genome.fa.s1547.2.7.7.80.10.50.1000.31.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  31  of  51  ( 6083 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)
6168039--6168076	11	3.5	11	100	0	76	50	18	7	23	1.73
6172635--6172680	14	3.1	14	77	17	56	54	28	13	4	1.57
6172638--6172687	17	2.8	18	72	27	52	54	30	12	4	1.55
6172638--6172693	19	3.1	19	74	10	62	53	30	12	3	1.55
6174745--6174772	2	14.0	2	100	0	56	50	0	0	50	1.00
6175378--6175485	37	2.9	37	94	0	189	41	12	10	36	1.76
6175877--6175929	19	2.8	19	74	8	54	20	0	1	77	0.87
6176072--6176125	21	2.8	20	78	10	58	31	5	0	62	1.18
6178947--6179053	3	35.0	3	81	3	115	40	1	0	57	1.09
6192120--6192159	21	1.9	21	89	0	62	10	25	40	25	1.86
6192115--6192202	20	4.2	20	70	17	63	14	27	35	22	1.93
6196011--6196050	21	1.9	21	85	10	55	35	10	2	52	1.48
6201478--6201533	1	56.0	1	78	0	58	89	0	10	0	0.49
6201464--6201532	9	7.2	10	84	9	83	84	0	14	1	0.70
6201464--6201531	19	3.6	19	84	4	84	83	0	14	1	0.71
6201480--6201531	14	3.4	16	76	17	65	88	0	11	0	0.52
6201478--6201533	29	2.0	29	96	3	105	89	0	10	0	0.49
6201864--6201909	19	2.6	17	86	10	58	34	8	2	54	1.43
6202567--6202958	82	4.7	83	95	0	680	26	13	22	37	1.91
6203685--6204684	113	8.8	113	96	0	1758	38	15	19	26	1.92
6204946--6205046	3	33.0	3	80	4	94	41	1	0	56	1.10
6204963--6205046	37	2.3	37	80	0	96	40	2	0	57	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6204947--6205057	46	2.4	46	80	4	136	45	1	0	53	1.11
6210085--6210580	53	9.2	54	88	3	639	28	27	13	30	1.94
6210106--6210612	160	3.1	159	83	5	535	28	27	14	30	1.95
6210578--6211340	51	14.8	51	85	3	877	22	25	19	33	1.97
6210582--6211341	308	2.5	307	85	4	1005	22	25	19	33	1.97
6211687--6211876	36	5.2	36	87	1	238	21	18	23	36	1.95
6212607--6212917	127	2.4	127	87	4	430	21	26	16	35	1.94
6216815--6216927	21	5.4	20	82	7	111	16	23	18	41	1.90
6216812--6216927	42	2.8	42	79	8	139	17	22	19	40	1.91
6223400--6223804	110	3.7	110	92	0	684	34	23	16	24	1.95
6224901--6225049	37	4.0	37	95	0	262	41	12	11	34	1.79
6225445--6225513	19	3.7	18	71	19	52	28	0	2	68	1.04
6225523--6225594	22	3.3	22	71	21	62	19	15	0	65	1.28
6225748--6225780	3	11.7	3	87	12	52	30	0	0	69	0.88
6225796--6225842	25	1.9	24	83	12	60	14	12	0	72	1.13
6231447--6231744	147	2.0	148	97	2	564	29	14	19	36	1.91
6240602--6240795	96	2.0	96	100	0	388	30	18	17	33	1.94
6246645--6246674	15	2.0	15	100	0	60	33	6	20	40	1.78
6262754--6262986	116	2.0	116	97	0	439	27	17	27	28	1.97
6263120--6263847	369	2.0	366	98	1	1413	28	14	27	29	1.95
6266979--6267017	20	2.0	20	85	5	53	46	7	0	46	1.31
6267520--6267651	57	2.3	55	85	6	165	12	12	16	57	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6268796--6268820	9	2.8	9	100	0	50	44	0	36	20	1.52
6277464--6277511	21	2.3	21	78	3	53	50	4	18	27	1.65
6286824--6287030	53	3.9	53	88	3	265	21	27	21	29	1.98
6286823--6287030	106	1.9	108	86	5	298	21	26	21	30	1.98
6286806--6287125	53	6.0	54	80	9	234	24	25	20	29	1.99
6286968--6287236	51	5.2	51	86	6	287	27	25	17	30	1.97
6287044--6287237	51	3.8	51	92	2	302	25	27	16	29	1.97
6288528--6288574	19	2.5	19	89	0	67	6	29	0	63	1.19
6288559--6288591	14	2.3	15	89	5	50	3	15	0	81	0.80
6288587--6288620	16	2.1	16	88	5	50	8	20	0	70	1.13
6288595--6288627	9	3.9	9	84	15	52	9	18	0	72	1.10
6288580--6288635	19	3.1	18	82	17	64	8	19	0	71	1.12
6288598--6288635	9	4.2	9	83	9	51	5	18	0	76	0.97
6298290--6298415	45	2.7	46	91	3	191	38	21	12	26	1.89
6298290--6298435	47	3.1	45	88	4	193	39	19	12	28	1.88
