4534516--4534561	14	2.8	17	75	25	53	45	19	21	13	1.84
4534580--4534657	20	3.9	20	89	0	120	17	20	23	38	1.93
4536923--4536947	12	2.1	12	100	0	50	0	28	0	72	0.86
4537122--4537181	24	2.5	24	86	0	84	40	18	15	26	1.90
4537914--4538067	20	7.7	20	85	4	175	25	18	27	28	1.98
4537894--4538071	40	4.4	41	81	7	132	24	18	25	31	1.98
4538098--4538159	21	3.0	20	76	9	70	35	16	25	22	1.94
4542126--4542162	14	2.6	14	91	0	56	8	13	51	27	1.69
4542439--4542497	21	2.7	22	76	5	75	22	25	20	32	1.98
4542482--4542577	40	2.4	40	92	0	165	34	18	21	25	1.96
4542482--4542615	20	6.7	20	79	6	128	29	21	22	26	1.99
4543434--4543487	24	2.2	24	90	6	83	20	16	20	42	1.89
4543677--4543713	14	2.6	14	91	4	56	51	21	18	8	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4545724--4545758	18	1.9	18	94	0	61	54	22	2	20	1.58
4545936--4546188	94	2.7	92	81	7	271	38	22	18	21	1.93
4546035--4546220	73	2.5	73	87	1	246	37	21	18	22	1.94
4545933--4546176	20	12.9	20	78	10	208	37	22	18	22	1.94
4546238--4546359	61	2.0	61	100	0	244	47	18	3	31	1.64
4546318--4546397	30	2.4	34	80	20	114	55	15	3	26	1.57
4546333--4546398	30	2.2	30	100	0	132	54	13	3	28	1.54
4547781--4547887	42	2.5	42	75	4	108	24	20	35	19	1.96
4548377--4548440	20	3.3	18	85	12	83	35	26	20	17	1.94
4548385--4548440	20	2.8	20	94	0	94	35	25	19	19	1.95
4548483--4548550	20	3.4	20	85	4	93	19	22	25	33	1.97
4548698--4548747	18	2.8	18	100	0	100	42	6	20	32	1.76
4550478--4550582	19	5.4	19	79	6	95	45	22	16	15	1.84
4550479--4550571	19	4.8	20	82	4	100	45	22	17	15	1.85
4550950--4551005	22	2.5	22	85	0	85	17	17	42	21	1.89
4551170--4551259	20	4.5	20	83	5	101	26	22	22	28	1.99
4551192--4551345	40	3.8	40	76	5	155	28	20	22	29	1.98
4551279--4551330	21	2.4	22	74	6	61	36	19	25	19	1.95
4551757--4551781	10	2.5	10	100	0	50	24	8	0	68	1.16
4552130--4552436	144	2.1	144	89	3	483	47	5	19	27	1.70
4554829--4554906	37	2.1	36	83	2	93	39	2	17	39	1.64
4565519--4565580	27	2.4	25	76	10	70	45	1	4	48	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4565491--4565617	65	1.9	66	85	7	179	45	2	3	48	1.34
4565491--4565617	64	1.9	67	85	7	181	45	2	3	48	1.34
4565558--4565833	38	7.6	38	83	11	321	47	1	3	47	1.28
4565727--4565787	31	2.0	31	87	9	90	50	1	3	44	1.28
4565689--4565817	67	1.9	68	91	4	208	47	1	4	46	1.32
4565847--4565884	4	9.8	4	88	11	53	26	0	0	73	0.83
4565839--4565882	23	1.9	23	90	9	72	25	2	0	72	0.96
4565849--4565884	9	4.0	9	86	13	56	25	0	0	75	0.81
4565850--4565897	19	2.5	20	83	12	66	22	4	0	72	1.01
4567122--4567154	10	3.4	10	87	4	50	18	9	0	72	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24