genome.fa.s9579.2.7.7.80.10.50.1000.25.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  25  of  29  ( 3390 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)
5064676--5064716	21	1.9	22	90	5	66	41	0	0	58	0.98
5068062--5068334	43	6.3	43	90	0	393	30	21	28	19	1.97
5072491--5072947	232	2.0	233	99	0	907	23	15	23	37	1.93
5073659--5073712	27	2.1	24	86	10	72	61	18	11	9	1.55
5073945--5073998	27	2.1	24	86	10	72	61	18	11	9	1.55
5073969--5074012	23	1.9	23	90	0	70	61	18	9	11	1.55
5073590--5074163	287	2.0	286	98	0	1121	49	14	10	25	1.74
5074896--5074950	26	2.1	27	96	3	103	41	20	3	34	1.69
5076190--5076227	2	19.0	2	100	0	76	50	0	0	50	1.00
5079878--5080167	147	2.0	147	100	0	580	25	21	14	39	1.91
5085311--5085483	86	2.0	86	100	0	346	30	15	16	38	1.89
5086498--5086536	17	2.2	18	86	4	53	35	7	5	51	1.53
5093743--5093842	35	2.8	36	82	5	123	33	3	19	45	1.65
5093749--5093842	37	2.6	35	80	9	109	35	3	17	44	1.64
5103590--5103735	72	2.0	73	98	1	285	39	10	13	36	1.79
5103996--5104035	21	1.9	21	89	0	62	25	40	25	10	1.86
5107624--5107744	36	3.4	36	85	3	172	33	3	18	45	1.65
5109892--5109964	26	2.7	28	83	12	98	19	19	1	60	1.44
5109909--5109964	26	2.2	26	96	0	103	19	17	1	60	1.45
5109979--5110059	23	3.3	23	64	18	54	48	1	8	41	1.42
5110042--5110076	18	2.1	16	89	10	52	57	0	5	37	1.23
5109978--5110089	53	2.1	52	86	1	152	48	0	8	41	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5112902--5112956	28	2.0	28	85	0	74	30	16	21	30	1.95
5117578--5117645	20	3.5	19	86	6	73	17	23	25	33	1.96
5117599--5117658	10	6.3	9	77	9	57	15	28	28	28	1.96
5117598--5117656	19	3.1	19	90	2	82	16	25	28	28	1.97
5117654--5117709	17	3.3	17	97	0	103	17	44	23	14	1.85
5124906--5124974	19	3.7	18	79	9	84	14	27	30	27	1.95
5124886--5124974	9	9.3	9	78	11	79	15	26	28	29	1.96
5125000--5125037	17	2.2	17	95	0	67	18	44	23	13	1.85
5124970--5125044	24	3.2	23	86	7	98	17	42	24	16	1.88
5125030--5125071	7	6.0	7	100	0	84	14	28	28	28	1.95
5128789--5129096	29	10.2	29	72	16	137	38	6	0	54	1.30
5128743--5129096	30	11.8	30	75	12	246	38	6	0	54	1.32
5128755--5129096	59	5.7	58	73	13	207	38	5	0	54	1.31
5128994--5129087	35	2.7	35	78	15	104	40	2	0	57	1.11
5129038--5129104	24	2.8	24	84	8	75	34	4	0	61	1.16
5128945--5129094	66	2.3	68	76	11	170	39	4	0	56	1.23
5133346--5133434	18	4.9	18	85	0	115	25	32	21	20	1.97
5134392--5134693	149	2.0	149	98	0	577	34	20	16	28	1.94
5135569--5135603	18	1.9	18	88	11	54	22	17	5	54	1.64
5136186--5136230	21	2.1	21	87	0	63	15	24	28	31	1.96
5139360--5139404	23	2.0	23	86	0	63	26	28	24	20	1.99
5139383--5139686	149	2.0	149	99	0	599	34	20	17	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5140290--5140318	5	5.8	5	100	0	58	20	20	0	58	1.39
5140574--5140608	18	1.9	18	88	11	54	22	17	5	54	1.64
5141191--5141235	21	2.1	21	87	0	63	15	24	28	31	1.96
5145770--5145820	7	7.4	7	88	4	77	41	23	0	35	1.55
5145770--5145822	21	2.6	20	91	5	88	41	24	0	33	1.55
5145979--5146049	18	3.9	18	88	0	106	23	32	19	23	1.98
5148192--5148231	20	2.0	20	90	0	62	37	5	15	42	1.68
5158227--5158272	20	2.3	20	80	0	56	41	6	2	50	1.40
5160034--5160425	200	2.0	200	98	0	757	44	10	11	33	1.75
5173906--5174061	77	2.0	79	97	2	298	46	2	5	45	1.38
5179268--5179398	56	2.3	56	100	0	262	32	10	21	35	1.88
5181384--5181430	21	2.2	21	100	0	94	29	19	8	42	1.80
5184756--5184785	9	3.3	9	100	0	60	13	23	20	43	1.86
5185949--5185991	21	2.0	21	86	4	59	30	18	9	41	1.82
5185955--5185997	21	2.0	21	86	0	59	30	20	11	37	1.89
