genome.fa.s8087.2.7.7.80.10.50.1000.22.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  22  of  37  ( 4336 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)
4937782--4937826	23	1.9	23	82	13	56	15	26	6	51	1.68
4937766--4938637	112	7.8	112	93	1	1372	28	19	14	37	1.92
4938647--4938828	76	2.4	76	93	1	303	32	21	20	24	1.97
4939491--4939613	22	5.6	22	97	0	219	38	13	15	32	1.87
4939985--4940092	54	2.0	54	85	0	144	28	22	14	34	1.94
4942026--4942088	31	2.0	31	100	0	126	31	15	19	33	1.93
4942266--4942485	114	1.9	114	89	0	341	30	20	14	35	1.92
4944670--4944706	17	2.2	17	90	0	56	0	21	0	78	0.75
4946994--4947032	20	2.0	20	84	0	51	53	7	12	25	1.65
4950984--4951055	3	24.7	3	86	10	105	65	0	0	34	0.93
4955401--4955440	20	2.0	20	95	0	71	37	10	12	40	1.77
4957837--4957879	22	2.0	22	95	0	77	37	27	13	20	1.91
4957896--4958047	21	7.4	21	68	4	121	36	25	17	19	1.94
4957872--4958026	20	7.6	20	68	4	85	39	24	18	17	1.92
4957869--4958051	41	4.5	41	95	0	321	38	24	18	19	1.93
4966269--4966323	28	1.9	29	85	10	78	20	16	5	58	1.58
4968012--4968103	48	1.9	48	93	0	157	38	22	6	32	1.80
4970670--4970797	66	1.9	66	100	0	256	36	16	11	35	1.85
4972371--4972396	12	2.2	12	100	0	52	7	42	23	26	1.81
4983547--4983764	120	1.8	120	89	0	346	30	18	17	33	1.94
4985353--4985431	35	2.3	35	86	0	104	45	12	10	31	1.75
4985787--4985831	24	1.9	24	86	4	65	28	11	20	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4987444--4987473	2	15.0	2	100	0	60	50	0	0	50	1.00
4989895--4990048	77	2.0	78	92	1	256	52	12	13	21	1.73
4991745--4991792	15	3.1	15	85	5	60	27	0	27	45	1.54
4995047--4995080	2	17.0	2	100	0	68	50	0	0	50	1.00
5000849--5001359	51	9.6	55	85	6	479	28	25	15	29	1.96
5000956--5001369	51	7.9	51	89	4	569	27	27	15	29	1.96
5000904--5001369	161	2.9	159	89	4	694	28	26	15	29	1.96
5000849--5001369	106	4.9	103	84	6	575	28	25	15	29	1.96
5002698--5002752	21	2.8	19	78	21	69	3	25	1	69	1.15
5002737--5002813	24	3.3	24	73	12	70	6	18	0	75	1.01
5002753--5002806	22	2.5	21	78	21	51	7	18	0	74	1.05
5017592--5017658	28	2.4	28	94	0	116	25	52	7	14	1.68
5024340--5024392	24	2.4	22	79	14	56	58	3	7	30	1.43
5025846--5025876	2	16.0	2	93	6	55	51	0	0	48	1.00
5026885--5026910	3	8.7	3	100	0	52	34	0	0	65	0.93
5027614--5027687	37	2.0	37	100	0	148	43	16	18	21	1.88
5063193--5063222	16	1.9	15	93	6	51	43	0	0	56	0.99
5063213--5063273	32	2.1	32	85	14	87	60	3	0	36	1.13
5063292--5063328	18	2.0	20	84	10	51	75	2	0	21	0.92
5063924--5063995	10	7.4	10	83	12	78	76	6	4	12	1.13
5063920--5063987	20	3.4	20	85	4	93	77	5	4	11	1.08
5065055--5065103	2	24.5	2	100	0	98	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5065507--5065539	3	11.0	3	100	0	66	66	0	0	33	0.92
5071015--5071054	19	2.2	18	86	4	53	37	2	0	60	1.11
5078706--5078739	2	17.0	2	93	0	59	50	2	0	47	1.16
5088240--5088298	20	2.9	21	85	7	86	18	27	23	30	1.98
5088261--5088330	10	7.3	10	69	24	53	15	28	28	27	1.96
5088241--5088305	30	2.2	29	86	13	89	16	27	26	29	1.97
5088261--5088328	19	3.5	20	86	9	81	16	26	29	27	1.97
5088327--5088384	5	10.8	5	78	14	62	18	51	22	6	1.70
5088327--5088391	22	3.0	22	100	0	130	18	49	23	9	1.76
5095556--5095653	10	10.2	9	74	12	70	17	26	26	29	1.97
5095557--5095653	19	5.1	19	75	16	67	16	26	26	29	1.97
5095555--5095627	29	2.5	31	88	8	116	17	27	26	28	1.98
5095573--5095653	29	2.8	28	83	5	90	17	27	27	28	1.97
5095668--5095730	5	11.8	5	80	12	72	19	52	22	6	1.68
5095655--5095737	22	3.8	22	98	0	157	18	48	22	10	1.79
