genome.fa.s9624.2.7.7.80.10.50.1000.26.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  26  of  38  ( 4514 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)
5084937--5084974	19	2.0	20	84	5	51	55	0	0	44	0.99
5084943--5084996	27	2.0	27	82	7	65	50	0	0	50	1.00
5085496--5085762	91	2.8	96	77	6	278	38	9	4	47	1.56
5085499--5085811	96	3.3	91	74	10	247	37	8	4	49	1.53
5085876--5085910	17	2.1	17	100	0	70	45	0	0	54	0.99
5085867--5085907	8	5.1	8	85	11	57	43	0	0	56	0.99
5086097--5086127	16	1.9	16	93	0	53	54	9	3	32	1.49
5087763--5087806	3	14.7	3	100	0	88	34	0	0	65	0.93
5087812--5087844	17	1.9	17	93	0	57	30	54	0	15	1.41
5087833--5087890	19	3.2	19	74	20	61	36	46	0	17	1.48
5087821--5087877	26	2.2	26	96	0	105	36	47	0	15	1.46
5091741--5091812	15	4.8	15	73	14	51	72	9	15	2	1.22
5092812--5092900	32	2.8	32	91	0	133	28	15	25	30	1.96
5094003--5094258	85	3.0	82	84	4	293	34	20	17	27	1.95
5094797--5094861	26	2.5	26	89	0	112	35	52	0	12	1.39
5095620--5095671	20	2.6	20	90	0	77	32	0	0	67	0.91
5095621--5095675	26	2.2	26	83	9	69	30	0	0	69	0.89
5121659--5121719	26	2.3	26	77	5	70	42	14	4	37	1.68
5122537--5122581	20	2.2	21	84	4	56	37	6	15	40	1.74
5122398--5122812	148	2.8	148	79	7	383	37	10	16	34	1.84
5125426--5125477	3	17.3	3	95	0	95	0	30	0	69	0.89
5127805--5127851	6	7.7	6	77	13	51	76	4	0	19	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5127907--5127981	10	7.8	9	72	16	53	78	2	5	13	1.02
5127913--5127950	18	2.2	17	90	4	58	84	5	2	7	0.86
5127908--5127952	23	2.0	23	90	0	72	84	4	2	8	0.84
5128134--5128223	44	2.1	43	93	6	155	65	1	7	25	1.26
5128152--5128221	15	4.7	15	72	15	65	67	1	5	25	1.21
5131305--5131355	17	3.1	17	81	13	54	5	11	1	80	0.97
5141324--5141410	6	14.5	6	78	13	56	77	6	0	16	0.98
5141322--5141374	9	5.3	9	91	8	61	81	5	0	13	0.86
5141498--5141543	18	2.4	20	85	7	60	76	0	6	17	1.00
5141699--5141743	18	2.5	17	82	10	54	71	2	8	17	1.23
5141711--5141796	21	4.1	20	75	14	68	69	3	2	24	1.15
5141784--5141810	14	1.9	14	100	0	54	81	0	3	14	0.82
5150461--5150533	38	1.9	38	86	2	103	39	4	2	53	1.34
5150537--5150587	15	3.3	15	81	5	66	43	0	0	56	0.99
5150531--5150585	16	3.5	16	77	5	58	40	0	0	60	0.97
5151426--5151464	19	2.1	19	100	0	78	53	15	0	30	1.42
5155221--5155341	40	3.0	40	91	1	181	24	15	25	33	1.95
5155446--5155621	45	3.9	45	96	0	327	40	7	21	30	1.81
5156073--5156115	22	2.0	22	85	0	59	20	18	16	44	1.87
5159392--5159438	23	2.0	23	84	8	60	27	2	14	55	1.51
5159932--5159956	11	2.3	11	100	0	50	16	8	8	68	1.38
5166164--5166202	20	2.0	20	90	10	62	20	17	0	61	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5170711--5170737	7	3.9	7	100	0	54	29	29	25	14	1.95
5170739--5170792	5	10.0	5	77	15	54	7	22	51	18	1.70
5170731--5170792	22	2.8	22	97	0	115	11	22	48	17	1.79
5170790--5170926	10	14.4	9	75	7	103	24	29	27	17	1.97
5170796--5170927	19	6.9	19	88	5	169	25	29	27	18	1.98
5170797--5170927	29	4.6	29	77	8	142	25	29	26	18	1.98
5178104--5178171	5	12.8	5	82	11	82	5	22	52	19	1.66
5178097--5178171	27	2.8	27	76	15	100	8	22	50	18	1.73
5178114--5178171	22	2.6	22	100	0	116	6	22	51	18	1.70
5178168--5178266	9	10.3	9	72	10	54	29	24	27	19	1.98
5178170--5178208	19	2.1	19	100	0	78	25	30	25	17	1.97
5178193--5178268	29	2.6	30	76	2	91	30	22	25	22	1.99
5179151--5179197	23	2.0	23	84	8	60	27	2	14	55	1.51
5179691--5179715	11	2.3	11	100	0	50	16	8	8	68	1.38
5199500--5199553	26	2.0	27	85	3	74	35	1	5	57	1.33
5199627--5199692	33	2.0	33	82	11	82	34	1	10	53	1.45
