genome.fa.s7960.2.7.7.80.10.50.1000.26.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   

This is table  26  of  39  ( 4646 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)
5007065--5007102	18	2.1	18	100	0	76	15	50	23	10	1.75
5007084--5007130	8	6.5	8	72	22	50	17	38	23	21	1.93
5007035--5007108	13	5.3	13	78	15	76	16	44	21	17	1.86
5007097--5007130	15	2.3	15	94	0	59	17	35	23	23	1.95
5008457--5008539	43	2.0	42	92	7	141	51	2	22	22	1.59
5011931--5011968	18	2.1	18	100	0	76	15	50	23	10	1.75
5011950--5011996	8	6.5	8	72	22	50	17	38	23	21	1.93
5011901--5011974	13	5.3	13	75	15	67	17	43	21	17	1.88
5011963--5011996	15	2.3	15	94	0	59	17	35	23	23	1.95
5013323--5013405	43	2.0	42	92	7	141	51	2	22	22	1.59
5016116--5016150	18	1.9	18	88	11	54	22	17	5	54	1.64
5016731--5016775	21	2.1	21	87	0	63	15	24	28	31	1.96
5019931--5020234	149	2.0	149	96	0	563	34	20	17	27	1.95
5020866--5020910	23	2.0	23	87	8	67	31	22	0	46	1.52
5020967--5021001	18	1.9	18	88	11	54	22	17	5	54	1.64
5021582--5021626	21	2.1	21	87	0	63	15	24	28	31	1.96
5023523--5023871	184	1.9	184	95	1	637	36	14	15	33	1.88
5026572--5027599	182	5.6	182	93	3	1717	42	13	16	27	1.85
5026572--5027599	370	2.8	362	92	2	1731	42	13	16	27	1.85
5028756--5029316	186	3.0	187	98	0	1097	32	7	11	49	1.67
5042203--5042231	15	1.9	15	100	0	58	27	20	0	51	1.47
5050790--5050844	10	5.5	10	78	22	62	70	0	12	16	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5053051--5053088	20	1.9	20	88	0	58	23	34	31	10	1.89
5053563--5053780	103	2.1	103	98	0	418	25	13	24	36	1.92
5053797--5053864	23	3.0	23	82	4	84	22	23	26	27	1.99
5059888--5059930	21	2.0	21	81	0	50	27	27	25	18	1.98
5060469--5060787	103	3.1	103	98	0	611	25	12	24	36	1.91
5060807--5060869	23	2.7	23	87	4	92	20	26	26	25	1.99
5062402--5062717	150	2.1	150	95	1	564	26	17	21	34	1.95
5064351--5064382	2	16.0	2	100	0	64	50	0	0	50	1.00
5064897--5064922	9	2.9	9	100	0	52	80	0	11	7	0.89
5064894--5064983	23	4.0	23	77	12	73	80	0	12	7	0.91
5064920--5064983	7	8.5	8	86	8	66	81	0	10	7	0.88
5066261--5066371	56	2.0	56	83	3	143	29	22	18	29	1.97
5066317--5066665	130	2.7	131	83	2	416	30	20	18	29	1.97
5066909--5066973	3	22.3	3	81	12	82	32	1	0	66	1.01
5066909--5066968	29	2.1	27	90	6	93	33	1	0	65	1.03
5066909--5066969	26	2.4	26	89	5	90	32	1	0	65	1.02
5070102--5070139	2	19.0	2	100	0	76	50	0	0	50	1.00
5070931--5070957	12	2.2	12	100	0	54	55	0	7	37	1.28
5071050--5071099	19	2.6	19	72	15	50	72	6	6	16	1.25
5071194--5071241	21	2.3	22	85	7	64	75	2	10	12	1.14
5071138--5071213	28	2.8	26	76	13	66	75	1	3	19	1.04
5073133--5073518	86	4.5	85	87	2	531	25	17	21	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5077941--5078208	85	3.1	86	91	2	423	25	22	23	28	1.99
5077941--5078234	128	2.3	129	86	4	416	25	21	23	29	1.99
5077974--5078235	85	3.1	85	87	4	366	25	22	22	30	1.99
5077941--5078208	43	6.3	43	92	1	414	25	22	23	28	1.99
5077968--5078276	128	2.4	128	84	3	363	26	22	22	29	1.99
5078404--5078462	21	2.8	21	84	0	73	54	22	5	18	1.63
5083381--5083824	42	10.7	42	84	5	505	31	18	21	28	1.97
5083381--5083779	83	4.8	83	88	4	572	31	18	22	27	1.97
5083381--5083781	125	3.2	123	87	7	544	31	18	22	27	1.97
5083384--5083862	83	5.8	82	83	6	273	31	18	20	29	1.96
5085041--5085070	2	15.0	2	100	0	60	50	0	0	50	1.00
5092598--5092643	21	2.2	21	77	11	51	15	17	6	60	1.55
5096146--5096208	3	21.0	3	93	0	108	31	1	0	66	1.01
5096701--5096742	15	2.8	15	89	7	59	76	2	21	0	0.90
5096701--5096742	20	2.1	20	86	8	59	76	2	21	0	0.90
