genome.fa.s7923.2.7.7.80.10.50.1000.28.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  28  of  40  ( 4704 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)
5758813--5759089	53	5.3	49	69	19	131	48	1	1	49	1.17
5758954--5759023	32	2.2	32	82	10	81	52	0	2	44	1.15
5758971--5759017	22	2.1	23	88	4	69	55	0	2	42	1.12
5758979--5759022	22	2.0	22	82	8	54	56	0	2	40	1.11
5771808--5771837	15	2.0	15	93	0	51	13	0	30	56	1.37
5776289--5776333	22	2.0	23	87	8	67	33	6	0	60	1.23
5776298--5776343	21	2.1	21	84	8	56	41	4	0	54	1.20
5776363--5776397	18	1.9	18	88	11	54	20	0	2	77	0.90
5776705--5776730	3	8.7	3	100	0	52	65	0	0	34	0.93
5778668--5778716	27	1.9	25	84	12	64	36	4	4	55	1.38
5781191--5781243	21	2.5	21	84	0	70	30	0	37	32	1.58
5790261--5790411	60	2.5	59	82	7	171	35	18	5	41	1.73
5790302--5790430	60	2.2	60	81	5	154	35	19	4	40	1.72
5791633--5791676	20	2.0	21	83	12	54	54	0	0	45	0.99
5793241--5793274	16	2.1	16	100	0	68	26	17	5	50	1.69
5794836--5794875	16	2.5	17	84	12	57	62	2	0	35	1.09
5794796--5794945	67	2.2	69	89	3	223	55	2	2	40	1.25
5795083--5795151	27	2.4	30	74	11	83	47	2	5	43	1.42
5797872--5797943	31	2.2	35	85	9	98	48	4	5	41	1.45
5798321--5798379	31	1.9	31	96	0	109	52	16	8	22	1.70
5799636--5799685	26	2.0	26	92	4	84	40	4	16	40	1.67
5828843--5828921	39	2.0	39	97	0	149	30	18	12	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5840645--5840842	95	2.1	95	88	4	294	38	12	8	40	1.74
5840794--5841030	26	8.8	26	70	13	113	38	15	8	37	1.77
5840820--5841030	81	2.6	82	88	2	318	38	15	7	38	1.76
5841132--5841352	77	2.8	79	89	7	340	38	8	14	37	1.77
5842274--5842306	17	1.9	17	100	0	66	30	12	9	48	1.71
5843310--5843386	14	5.4	14	71	13	68	46	1	1	50	1.17
5843301--5843432	20	6.8	20	66	25	70	49	0	1	48	1.15
5843969--5844000	16	2.0	16	93	0	55	71	0	3	25	1.00
5845419--5845469	23	2.2	23	79	6	59	47	0	1	50	1.12
5845515--5845613	52	1.9	52	84	12	132	50	1	0	48	1.07
5845644--5845690	22	2.1	23	88	4	69	53	0	0	46	1.00
5845600--5845761	53	3.1	54	74	15	126	49	1	2	46	1.26
5852093--5852193	51	2.0	51	92	0	166	33	10	21	33	1.88
5862164--5862217	21	2.6	21	87	0	72	25	22	31	20	1.98
5862299--5862356	30	1.9	30	93	6	100	41	17	6	34	1.76
5862794--5862819	12	2.2	12	100	0	52	53	7	0	38	1.30
5865046--5865124	22	3.7	22	86	6	101	21	20	32	25	1.97
5865116--5865149	13	2.6	13	90	0	50	20	17	41	20	1.91
5865227--5865289	30	2.1	29	88	11	92	49	12	6	31	1.66
5865238--5865297	29	2.0	30	93	6	104	43	16	6	33	1.74
5876242--5876286	22	2.0	22	100	0	90	22	17	17	42	1.89
5886743--5886780	10	3.8	10	100	0	76	21	10	10	57	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5899790--5899867	23	3.4	23	94	0	129	26	25	28	19	1.99
5900841--5900883	21	2.0	21	86	8	61	32	16	25	25	1.96
5906436--5906537	21	4.9	20	86	3	98	42	19	19	18	1.90
5912120--5912657	55	9.9	55	80	6	567	33	18	22	25	1.96
5912119--5912654	165	3.3	164	85	4	633	33	17	22	25	1.96
5912176--5912713	216	2.5	218	82	4	543	33	18	22	24	1.96
5912694--5913464	55	14.2	55	84	5	863	30	14	27	27	1.95
5912694--5913464	108	7.1	109	85	4	880	30	14	27	27	1.95
5912694--5913464	163	4.7	164	81	7	772	30	14	27	27	1.95
5917215--5917270	23	2.4	23	93	0	94	41	10	17	30	1.84
5918040--5918119	2	41.5	2	83	12	87	41	2	1	55	1.21
