genome.fa.s9611.2.7.7.80.10.50.1000.17.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   25   26   27   

This is table  17  of  27  ( 3214 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)
4560827--4560867	10	4.1	10	84	12	57	31	26	0	41	1.56
4560992--4561324	111	3.0	111	96	0	594	36	7	10	45	1.67
4562807--4562841	14	2.5	14	95	0	61	22	40	22	14	1.90
4562860--4562918	27	2.2	27	93	0	100	22	38	13	25	1.90
4562860--4562929	27	2.6	27	86	0	68	20	40	14	25	1.90
4563225--4563285	21	2.9	21	90	0	95	31	21	36	11	1.89
4563222--4563283	24	2.6	24	86	0	79	32	22	35	9	1.87
4567173--4567296	51	2.4	51	82	7	146	23	28	33	15	1.95
4571398--4571442	16	2.8	16	79	3	54	40	0	0	60	0.97
4573464--4573506	21	2.0	21	81	0	50	30	30	25	13	1.94
4573486--4573638	68	2.2	68	89	6	231	29	27	26	16	1.97
4574005--4574063	30	2.0	30	93	0	100	40	3	22	33	1.70
4574274--4574341	22	3.1	22	97	0	127	20	27	25	26	1.99
4574274--4574352	22	3.6	22	94	0	122	21	26	24	27	1.99
4580377--4580419	21	2.0	21	81	0	50	30	30	25	13	1.94
4580399--4580550	69	2.3	67	88	7	220	29	27	26	16	1.97
4580514--4580551	20	1.9	20	88	0	58	23	34	31	10	1.89
4580915--4580973	30	2.0	30	93	0	100	40	3	22	33	1.70
4581182--4581249	22	3.1	22	100	0	136	19	27	26	26	1.99
4583156--4583199	15	2.8	15	83	10	52	70	0	0	29	0.88
4583223--4583875	326	2.0	326	99	0	1288	32	15	23	28	1.95
4597116--4597140	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4597077--4597176	54	1.9	52	82	13	127	33	5	3	59	1.34
4597357--4597477	4	29.2	4	73	15	61	22	9	1	66	1.31
4599984--4600029	20	2.3	20	96	0	83	28	19	32	19	1.96
4609038--4609465	106	4.0	106	91	1	689	33	25	17	23	1.97
4609915--4609939	7	3.6	7	100	0	50	60	0	0	40	0.97
4611669--4611796	4	31.5	4	72	13	84	21	9	1	67	1.27
4612728--4612854	31	4.1	29	75	18	96	45	0	3	51	1.17
4612751--4612854	15	6.5	15	76	17	102	46	0	1	51	1.12
4612751--4612909	68	2.3	69	84	5	207	42	0	5	51	1.25
4612799--4612899	22	4.5	22	70	7	76	39	0	8	51	1.33
4612834--4612985	32	5.4	32	67	28	137	35	0	11	51	1.43
4612834--4613553	54	13.4	54	75	14	442	34	0	12	52	1.41
4612879--4613538	134	4.9	133	83	10	667	34	0	13	52	1.42
4612834--4613324	188	2.6	188	97	0	901	34	0	12	52	1.41
4613007--4613173	32	5.8	32	72	25	176	34	0	12	52	1.39
4613045--4613087	22	2.0	22	100	0	86	34	0	13	51	1.42
4613099--4613141	22	2.0	22	100	0	86	34	0	13	51	1.42
4613200--4613307	32	3.7	32	74	23	137	36	0	12	51	1.39
4613233--4613275	22	2.0	22	90	0	68	39	0	9	51	1.34
4613334--4613521	32	5.7	32	73	17	170	34	0	13	52	1.40
4612834--4613538	214	3.3	212	74	14	574	34	0	12	52	1.41
4613367--4613426	22	2.7	22	92	0	102	36	0	11	51	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4613460--4613516	18	3.4	18	67	18	59	31	0	14	54	1.40
4613501--4613543	22	2.0	22	95	0	77	37	0	11	51	1.39
4613568--4613626	31	1.9	31	92	0	100	42	10	6	40	1.65
4616799--4616831	17	1.9	17	88	11	50	33	3	0	63	1.10
4616935--4616996	22	2.8	22	78	7	72	45	1	0	53	1.10
4632725--4632778	23	2.3	23	87	6	74	51	0	3	44	1.19
4647328--4647354	12	2.2	12	100	0	54	29	0	22	48	1.51
4647458--4647502	22	2.1	22	88	12	67	44	2	0	53	1.13
4647472--4647555	31	2.7	31	78	14	93	53	1	1	44	1.16
4647486--4647595	58	2.0	59	82	10	142	51	0	1	46	1.11
4654133--4654193	6	10.2	6	96	0	104	31	49	16	3	1.62
4654191--4654234	5	8.8	5	92	0	61	22	34	40	2	1.67
4659754--4659804	22	2.3	22	79	0	57	41	21	7	29	1.81
4660076--4660112	6	6.2	6	100	0	74	35	48	16	0	1.46
4660110--4660153	5	8.8	5	87	0	61	20	38	38	2	1.65
4660308--4660374	27	2.5	27	97	0	125	31	8	8	50	1.64