5200888--5200922	14	2.4	14	90	4	52	37	0	31	31	1.58
5210731--5210764	2	17.0	2	100	0	68	50	0	0	50	1.00
5212782--5212812	15	2.1	15	100	0	62	29	51	0	19	1.47
5214998--5215036	17	2.3	17	90	0	60	23	17	28	30	1.97
5215021--5215063	11	3.8	11	78	6	50	27	30	18	23	1.98
5215087--5215161	31	2.4	31	97	0	141	25	13	21	40	1.89
5217133--5217242	30	3.8	29	72	13	84	49	4	0	45	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5225418--5225468	22	2.3	22	100	0	102	39	3	3	52	1.38
5232623--5232680	23	2.5	23	91	0	98	25	27	27	18	1.98
5235299--5235435	68	2.0	68	91	2	222	48	26	11	13	1.76
5249571--5249600	14	2.1	14	100	0	60	33	0	43	23	1.54
5253291--5253341	19	2.7	19	93	0	84	29	23	21	25	1.99
5253415--5253482	21	3.3	20	73	8	66	22	19	25	33	1.97
5253415--5253562	52	3.3	40	74	21	125	22	18	22	35	1.96
5253430--5253535	52	2.0	52	100	0	212	20	18	24	35	1.95
5253652--5253676	6	4.2	6	100	0	50	36	48	16	0	1.46
5259389--5259464	36	2.1	37	87	7	111	48	1	2	47	1.24
5262956--5263004	24	2.0	26	84	8	66	32	6	14	46	1.69
5262969--5263008	20	2.0	20	85	9	55	32	5	17	45	1.70
5267176--5267336	80	2.0	80	100	0	322	33	20	16	29	1.94
5269004--5269101	50	2.0	50	100	0	196	46	18	10	24	1.79
5270522--5270825	55	5.5	55	87	5	418	31	25	16	26	1.97
5270522--5270825	111	2.8	109	87	5	425	31	25	16	26	1.97
5270522--5270825	166	1.8	164	86	7	445	31	25	16	26	1.97
5270840--5270911	37	2.0	36	94	2	126	20	22	20	36	1.96
5272186--5272271	18	4.8	17	71	22	61	5	13	2	77	1.04
5272201--5272297	15	6.9	14	73	18	78	5	17	2	75	1.08
5272223--5272322	39	2.5	40	76	14	109	8	16	1	75	1.09
5272241--5272283	22	2.0	22	86	9	61	4	18	0	76	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5272241--5272319	37	2.1	37	86	9	108	8	16	0	74	1.05
5272190--5272351	61	2.6	59	76	19	136	8	14	1	75	1.10
5272236--5272342	22	4.8	21	68	17	56	8	14	0	76	1.06
5274549--5274862	156	2.0	158	98	1	614	26	21	22	29	1.99
5282140--5282284	45	3.2	45	91	3	218	41	20	8	29	1.82
5290621--5290824	76	2.7	77	87	4	281	19	24	32	23	1.97
5293393--5293432	21	1.9	21	89	0	62	10	25	40	25	1.86
5297283--5297322	21	1.9	21	85	10	55	35	10	2	52	1.48
5299246--5299452	75	2.7	76	87	2	283	19	23	31	25	1.98
5302493--5302581	45	1.9	47	93	4	155	28	11	23	37	1.89
5312266--5312350	26	3.3	26	76	9	84	68	1	24	5	1.19
5312287--5312330	18	2.4	18	85	7	54	68	2	22	6	1.25
5312318--5312372	26	2.2	26	87	9	78	74	1	20	3	1.06
5313649--5313758	36	3.0	37	86	4	143	39	18	20	22	1.93
5313776--5314243	55	8.6	55	85	6	571	28	16	25	29	1.97
5313776--5314243	217	2.1	216	86	6	624	28	16	25	29	1.97
5326108--5326238	63	2.0	65	86	2	185	38	9	12	38	1.76
5338233--5338316	37	2.4	34	76	16	91	72	4	5	16	1.22
5338250--5338316	17	3.8	17	77	11	71	73	2	7	16	1.19
5338285--5338362	41	1.9	41	82	15	99	75	8	2	12	1.13
5338518--5338566	7	6.9	7	86	4	62	83	2	8	6	0.87
5338518--5338595	14	5.4	15	79	14	67	79	3	7	8	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5338505--5338596	43	2.1	44	87	2	132	79	4	6	9	1.05
5338505--5338567	14	4.4	14	78	11	65	80	4	6	7	1.00
5338505--5338596	14	6.6	13	71	14	58	79	4	6	9	1.05
5339790--5339845	30	1.9	30	92	3	96	44	1	3	50	1.29
5339828--5339874	24	2.0	24	86	0	67	42	6	6	44	1.55
5339871--5340158	38	7.8	37	77	15	226	46	6	2	44	1.43
5339965--5340158	72	2.6	75	80	10	202	45	8	2	44	1.45
5340145--5340187	2	22.0	2	95	4	79	51	0	0	48	1.00
5339928--5340155	110	2.1	108	79	11	241	45	7	2	44	1.44
5347690--5347763	36	2.1	36	100	0	148	35	10	18	35	1.86

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