genome.fa.s8016.2.7.7.80.10.50.1000.24.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  24  of  25  ( 2971 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)
5219949--5219979	15	2.1	15	100	0	62	29	25	19	25	1.99
5221497--5221835	132	2.6	132	95	1	601	43	7	8	40	1.65
5222833--5222896	21	3.0	21	86	4	85	0	12	23	64	1.28
5223311--5223365	24	2.4	22	78	21	67	61	1	1	34	1.17
5231901--5231936	2	18.5	2	88	5	56	47	2	0	50	1.15
5233696--5233741	23	2.0	24	95	4	85	34	13	13	39	1.83
5234020--5234178	77	2.0	79	93	3	277	23	16	25	33	1.96
5234020--5234178	40	4.1	40	92	4	270	23	16	25	33	1.96
5235150--5235563	206	2.0	207	99	0	821	33	15	22	29	1.94
5236430--5236577	37	4.1	36	82	10	178	47	3	6	43	1.44
5236495--5236631	60	2.3	59	83	5	170	45	3	6	43	1.47
5236546--5236599	26	2.1	26	89	0	81	48	1	7	42	1.42
5236572--5236781	30	6.4	35	77	13	125	46	4	5	44	1.45
5236641--5236736	30	3.3	30	91	2	151	48	4	3	43	1.37
5236451--5236795	129	2.6	129	79	12	323	46	4	5	44	1.44
5236525--5236768	95	2.6	92	79	14	266	48	4	4	42	1.43
5236700--5236775	34	2.2	34	85	4	98	48	3	1	46	1.29
5237054--5237083	16	1.9	15	93	6	51	20	40	26	13	1.89
5238222--5238348	40	3.2	40	84	4	123	35	23	17	23	1.95
5238244--5238348	20	5.2	20	94	0	174	37	22	19	20	1.95
5238339--5238386	19	2.5	19	93	3	78	47	25	12	14	1.79
5238544--5238587	22	2.0	22	90	0	70	20	38	15	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5238981--5239046	21	3.1	21	89	4	89	16	21	16	45	1.85
5238989--5239053	21	3.2	20	80	8	69	16	20	16	46	1.85
5240523--5240576	15	3.5	15	76	14	65	11	16	1	70	1.25
5240519--5240589	16	4.5	16	71	26	53	11	18	4	66	1.39
5240670--5240714	4	11.5	4	86	13	58	20	2	0	77	0.87
5244163--5244344	95	1.9	94	88	3	276	35	18	15	30	1.92
5245291--5246199	84	10.9	83	77	6	836	30	24	18	26	1.98
5245291--5246199	249	3.7	249	90	0	1341	30	24	18	26	1.98
5245325--5246199	165	5.3	164	78	8	784	30	24	19	26	1.98
5246810--5247083	36	7.8	36	80	11	259	45	3	6	44	1.46
5246841--5247172	64	4.8	66	77	15	279	45	3	6	44	1.46
5246886--5247179	100	2.9	98	78	12	321	45	3	5	44	1.45
5247054--5247121	29	2.3	29	87	7	102	50	4	2	42	1.37
5246839--5247166	34	9.6	34	77	13	291	45	3	6	44	1.46
5248456--5248494	15	2.6	15	100	0	78	20	7	0	71	1.10
5248582--5248632	2	25.5	2	87	0	75	45	1	1	50	1.24
5248648--5248685	4	9.5	4	88	11	60	26	0	0	73	0.83
5250422--5250473	22	2.4	22	100	0	104	26	21	21	30	1.98
5252349--5252576	114	2.0	114	100	0	456	37	15	26	20	1.92
5255333--5255391	25	2.4	25	97	0	109	32	3	0	64	1.10
5255355--5255397	17	2.4	19	84	7	54	34	4	0	60	1.17
5255333--5255405	25	2.9	25	89	4	94	31	5	0	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5263684--5263788	40	2.5	40	80	10	111	73	1	8	16	1.17
5263720--5263910	14	13.2	14	65	21	56	73	2	4	19	1.11
5263714--5263799	15	5.8	14	75	15	57	76	1	4	17	1.01
5263837--5263910	9	8.2	9	69	10	53	78	4	2	14	1.01
5263849--5263948	43	2.3	44	87	6	141	71	5	6	18	1.26
5264596--5264630	7	5.0	7	100	0	70	57	0	14	28	1.38
5265978--5266010	2	16.5	2	100	0	66	48	0	0	51	1.00
5266057--5266086	3	10.0	3	92	0	51	36	0	0	63	0.95
5270009--5270055	18	2.7	18	90	3	69	36	8	27	27	1.86
5270416--5271005	253	2.3	252	85	7	808	41	18	13	26	1.87
5272647--5272911	107	2.5	106	88	0	395	31	24	20	23	1.98
5273178--5273409	120	1.9	120	92	1	385	33	27	18	21	1.96
5273504--5273776	36	7.7	35	74	11	164	25	19	14	41	1.88
5273553--5273604	16	2.9	17	74	20	52	28	23	9	38	1.86
5273618--5273778	37	4.4	36	81	3	189	22	19	15	42	1.89
