genome.fa.s9587.2.7.7.80.10.50.1000.28.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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  28  of  29  ( 3457 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)
6245546--6245621	33	2.3	33	95	0	134	48	21	18	11	1.79
6245550--6245632	33	2.5	33	90	3	114	48	22	18	10	1.79
6245628--6245724	19	5.6	19	71	22	88	12	18	21	47	1.81
6245650--6245708	14	3.9	14	76	20	64	10	15	23	50	1.74
6245633--6245724	33	2.8	33	94	0	166	11	17	21	48	1.79
6245709--6245763	20	2.8	19	83	8	65	16	23	23	36	1.94
6246304--6246351	18	2.7	18	93	0	87	14	12	45	27	1.81
6247671--6247729	20	3.0	20	87	0	73	44	22	18	15	1.87
6247984--6248026	22	2.0	22	95	0	77	20	16	41	20	1.90
6248223--6248285	20	3.2	20	86	0	90	30	14	28	26	1.95
6248296--6248368	21	3.5	21	90	1	103	20	23	17	38	1.93
6254591--6254633	21	2.0	21	81	0	50	30	30	25	13	1.94
6254613--6254764	67	2.2	68	94	1	261	30	28	26	15	1.96
6254725--6254765	21	2.0	21	90	0	64	21	31	36	9	1.86
6255218--6255513	149	2.0	149	99	0	583	27	14	20	37	1.91
6255492--6255536	23	2.0	23	81	0	54	20	22	28	28	1.98
6261592--6261634	21	2.0	21	81	0	50	30	30	25	13	1.94
6261614--6261765	67	2.2	68	95	1	270	29	28	26	15	1.96
6261726--6261766	21	2.0	21	90	0	64	21	31	36	9	1.86
6262211--6262514	149	2.0	149	98	0	590	26	15	20	37	1.92
6262494--6262537	23	1.9	23	85	0	61	20	25	27	27	1.99
6268259--6268286	14	2.0	14	100	0	56	21	7	35	35	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6276228--6276284	20	2.8	20	86	0	78	29	21	7	42	1.79
6277949--6277996	21	2.3	21	81	0	60	52	6	0	41	1.27
6279140--6279172	11	3.0	11	100	0	66	36	9	0	54	1.32
6279681--6279721	16	2.7	15	82	17	57	58	0	0	41	0.98
6279694--6279749	26	2.2	26	81	15	71	57	0	1	41	1.09
6281485--6281561	33	2.3	33	77	16	79	59	2	0	37	1.11
6285344--6285369	2	13.0	2	100	0	52	50	0	0	50	1.00
6288926--6288980	23	2.5	23	83	13	64	41	0	1	56	1.10
6288941--6288980	20	2.0	20	90	9	64	42	0	0	57	0.98
6288970--6289005	14	2.5	15	90	4	56	58	0	0	41	0.98
6291478--6291684	81	2.6	80	85	5	267	30	16	16	36	1.91
6298446--6298769	162	2.0	161	97	1	614	24	20	27	27	1.99
6299980--6300016	18	2.1	18	95	5	67	18	35	29	16	1.93
6306421--6306459	4	9.8	4	88	0	60	51	23	2	23	1.61
6306421--6306464	12	3.6	12	84	3	52	52	22	4	20	1.65
6317092--6317159	27	2.5	27	83	4	84	33	11	1	52	1.47
6318072--6318197	8	15.8	8	76	0	90	38	25	1	34	1.66
6318072--6318197	24	5.2	24	78	3	101	38	25	1	34	1.66
6318083--6318197	56	2.1	56	93	3	196	40	24	1	33	1.66
6322538--6322563	2	13.0	2	100	0	52	50	0	0	50	1.00
6323921--6323945	3	8.3	3	100	0	50	64	0	0	36	0.94
6324576--6324615	20	2.0	20	95	0	71	17	17	40	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6330331--6330425	39	2.4	39	100	0	190	35	22	10	31	1.88
6335643--6335735	21	4.5	21	78	4	100	39	18	24	17	1.91
6335724--6335838	20	5.7	20	80	6	106	31	26	17	25	1.97
6335643--6335735	41	2.3	41	100	0	186	39	18	24	17	1.91
6336026--6336069	22	2.0	22	95	0	79	20	45	15	18	1.85
6336332--6336389	20	2.9	20	89	0	80	17	15	22	44	1.86
6337704--6337748	18	2.5	18	85	0	63	26	42	15	15	1.87
6338230--6338296	20	3.4	20	81	2	73	38	23	22	14	1.92
6338285--6338342	14	3.9	14	72	16	53	50	24	13	12	1.76
6338273--6338359	32	2.7	33	92	3	149	49	21	16	12	1.78
6338378--6338433	14	3.7	14	78	17	67	8	14	26	50	1.72
6338360--6338449	32	2.8	32	89	3	135	11	16	25	46	1.80
6340334--6340369	14	2.6	14	90	0	54	30	0	22	47	1.52
6340486--6340553	19	3.8	19	85	14	101	47	17	22	13	1.82
6340571--6340628	20	2.9	20	97	0	107	15	22	24	37	1.93