5098125--5098220	13	7.3	13	73	9	70	16	38	21	22	1.93
5098136--5098204	26	2.6	26	86	2	93	13	39	21	26	1.90
5098253--5098294	17	2.5	17	88	0	66	45	9	9	35	1.69
5098253--5098302	17	2.9	16	85	5	55	42	10	8	40	1.68
5100847--5101180	43	7.7	43	88	0	425	19	20	22	37	1.94
5101810--5101860	26	2.0	26	96	0	93	41	1	19	37	1.63
5103325--5103403	23	3.4	22	77	6	77	34	22	20	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5103412--5103729	103	3.1	103	97	0	609	36	23	13	27	1.92
5106205--5106231	2	13.5	2	100	0	54	51	0	0	48	1.00
5106212--5106296	12	7.2	12	68	15	52	34	2	14	49	1.56
5106262--5106300	4	9.8	4	88	0	51	23	0	20	56	1.42
5106821--5106862	21	2.0	21	81	9	50	40	9	21	28	1.84
5122353--5122409	29	2.0	28	83	6	71	17	10	12	59	1.60
5122368--5122500	30	4.4	30	78	9	121	20	11	9	59	1.58
5122703--5122771	30	2.2	30	85	15	95	34	5	17	42	1.73
5122712--5122771	30	2.0	30	93	6	104	33	6	16	43	1.74
5122926--5122955	15	2.0	15	93	0	51	23	36	20	20	1.95
5125232--5125257	12	2.2	12	100	0	52	38	0	11	50	1.39
5125571--5125639	30	2.2	30	82	15	86	37	5	14	42	1.70
5125580--5125639	29	2.0	30	90	6	95	36	6	13	43	1.70
5126163--5126232	34	2.1	32	84	5	86	31	14	30	24	1.94
5130928--5131099	61	2.8	61	85	2	227	34	23	12	29	1.91
5131491--5131635	38	3.8	38	84	8	141	28	20	14	36	1.92
5131508--5131654	38	3.8	38	86	2	161	29	20	12	36	1.90
5131667--5131735	35	2.0	35	94	0	120	23	13	17	46	1.83
5131660--5131780	36	3.4	36	81	4	138	26	17	13	42	1.86
5131575--5131836	136	1.9	138	86	3	377	28	17	12	40	1.87
5131912--5132083	69	2.5	69	84	6	224	32	16	12	38	1.86
5131918--5132090	33	5.1	33	68	11	107	30	16	12	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5132174--5132537	43	8.6	41	71	17	173	26	31	17	23	1.97
5132255--5132590	46	7.8	44	70	18	195	25	31	18	25	1.97
5132144--5132626	129	3.7	129	89	1	700	25	31	18	25	1.98
5133012--5133051	17	2.4	17	83	4	55	32	15	42	10	1.79
5133563--5133637	31	2.4	31	80	8	73	20	14	8	57	1.62
5133533--5133648	30	3.8	30	73	12	94	18	13	9	57	1.63
5141625--5141686	23	2.7	23	74	0	70	19	24	25	30	1.98
5147306--5147332	9	3.0	9	100	0	54	66	0	0	33	0.92
5147889--5148438	224	2.5	219	84	9	718	28	11	19	40	1.86
5148985--5149031	19	2.6	18	83	6	67	61	2	4	31	1.27
5154175--5154250	34	2.2	34	97	0	143	42	10	17	30	1.82
5157230--5157301	37	2.0	35	91	5	117	33	5	15	45	1.69
5161733--5161813	37	2.2	37	91	4	130	32	4	18	44	1.71
5162819--5162897	42	1.9	40	82	10	97	35	3	12	48	1.59
5165468--5165494	7	3.9	7	100	0	54	14	25	29	29	1.95
5165764--5165792	6	4.8	6	100	0	58	51	0	0	48	1.00
5167142--5167184	22	2.0	22	86	4	61	51	13	6	27	1.67
5173149--5173179	15	2.1	15	93	0	53	45	0	0	54	0.99
5174831--5174917	23	3.8	23	86	3	122	27	25	25	21	2.00
5175629--5175666	20	1.9	20	88	0	58	10	31	34	23	1.89
5175694--5175736	21	2.0	21	81	0	50	16	25	30	27	1.97
5181773--5181836	23	2.8	22	85	4	83	28	25	25	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5182546--5182583	20	1.9	20	88	0	58	10	34	34	21	1.87
5182611--5182653	21	2.0	21	81	0	50	16	25	30	27	1.97
5183887--5183919	2	16.5	2	100	0	66	48	0	0	51	1.00
5208206--5208255	25	2.0	25	100	0	100	28	16	8	48	1.74
5219049--5219075	2	13.5	2	100	0	54	51	0	0	48	1.00
5220825--5220900	31	2.5	31	91	2	118	48	3	17	30	1.65
5221101--5221157	29	2.0	29	86	6	80	59	5	5	29	1.41
5221487--5221644	21	7.8	20	72	7	86	38	25	17	18	1.92
5221611--5221860	20	12.5	20	84	3	234	37	24	18	19	1.94
5222543--5222589	24	2.0	24	87	8	69	25	14	21	38	1.92

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