4661741--4662096	177	2.0	177	98	1	687	27	24	17	30	1.97
4663091--4663142	24	2.2	24	93	6	88	21	44	0	34	1.52
4664728--4664789	18	3.5	18	66	4	54	22	12	29	35	1.91
4664726--4664803	35	2.2	35	100	0	156	23	11	29	35	1.90
4668924--4668960	19	2.0	20	89	10	60	70	0	0	29	0.88
4674346--4674376	15	2.1	15	93	0	53	25	22	32	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4674495--4674539	22	2.0	22	100	0	90	22	8	31	37	1.85
4676198--4676274	23	3.5	23	68	20	74	16	9	9	64	1.47
4676186--4676273	42	2.1	42	100	0	176	17	11	6	64	1.46
4676751--4676775	13	1.9	13	100	0	50	8	16	52	24	1.70
4677250--4677772	259	2.0	259	85	2	712	33	20	20	24	1.97
4678867--4678928	27	2.3	26	81	5	70	64	9	9	16	1.48
4679068--4679104	18	2.1	18	89	0	56	27	45	0	27	1.54
4679333--4679408	27	2.8	27	94	4	127	32	19	26	21	1.97
4680581--4680629	23	2.2	22	82	10	55	65	6	0	28	1.16
4681106--4681265	4	37.5	4	67	15	72	63	6	5	25	1.40
4681105--4681228	23	5.8	22	70	18	66	62	8	4	24	1.44
4681115--4681263	42	3.8	42	76	11	124	61	6	5	26	1.42
4681180--4681219	15	2.7	15	88	0	53	65	10	0	25	1.24
4682989--4683382	197	2.0	197	100	0	788	25	21	25	27	1.99
4687929--4688150	111	2.0	111	97	0	417	45	10	7	36	1.67
4688439--4688545	50	2.1	50	78	1	115	23	26	33	16	1.96
4689243--4689273	15	2.1	15	93	0	53	54	0	0	45	0.99
4697423--4697448	11	2.4	11	100	0	52	69	0	7	23	1.14
4698453--4698515	26	2.4	26	81	0	72	33	7	14	44	1.74
4700036--4700083	23	2.1	23	84	7	62	50	0	4	45	1.21
4706702--4706733	4	8.0	4	92	0	55	75	3	21	0	0.95
4707444--4707478	17	2.1	17	88	0	52	34	34	5	25	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4708129--4708188	24	2.5	24	80	0	75	26	16	18	38	1.92
4708375--4708411	14	2.6	14	91	4	56	51	21	21	5	1.68
4710448--4710490	12	3.6	12	87	0	59	53	25	4	16	1.62
4710450--4710483	6	5.7	6	85	0	50	58	20	2	17	1.51
4710661--4710731	20	3.8	20	73	21	82	35	23	18	22	1.96
4710669--4710763	34	2.8	34	91	3	147	37	24	18	18	1.94
4710737--4710781	20	2.3	20	84	3	56	31	22	20	26	1.98
4710827--4710895	20	3.5	20	88	7	104	17	21	26	34	1.95
4712801--4712873	19	3.7	19	76	5	74	47	21	13	16	1.81
4713247--4713295	22	2.3	21	83	10	64	24	12	40	22	1.88
4713254--4713304	22	2.3	22	96	0	93	21	13	43	21	1.87
4713471--4713705	20	11.6	20	71	11	183	22	18	24	33	1.97
4713449--4713705	41	6.3	41	93	2	369	22	17	24	35	1.96
4713450--4713606	21	7.6	21	73	12	146	19	16	26	38	1.92
4713470--4713757	20	14.3	20	67	19	136	23	17	25	33	1.96
4716704--4716752	23	2.1	23	88	0	71	55	10	16	18	1.69
4722175--4722270	38	2.5	38	89	0	147	25	22	28	23	2.00
4722183--4722251	21	3.5	21	66	22	58	24	26	26	23	2.00
4723175--4723217	21	2.0	21	81	0	50	30	30	25	13	1.94
4723197--4723347	67	2.2	68	88	2	216	27	28	25	18	1.98
4723310--4723350	21	2.0	21	90	0	64	21	31	31	14	1.94
4723654--4723725	29	2.5	29	95	0	126	40	9	11	38	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4724027--4724085	22	2.6	23	94	2	102	18	27	30	23	1.98
4730136--4730178	21	2.0	21	81	0	50	30	30	25	13	1.94
4730158--4730305	64	2.3	67	84	7	196	27	27	25	18	1.98
4730268--4730308	21	2.0	21	90	0	64	21	31	31	14	1.94
4730612--4730683	29	2.5	29	95	0	126	40	9	11	38	1.74
4730985--4731043	22	2.6	23	94	2	102	18	27	30	23	1.98
4738117--4738149	2	16.5	2	100	0	66	51	0	0	48	1.00
4751636--4751678	21	2.0	22	86	4	61	34	23	13	27	1.93
4754207--4754419	105	2.0	107	93	5	371	43	3	5	47	1.43
4754862--4754914	24	2.2	24	96	0	97	24	0	13	62	1.31

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   25   26   27