genome.fa.s8356.2.7.7.80.10.50.1000.21.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  21  of  56  ( 6656 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)
4208063--4208104	21	2.0	21	95	0	75	23	21	28	26	1.99
4208133--4208172	20	1.9	21	85	10	55	37	37	10	15	1.80
4208387--4208456	34	2.1	34	89	5	108	32	14	30	22	1.94
4211431--4211489	20	2.9	21	82	5	84	20	32	30	16	1.95
4211431--4211479	21	2.4	21	89	3	73	20	32	34	12	1.90
4211457--4211540	33	2.5	34	90	7	127	20	32	27	20	1.97
4211653--4211694	21	2.0	21	95	0	75	23	21	28	26	1.99
4211723--4211762	20	1.9	21	85	10	55	37	37	10	15	1.80
4211977--4212046	34	2.1	32	89	5	104	31	15	30	22	1.95
4213228--4213346	24	5.0	24	89	4	177	39	19	15	25	1.91
4217528--4217566	2	19.5	2	100	0	78	48	0	0	51	1.00
4220865--4221242	105	3.6	105	91	0	612	22	22	18	36	1.95
4222165--4222248	8	11.0	8	75	16	72	8	13	1	77	1.05
4222151--4222238	29	2.9	29	86	9	115	6	13	0	79	0.92
4222181--4222236	23	2.6	22	83	8	62	7	10	0	82	0.85
4222165--4222262	37	2.6	37	79	11	108	8	14	1	76	1.06
4236013--4236059	21	2.2	21	77	7	51	59	2	10	27	1.42
4238133--4238174	21	2.0	21	90	0	66	21	11	16	50	1.77
4241085--4241492	157	2.6	158	85	1	545	30	17	6	45	1.74
4242941--4243046	45	2.4	45	91	0	167	25	16	28	29	1.97
4249917--4249995	40	2.0	40	82	5	97	30	24	15	30	1.95
4250053--4250728	122	5.6	122	81	4	731	27	14	23	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4250053--4250713	242	2.7	240	81	3	777	27	14	23	34	1.94
4251329--4251409	42	1.9	42	84	0	108	46	1	14	37	1.53
4251932--4252002	32	2.2	33	87	5	101	5	15	1	77	1.02
4251935--4252002	9	8.4	8	70	12	50	5	13	1	79	0.98
4251933--4252002	7	9.9	7	72	20	56	5	14	1	78	1.00
4251956--4252018	27	2.3	27	86	5	83	3	12	4	79	1.01
4251954--4252017	21	3.1	21	76	14	55	3	10	4	81	0.96
4252979--4253032	25	2.1	24	83	10	63	53	12	14	18	1.72
4255114--4255140	4	6.8	4	100	0	54	77	0	0	22	0.76
4257611--4257683	24	3.0	24	87	0	101	39	19	12	28	1.88
4257623--4257690	24	2.8	24	88	0	100	39	19	13	27	1.89
4258472--4258526	20	2.8	20	97	0	101	20	23	38	18	1.93
4258612--4258667	22	2.5	22	100	0	112	14	23	44	17	1.85
4261324--4261371	20	2.3	21	82	10	62	18	27	25	29	1.98
4261335--4261372	20	1.9	20	94	0	67	15	26	31	26	1.96
4264275--4264334	3	20.0	3	83	6	77	40	0	0	60	0.97
4278114--4278496	93	4.1	93	95	0	669	26	17	21	33	1.96
4279334--4279926	113	5.4	113	83	6	583	37	15	18	29	1.91
4279424--4279815	216	1.8	213	88	2	597	38	14	18	29	1.90
4279846--4280137	124	2.4	122	84	6	380	41	16	19	22	1.90
4280274--4280339	3	22.0	3	84	6	89	39	0	0	60	0.97
4281779--4281819	12	3.2	13	80	12	50	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4285348--4285391	21	2.1	22	87	8	65	18	22	38	20	1.93
4290094--4290178	24	3.5	24	80	0	89	44	17	11	25	1.83
4292571--4292645	32	2.3	32	78	15	84	25	28	26	20	1.99
4300713--4300769	25	2.3	25	93	6	98	49	12	3	35	1.58
4300818--4300881	29	2.2	29	88	0	101	45	9	9	35	1.69
4300754--4301302	141	4.0	139	85	5	665	43	11	10	34	1.74
4300946--4301015	29	2.4	29	80	2	77	45	14	8	31	1.75
4301086--4301163	29	2.7	29	77	2	93	47	11	6	34	1.65
4301228--4301292	29	2.2	29	88	0	94	47	7	6	38	1.57
4301215--4301405	99	2.0	98	88	4	289	43	12	5	38	1.66
4301461--4301519	29	2.0	29	86	3	82	47	13	6	32	1.69
4301468--4301530	29	2.2	29	85	0	90	46	11	6	36	1.65
4302479--4302504	7	3.7	7	100	0	52	84	0	0	15	0.62
4308742--4308767	9	2.9	9	100	0	52	46	0	42	11	1.40
4317572--4317763	106	1.8	105	89	3	305	32	11	15	40	1.83
4318899--4319379	245	2.0	247	82	4	589	38	10	10	40	1.75