6341685--6341738	24	2.2	24	86	0	72	25	16	18	38	1.92
6341913--6341937	12	2.1	12	100	0	50	72	0	28	0	0.86
6344230--6344288	19	3.4	19	68	22	56	49	18	16	15	1.80
6344230--6344422	33	5.8	33	88	4	257	44	19	19	17	1.87
6344262--6344321	19	3.4	18	69	21	56	50	16	16	16	1.79
6344231--6344429	99	2.0	99	88	3	294	43	19	19	18	1.88
6344451--6344511	19	3.5	19	72	21	69	11	22	21	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6344422--6344511	33	2.7	33	89	0	135	13	21	20	45	1.84
6344617--6344653	14	2.6	14	91	0	65	45	24	0	29	1.53
6346011--6346077	21	3.2	21	68	4	55	19	20	35	23	1.95
6346011--6346133	42	2.9	41	79	7	113	22	18	36	21	1.95
6346349--6346535	91	2.0	90	90	6	295	47	18	12	21	1.81
6346679--6346820	63	2.3	63	87	2	160	26	37	16	19	1.93
6346702--6346832	63	2.1	63	100	0	262	23	37	18	20	1.94
6348282--6348393	19	6.1	19	79	12	126	44	19	23	12	1.84
6348307--6348371	33	2.0	33	93	0	112	41	23	24	10	1.86
6348389--6348433	19	2.4	19	84	0	63	6	15	26	51	1.68
6348984--6349036	20	2.7	20	93	0	88	26	20	28	24	1.99
6349149--6349189	21	2.0	21	85	0	55	34	31	17	17	1.93
6349373--6349474	37	2.8	37	86	5	152	30	15	15	38	1.89
6351778--6351873	29	3.3	29	64	22	74	35	17	6	40	1.75
6351794--6351887	29	3.2	29	66	16	75	35	21	5	38	1.76
6351778--6351942	60	2.8	59	84	5	190	32	23	6	38	1.79
6352069--6352175	26	3.8	28	71	22	89	37	5	24	32	1.79
6362321--6362367	4	11.8	4	100	0	94	48	25	0	25	1.51
6362462--6362505	6	7.2	6	89	2	52	0	20	54	25	1.45
6363097--6363237	76	1.9	76	95	0	255	34	9	31	24	1.88
6363994--6364073	40	2.0	40	90	0	124	43	12	10	33	1.76
6365146--6365193	24	2.0	23	96	4	87	29	10	20	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6378538--6378570	13	2.5	13	100	0	66	30	24	45	0	1.53
6378965--6379017	21	2.5	21	81	6	72	20	26	18	33	1.96
6379007--6379058	21	2.5	21	87	3	70	38	17	23	21	1.93
6379048--6379221	20	8.6	20	85	6	208	27	26	19	27	1.99
6379767--6379842	20	3.8	20	96	0	134	39	23	22	14	1.91
6379883--6379925	19	2.3	19	95	0	77	16	18	16	48	1.81
6381463--6381552	42	2.2	42	86	4	130	23	14	40	22	1.90
6381887--6381939	20	2.7	20	87	0	70	33	28	13	24	1.93
6381893--6381998	20	5.4	19	84	5	104	38	24	20	16	1.92
6381968--6382031	33	1.9	33	100	0	128	48	20	18	12	1.80
6381913--6382036	19	6.7	19	81	11	123	42	22	21	12	1.87
6381952--6382053	19	5.6	19	78	13	99	45	22	19	12	1.84
6382046--6382139	33	2.8	33	91	0	152	15	19	18	46	1.84
6382043--6382139	19	5.6	19	67	22	79	15	19	18	46	1.84
6382124--6382178	20	2.8	19	83	8	65	16	23	23	36	1.94
6382712--6382759	18	2.7	18	90	0	78	16	12	43	27	1.84
6384052--6384109	20	2.9	20	84	0	62	43	20	17	18	1.89
6384367--6384410	22	2.0	22	90	0	70	22	15	38	22	1.92
6384597--6384710	20	5.7	20	84	6	131	23	18	26	31	1.97
6384577--6384712	41	3.3	41	83	6	177	23	17	25	33	1.96
6384577--6384732	41	3.8	41	78	6	129	22	19	24	33	1.97
6384741--6384793	21	2.5	22	81	6	74	33	18	26	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6384984--6385026	20	2.0	22	91	8	72	34	0	4	60	1.17
6386872--6387084	106	2.0	106	100	0	426	27	14	28	30	1.95
6388702--6388741	17	2.4	17	95	0	71	20	5	0	75	0.99
6391237--6391395	60	2.7	58	79	7	176	40	2	23	33	1.68
6391231--6391410	60	3.0	60	76	8	170	40	2	24	33	1.68
6392701--6392732	16	2.0	16	100	0	64	37	43	0	18	1.51
6393074--6393135	10	5.8	10	88	7	70	50	16	0	33	1.45
6393056--6393129	16	4.6	16	77	12	80	45	14	4	35	1.64
6393068--6393138	6	11.8	6	84	11	92	47	16	1	33	1.56
6395981--6396033	22	2.4	22	93	0	97	35	22	11	30	1.89

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