5273618--5273778	73	2.2	73	86	0	214	22	19	15	42	1.89
5274170--5274215	12	3.6	12	81	16	56	32	0	2	65	1.05
5274166--5274215	15	3.5	15	78	18	61	32	0	2	66	1.03
5274183--5274215	3	11.0	3	87	12	50	33	0	0	66	0.92
5274162--5274220	9	6.3	9	83	14	59	30	0	1	67	1.00
5278024--5278150	47	2.8	45	84	7	157	41	7	21	29	1.81
5278857--5278916	2	31.0	2	86	6	88	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5280154--5280232	34	2.4	33	83	8	90	39	0	1	59	1.06
5280144--5280232	34	2.7	31	79	6	88	39	0	2	58	1.11
5280155--5280262	51	2.2	49	77	11	112	37	0	2	58	1.19
5281955--5282002	21	2.3	21	85	0	60	25	39	12	22	1.89
5282006--5282099	21	4.5	21	86	7	129	19	32	27	20	1.96
5282618--5282712	28	3.2	28	79	16	109	53	4	4	37	1.40
5282621--5282693	34	2.1	34	92	0	119	58	4	2	34	1.31
5282619--5282719	34	3.2	33	73	16	104	54	4	3	36	1.41
5286110--5286657	272	2.0	273	95	1	983	33	9	18	38	1.83
5286863--5286900	19	2.0	19	100	0	76	42	5	5	47	1.48
5288312--5288397	21	4.1	21	93	0	145	43	10	31	15	1.80
5288434--5288488	25	2.2	25	93	0	92	30	0	47	21	1.51
5290564--5292082	401	3.8	402	93	1	2564	36	14	16	32	1.89
5290564--5292071	200	7.5	201	94	1	2551	36	14	16	32	1.89
5295049--5295158	51	2.1	53	79	12	122	39	18	18	24	1.92
5294904--5295357	251	1.8	251	88	2	698	38	14	15	31	1.88
5297972--5298681	200	3.5	200	78	9	730	39	13	15	30	1.86
5298698--5298860	87	1.9	87	96	0	299	33	13	12	41	1.82
5298782--5298826	23	2.0	23	90	0	72	37	17	8	35	1.81
5303830--5303861	4	8.0	4	100	0	64	75	0	0	25	0.81
5303893--5303925	10	3.2	10	95	4	57	87	0	3	9	0.63
5304077--5304110	16	2.1	17	88	5	52	82	2	2	11	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5304055--5304129	37	2.0	36	82	10	87	76	2	8	13	1.12
5304279--5304319	11	3.7	11	81	18	50	75	0	7	17	1.02
5304279--5304318	12	3.6	12	80	16	50	77	0	5	17	0.94
5304220--5304399	93	1.9	93	93	5	312	67	1	7	23	1.23
5304289--5304413	40	3.1	42	71	21	122	68	0	8	22	1.23
5304248--5304419	81	2.1	82	78	10	183	66	1	9	22	1.27
5305536--5305568	2	17.0	2	87	6	50	51	3	0	45	1.16
5305533--5305568	17	2.1	17	94	0	63	52	2	0	44	1.15
5305964--5306817	124	6.8	123	80	7	910	27	15	24	33	1.95
5306920--5307405	147	3.3	147	89	0	713	27	14	21	36	1.92
5307342--5307508	64	2.6	64	91	0	253	29	16	20	32	1.95
5311238--5311299	19	3.4	18	85	10	74	75	0	3	20	0.94
5311238--5311299	4	16.0	4	83	9	76	75	0	3	20	0.94
5311245--5311313	21	3.4	19	70	18	50	73	0	5	20	1.03
5311507--5311561	23	2.3	23	84	9	65	72	0	5	21	1.04
5311501--5311573	12	6.7	11	75	18	57	75	1	4	19	1.04
5311470--5311593	55	2.1	60	79	18	138	70	0	6	22	1.15
5311501--5311591	24	4.0	24	76	16	70	73	1	4	20	1.07
5311674--5311796	16	7.6	16	69	24	73	71	0	8	20	1.11
5311653--5311747	39	2.4	38	78	14	97	73	0	7	18	1.06
5311599--5311845	97	2.5	98	83	12	310	69	2	7	21	1.24
5312959--5312991	15	2.2	15	94	0	57	51	6	3	39	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5316159--5316430	134	2.0	133	94	5	474	40	12	14	32	1.84
5317328--5317375	12	3.5	14	77	13	55	52	8	4	35	1.51
5317324--5317400	25	3.1	25	81	10	70	50	6	6	36	1.54
5317741--5321296	4	910.5	4	92	6	6104	24	0	25	49	1.52
5321752--5321835	13	6.8	13	66	17	54	42	5	10	40	1.64
5321729--5321851	37	3.7	37	69	27	121	40	7	11	40	1.69
5321741--5321856	60	1.9	60	98	0	223	40	6	12	41	1.67
5321867--5321942	21	3.7	20	75	18	66	40	5	6	47	1.52
5321954--5322099	31	4.6	31	72	19	115	43	5	2	48	1.40
5321984--5322043	14	4.2	14	73	12	50	46	8	3	41	1.50

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