5097511--5097592	27	3.2	27	63	30	70	26	10	4	57	1.53
5097513--5097608	50	1.9	50	97	0	183	28	8	5	58	1.49
5109065--5109138	9	8.3	9	75	19	59	79	0	18	1	0.80
5109062--5109137	22	3.4	22	83	7	107	78	0	19	1	0.81
5109066--5109137	15	4.7	15	77	14	67	79	0	19	1	0.81
5109060--5109135	40	1.9	40	84	10	102	76	0	21	2	0.91
5109062--5109121	6	10.3	6	72	13	54	78	0	20	1	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109458--5109494	16	2.3	16	90	9	58	32	8	5	54	1.53
5110286--5110879	83	7.2	83	99	0	1134	25	13	23	36	1.92
5111695--5112441	113	6.6	112	93	1	1111	37	14	19	28	1.91
5112700--5112759	3	20.0	3	92	0	102	31	1	0	66	1.01
5114062--5114143	27	3.2	27	66	30	79	28	10	3	57	1.50
5114064--5114159	50	1.9	50	97	0	183	29	8	4	58	1.46
5114078--5114158	26	3.2	25	66	30	64	30	7	3	58	1.43
5114203--5114255	23	2.2	23	83	10	61	43	3	0	52	1.19
5117932--5117987	23	2.5	24	82	11	73	46	0	0	53	1.00
5118099--5118168	26	2.5	28	77	9	72	48	0	2	48	1.16
5120928--5121036	53	2.0	54	84	8	143	32	31	19	17	1.95
5121230--5121330	17	6.1	17	70	20	72	47	1	4	45	1.35
5121249--5121344	51	1.9	51	97	2	185	43	3	4	48	1.37
5123546--5123664	11	10.6	11	65	20	59	47	3	1	47	1.28
5123772--5124373	216	2.8	215	92	2	975	29	11	8	51	1.66
5129298--5129515	103	2.1	103	97	0	409	26	13	23	37	1.91
5129531--5129591	23	2.7	23	86	0	86	19	24	27	27	1.99
5138741--5138803	2	31.5	2	100	0	126	50	0	0	49	1.00
5142062--5142101	15	2.7	15	88	0	53	17	50	2	30	1.59
5146158--5146194	14	2.6	15	83	12	51	5	10	0	83	0.79
5148668--5148738	18	3.9	18	88	3	99	26	18	28	26	1.98
5154985--5155033	18	2.7	18	90	0	80	26	18	26	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5155692--5156184	140	3.5	140	87	2	677	25	21	15	37	1.93
5157123--5157265	42	3.4	41	80	6	135	32	23	18	25	1.97
5157198--5157265	20	3.3	20	70	8	64	30	23	20	25	1.98
5157405--5157475	22	3.3	22	71	15	76	35	26	15	22	1.94
5157406--5157501	42	2.3	42	87	0	138	34	26	14	25	1.94
5157779--5158061	36	7.8	36	88	2	354	39	13	20	27	1.89
5157858--5157922	21	3.4	21	68	24	70	36	12	26	24	1.91
5157779--5158061	73	3.9	72	88	2	381	39	13	20	27	1.89
5157779--5158101	109	3.0	108	85	5	400	39	12	20	27	1.89
5157858--5158184	36	8.8	37	78	10	183	39	11	21	28	1.87
5158099--5158210	36	3.1	35	71	21	95	35	11	16	35	1.86
5158247--5158491	104	2.4	104	88	4	370	37	7	20	34	1.80
5158441--5158500	19	3.2	19	65	21	54	41	10	21	26	1.85
5158421--5158515	37	2.6	36	88	6	136	38	7	22	31	1.81
5158440--5158522	37	2.2	37	93	6	141	40	9	19	30	1.83
5158440--5158544	37	2.8	38	87	9	128	39	9	20	31	1.84
5158876--5158905	4	7.2	4	92	7	51	23	3	23	50	1.64
5159026--5159071	15	3.2	15	87	6	69	32	28	8	30	1.87
5159927--5159987	2	30.5	2	100	0	122	50	49	0	0	1.00
5159987--5160038	2	26.0	2	100	0	104	50	0	0	50	1.00
5165675--5165731	20	2.9	20	86	2	80	38	12	14	35	1.83
5166235--5166338	3	34.7	3	98	0	127	67	8	0	24	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5166681--5166737	17	3.6	16	75	13	55	40	1	0	57	1.09
5166680--5166744	20	3.3	19	81	12	78	41	1	0	56	1.08
5166682--5166742	31	2.0	31	90	6	97	40	1	0	57	1.08
5166681--5166744	3	22.7	3	73	17	57	40	1	0	57	1.08
5171913--5172017	45	2.3	45	100	0	210	36	18	15	30	1.91
5172758--5172882	31	4.0	31	91	2	198	20	19	21	39	1.93
5177282--5177437	31	5.0	31	93	1	251	19	19	22	39	1.93
5181320--5181706	119	3.3	119	89	0	578	33	15	18	33	1.92
5181663--5181736	20	3.7	20	77	0	76	31	22	14	31	1.94
5181878--5181953	9	8.8	8	76	18	64	39	3	1	55	1.27

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