6306545--6306714	91	1.9	92	90	3	263	24	23	27	24	2.00
6306733--6307369	40	14.8	42	72	13	340	25	18	30	24	1.98
6306804--6307375	130	4.4	129	91	3	860	25	19	30	25	1.98
6307388--6307495	28	3.9	28	91	0	144	46	16	15	21	1.84
6307540--6307636	36	2.7	34	81	13	99	39	12	18	29	1.87
6307749--6307922	91	1.9	91	86	3	251	43	13	13	29	1.83
6307833--6307987	63	2.5	63	88	2	224	42	14	11	31	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6308211--6308521	104	3.0	105	85	2	374	39	10	16	33	1.83
6311874--6311903	15	1.9	16	93	6	53	43	20	30	6	1.77
6316500--6316538	21	1.9	19	85	10	51	12	23	38	25	1.90
6318828--6318853	13	2.0	13	100	0	52	23	23	30	23	1.99
6319122--6319509	193	2.0	195	98	1	762	27	12	26	33	1.92
6325419--6325508	3	29.7	3	83	6	110	37	2	0	60	1.09
6326830--6326870	22	2.0	21	86	13	59	46	0	0	53	1.00
6326830--6326870	21	1.9	22	90	5	66	46	0	0	53	1.00
6327512--6327562	18	2.9	17	72	18	50	25	0	1	72	0.95
6333979--6334318	82	4.2	82	89	6	478	28	14	22	35	1.93
6336906--6336960	22	2.5	22	87	0	83	32	12	16	38	1.86
6337523--6337867	113	3.1	113	98	0	663	38	14	18	28	1.90
6337790--6337928	40	3.4	40	67	13	129	45	10	20	23	1.82
6337784--6337950	83	2.0	83	100	0	334	42	10	20	26	1.85
6337558--6338168	308	2.0	309	91	1	1003	39	13	18	27	1.89
6337872--6338571	113	6.2	113	94	0	1125	38	14	18	29	1.90
6338816--6338859	3	14.7	3	90	0	70	38	0	0	61	0.96
6349083--6349111	12	2.5	12	94	5	51	13	0	10	75	1.04
6349525--6349702	20	8.9	20	73	11	80	33	25	15	25	1.95
6349529--6349601	20	3.7	20	81	7	87	28	30	15	26	1.96
6349646--6349710	20	3.2	20	91	4	105	41	24	15	18	1.89
6350152--6350189	20	2.0	20	89	5	60	50	18	18	13	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6350187--6350228	20	2.1	20	86	0	57	14	19	21	45	1.85
6351406--6351455	21	2.4	21	80	6	57	18	10	34	38	1.84
6351790--6351845	21	2.7	21	75	10	69	26	33	14	25	1.94
6351793--6351892	42	2.4	42	80	6	112	26	35	16	23	1.95
6353316--6353355	14	2.9	14	80	0	53	30	0	17	52	1.45
6353265--6353404	65	2.2	65	83	7	173	32	1	16	50	1.54
6353463--6353510	20	2.4	20	92	0	87	43	22	14	18	1.87
6353706--6353792	39	2.2	39	97	0	165	17	14	20	47	1.83
6354061--6354097	18	2.1	18	89	0	56	51	10	5	32	1.60
6354484--6354533	25	2.0	25	92	0	82	44	20	8	28	1.79
6354629--6354685	20	2.8	20	89	0	87	35	24	19	21	1.96
6355004--6355039	18	2.0	18	88	0	54	19	2	25	52	1.59
6357478--6357517	12	3.3	12	92	0	62	15	0	27	57	1.38
6357478--6357523	12	3.8	12	91	0	56	15	0	28	56	1.39
6358268--6358418	20	7.6	20	69	9	103	28	15	22	33	1.95
6358180--6358810	306	2.0	311	91	6	1013	29	14	20	35	1.92
6358574--6358745	20	8.6	20	71	5	89	29	15	22	32	1.95
6358655--6358703	21	2.3	21	92	0	80	34	16	24	24	1.95
6358850--6358883	2	16.5	2	87	6	50	47	2	0	50	1.16
6360634--6360691	31	1.9	29	86	6	80	22	12	10	55	1.66
6360841--6360892	16	3.3	16	73	21	56	32	15	0	51	1.43
6360797--6361257	230	2.0	234	93	1	804	39	9	6	44	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6361357--6361512	82	1.9	82	86	0	222	50	7	17	23	1.72
6367535--6367563	2	14.5	2	100	0	58	51	0	0	48	1.00
6368046--6368077	2	16.0	2	93	0	55	46	0	3	50	1.17
6368755--6368970	108	2.0	108	97	0	405	21	20	11	46	1.82
6376262--6376364	36	2.9	36	89	0	161	42	14	15	27	1.86
6384826--6384881	24	2.3	24	93	0	94	53	3	1	41	1.29
6385130--6385171	13	3.4	13	77	12	52	54	4	2	38	1.34
6385136--6385187	24	2.2	24	92	0	86	50	3	3	42	1.39
6385218--6385260	16	2.7	16	78	7	52	41	9	11	37	1.74
6385862--6385913	7	7.4	7	93	0	77	50	34	0	15	1.45

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