5200182--5200364	32	5.7	32	83	2	215	48	11	32	8	1.69
5200190--5200364	64	2.7	64	88	3	253	48	12	31	8	1.69
5200182--5200364	96	1.9	96	86	2	260	48	11	32	8	1.69
5201766--5201816	20	2.6	20	87	3	77	33	13	7	45	1.73
5202362--5202440	33	2.4	33	93	0	131	24	18	0	56	1.41
5215685--5215717	17	1.9	17	93	0	57	39	12	24	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5221817--5221850	14	2.4	14	95	0	59	47	11	14	26	1.79
5222987--5223106	46	2.6	46	96	1	215	37	7	22	32	1.82
5223611--5223643	13	2.5	13	90	0	57	15	27	27	30	1.96
5224310--5224359	9	5.6	9	97	0	82	6	26	0	68	1.13
5224310--5224359	3	16.7	3	87	0	73	6	26	0	68	1.13
5225005--5225046	20	2.3	18	81	18	52	30	14	28	26	1.95
5224987--5225047	22	3.0	20	81	11	70	32	14	26	26	1.95
5225556--5225623	34	2.0	34	85	0	91	44	8	19	27	1.80
5225614--5225664	26	2.0	26	92	7	86	52	9	15	21	1.71
5229252--5229278	3	9.0	3	100	0	54	0	33	0	66	0.92
5229769--5229959	95	2.0	95	85	6	262	35	14	23	26	1.93
5229773--5229980	95	2.2	95	83	5	251	36	14	23	25	1.93
5233716--5233767	24	2.2	24	100	0	104	46	5	26	21	1.74
5240007--5240058	24	2.2	24	100	0	104	23	17	44	15	1.86
5254326--5254393	22	3.2	21	66	16	50	30	16	16	36	1.90
5254306--5254417	42	2.7	41	84	5	143	27	17	17	36	1.93
5254319--5254417	42	2.4	42	89	0	153	29	17	17	36	1.92
5254662--5254716	21	2.8	20	83	10	60	29	14	21	34	1.93
5254677--5254716	19	2.1	19	86	13	55	27	15	22	35	1.94
5254361--5255222	260	3.3	256	81	4	914	33	14	16	35	1.89
5255223--5265310	863	11.7	863	88	2	14672	34	18	12	34	1.88
5265309--5277144	863	13.8	864	87	3	16363	34	18	12	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5277372--5277576	75	2.7	75	84	4	254	23	30	24	20	1.99
5280479--5280518	21	1.9	21	94	0	71	27	15	30	27	1.96
5285932--5286133	73	2.8	73	87	3	273	24	30	24	20	1.99
5287427--5289770	846	2.7	864	86	2	3084	34	18	12	34	1.89
5289758--5295789	865	7.0	860	87	2	8551	34	18	11	34	1.88
5295805--5303699	863	9.2	863	89	2	11462	35	18	12	34	1.88
5303710--5306678	865	3.4	864	90	1	4437	34	18	12	34	1.88
5306954--5320549	865	15.5	862	77	9	11970	34	18	12	34	1.88
5313158--5320549	863	8.6	862	88	2	10442	34	18	12	34	1.88
5322637--5325933	863	3.8	862	88	2	4781	34	18	12	34	1.88
5327288--5327332	21	2.1	21	87	0	63	31	28	24	15	1.96
5327358--5327402	22	2.0	22	82	4	54	31	31	26	11	1.91
5328436--5328714	30	9.3	30	96	0	506	22	22	24	30	1.99
5331994--5332038	21	2.1	21	87	0	63	31	28	24	15	1.96
5332064--5332108	22	2.0	22	86	4	63	31	33	26	8	1.87
5333109--5333173	31	2.1	31	82	5	78	23	18	23	35	1.96
5333159--5333342	29	6.3	30	89	5	272	22	21	25	31	1.98
5333159--5333342	86	2.1	88	89	7	279	22	21	25	31	1.98
5334015--5355031	863	24.1	858	73	13	12985	34	18	12	34	1.88
5341010--5342515	771	1.9	771	83	8	1968	34	19	12	33	1.89
5343720--5344888	636	1.8	636	86	6	1686	33	18	13	33	1.91
5354223--5355843	812	2.0	810	89	1	2451	34	19	11	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5356428--5362386	865	6.9	864	89	1	8777	34	18	12	34	1.88
5362887--5367698	864	5.6	863	89	3	7194	34	18	12	34	1.89
5373905--5373983	41	2.0	41	92	2	133	32	17	20	29	1.95
5375959--5376064	31	3.4	31	76	2	86	27	26	26	19	1.99
5375941--5376064	63	2.0	63	80	6	144	27	25	26	20	1.99
5376950--5377083	29	4.7	29	85	9	177	36	23	5	34	1.78
5376950--5377082	56	2.3	58	86	7	175	36	24	5	33	1.78
5377109--5377165	19	3.0	19	77	10	62	26	31	26	15	1.96
5383515--5383547	17	2.0	17	88	5	50	36	12	15	36	1.84
5385025--5385137	56	2.0	56	100	0	226	36	15	10	37	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