4320694--4320736	20	2.2	20	86	0	59	27	32	9	30	1.88
4320755--4320801	21	2.2	21	88	0	76	19	27	17	36	1.93
4320762--4320807	21	2.2	21	84	0	56	21	28	19	30	1.98
4320796--4320836	20	2.0	20	95	0	73	39	21	19	19	1.93
4321022--4321067	22	2.1	22	92	8	76	21	41	13	23	1.88
4321347--4321388	20	2.1	20	86	0	57	14	19	21	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4323088--4323137	21	2.4	21	89	0	82	18	16	32	34	1.92
4323545--4323598	21	2.6	20	80	8	63	22	33	18	25	1.97
4325013--4325080	14	4.9	14	79	0	82	29	0	17	52	1.45
4325004--4325080	28	2.8	28	96	2	138	29	0	16	53	1.44
4325225--4325279	20	2.8	20	97	0	101	45	23	14	16	1.84
4325842--4325878	18	2.1	18	89	0	56	51	10	8	29	1.65
4326264--4326313	25	2.0	25	96	0	91	44	22	8	26	1.80
4326374--4326415	20	2.1	20	95	0	75	42	16	23	16	1.88
4326424--4326485	20	3.1	20	83	0	88	35	24	19	20	1.96
4326479--4326549	34	2.1	34	91	0	115	22	23	18	35	1.96
4326523--4326572	20	2.5	20	100	0	100	18	20	20	42	1.90
4326746--4326832	39	2.2	39	93	0	147	18	13	19	48	1.81
4327143--4327179	18	2.1	18	89	0	56	51	10	8	29	1.65
4327566--4327615	25	2.0	25	92	0	82	44	20	8	28	1.79
4327676--4327717	20	2.1	20	95	0	75	42	16	23	16	1.88
4327726--4327787	20	3.1	20	85	0	97	35	25	19	19	1.95
4327779--4327850	34	2.1	34	94	0	126	19	25	19	36	1.95
4328028--4328114	39	2.2	39	97	0	165	17	14	20	47	1.83
4328426--4328462	18	2.1	18	89	0	56	51	10	8	29	1.65
4328849--4328898	25	2.0	25	96	0	91	44	22	8	26	1.80
4328939--4328980	20	2.1	20	90	0	66	45	16	21	16	1.86
4328989--4329034	20	2.3	20	88	0	65	41	21	19	17	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4329188--4329223	18	2.0	18	94	0	63	16	2	25	55	1.55
4331485--4331538	24	2.2	24	93	0	90	40	20	18	20	1.91
4331485--4331552	24	2.8	24	84	0	64	38	20	17	23	1.93
4332437--4332596	20	8.0	20	76	8	103	26	15	23	34	1.94
4332508--4332547	21	1.9	21	94	0	71	42	10	22	25	1.84
4334019--4334061	7	6.3	7	86	5	61	0	65	0	34	0.93
4334019--4334057	20	2.0	20	89	0	60	0	66	0	33	0.92
4339694--4339740	22	2.1	22	100	0	94	31	8	27	31	1.87
4347627--4347739	60	1.9	60	83	7	151	34	21	15	28	1.94
4354771--4354814	21	2.1	21	86	0	61	9	40	15	34	1.79
4355862--4356070	64	3.2	65	80	9	223	32	22	18	26	1.97
4358739--4358763	2	12.5	2	100	0	50	52	0	0	48	1.00
4365163--4365511	193	1.8	192	86	4	515	38	10	10	40	1.75
4365177--4365635	193	2.4	192	81	4	467	37	11	11	40	1.77
4368825--4368863	19	2.1	19	85	0	51	30	15	0	53	1.42
4374573--4374610	2	20.0	2	89	10	62	50	0	0	50	1.00
4382175--4382215	21	2.0	20	85	9	55	36	4	19	39	1.73
4385827--4385885	27	2.1	28	85	14	79	59	5	18	16	1.55
4398611--4398664	22	2.5	21	80	14	56	24	3	5	66	1.29
4401447--4401477	15	2.1	15	100	0	62	61	6	12	19	1.53
4406943--4407120	55	3.3	53	74	17	159	30	9	19	40	1.84
4406978--4407145	51	3.2	51	72	16	151	30	8	18	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4406978--4407176	108	1.8	109	84	1	274	30	8	17	43	1.79
4407017--4407218	56	3.7	54	69	19	141	31	8	18	41	1.80
4407401--4407616	60	3.6	60	88	1	292	29	25	13	31	1.94
4407401--4407616	119	1.8	119	86	0	315	29	25	13	31	1.94
4409470--4409529	23	2.5	24	78	13	70	25	0	8	66	1.19
4409829--4409867	15	2.6	15	87	0	51	30	10	12	46	1.75
4421844--4421886	20	2.2	20	91	0	68	34	20	11	32	1.89
4423656--4423704	15	3.3	15	88	0	71	14	63	12	10	1.53
4426832--4426867	16	2.2	16	100	0	72	11	27	19	41	1.85
4434271--4434312	17	2.5	17	92	0	75	42	9	23	23	1.83

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   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56