5918931--5918984	20	2.8	20	94	2	92	66	3	25	3	1.25
5921352--5921382	2	15.5	2	93	0	53	51	0	0	48	1.00
5924796--5924935	72	1.9	72	97	2	264	37	16	15	31	1.89
5933226--5933297	23	3.1	22	77	16	74	11	18	18	52	1.73
5963584--5963696	7	14.6	7	71	17	57	74	0	19	5	1.06
5963606--5963694	25	3.6	24	78	15	76	75	1	17	5	1.06
5963587--5963700	13	8.1	13	67	20	52	74	0	19	5	1.06
5963606--5963701	24	3.8	26	75	14	78	73	1	18	6	1.09
5964836--5965444	51	11.9	51	92	1	943	29	15	27	27	1.96
5964836--5965551	153	4.6	153	88	3	954	29	15	26	28	1.96
5965363--5965553	55	3.5	54	86	5	226	29	15	24	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5965363--5965581	55	4.0	54	80	9	198	28	15	23	32	1.95
5974726--5974783	11	5.2	12	73	21	54	0	32	18	48	1.49
5974730--5974783	23	2.4	23	90	3	83	0	31	20	48	1.50
5974730--5974784	10	4.9	11	77	18	60	0	30	20	49	1.49
5975177--5975250	3	24.0	3	80	5	76	58	0	0	41	0.98
5975170--5975256	18	4.5	18	81	14	86	56	0	0	43	0.99
5985194--5985246	21	2.5	21	81	6	72	20	26	18	33	1.96
5985236--5985472	41	5.8	41	71	12	157	35	18	19	26	1.95
5985236--5985470	61	3.9	59	69	13	172	34	19	20	25	1.96
5985317--5985389	21	3.5	21	79	3	76	23	21	17	36	1.94
5985236--5985490	20	12.6	20	76	9	169	34	19	19	26	1.96
5986043--5986087	19	2.4	19	88	0	63	46	26	17	8	1.78
5986088--5986189	52	1.9	53	88	2	152	11	22	21	44	1.85
5986138--5986205	20	3.5	20	89	2	93	14	22	23	39	1.91
5986083--5986214	19	7.1	19	80	11	130	12	22	19	44	1.85
5989741--5989776	14	2.6	14	95	0	63	30	0	25	44	1.54
5989883--5990019	19	7.7	19	76	17	134	45	21	20	12	1.84
5989883--5990019	33	4.0	33	83	6	159	45	21	20	12	1.84
5989883--5990019	52	2.7	50	73	8	132	45	21	20	12	1.84
5990029--5990155	33	3.9	32	85	8	184	14	22	18	43	1.87
5990022--5990154	66	2.0	66	95	0	239	16	22	18	42	1.89
5992447--5992471	12	2.1	12	100	0	50	0	28	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5993485--5993556	20	3.5	20	90	1	99	40	15	22	22	1.91
5993545--5993602	20	2.9	20	89	0	71	29	24	20	25	1.99
5993541--5993611	20	3.5	20	82	0	70	35	22	19	22	1.96
5993825--5993900	20	3.8	20	71	13	66	42	19	19	18	1.90
5993919--5994043	19	6.8	19	90	6	197	15	22	16	46	1.83
5995625--5995718	42	2.2	42	84	1	125	21	14	42	21	1.88
5996056--5996094	20	2.0	20	89	0	60	33	25	12	28	1.93
5996084--5996148	20	3.3	19	78	6	76	40	23	24	12	1.89
5996179--5996309	19	7.3	19	70	18	84	12	19	22	44	1.85
5996196--5996254	14	3.9	14	76	20	64	10	16	23	49	1.77
5996179--5996270	33	2.8	33	98	0	175	11	18	21	47	1.80
5996255--5996309	20	2.8	19	83	8	65	16	23	23	36	1.94
5996850--5996897	18	2.7	18	93	0	87	14	12	45	27	1.81
5998217--5998259	20	2.2	20	91	0	68	53	16	18	11	1.72
5998538--5998581	22	2.0	22	95	0	79	18	15	45	20	1.85
5998774--5998840	20	3.3	20	87	0	98	28	11	31	28	1.92
5998754--5998885	41	3.2	41	78	2	140	23	13	26	36	1.92
5998880--5998943	21	3.1	21	90	2	94	23	21	15	39	1.92
6001454--6001529	19	4.2	18	75	17	68	57	6	1	34	1.33
6001454--6001493	17	2.3	17	86	4	53	62	5	0	32	1.17
6001508--6001547	16	2.5	16	88	8	55	57	10	0	32	1.32
6001908--6001956	4	13.0	4	81	12	59	26	0	2	71	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6001908--6001964	22	2.5	23	88	8	82	26	0	1	71	0.95
6006468--6006973	201	2.5	200	81	2	597	33	20	10	36	1.86
6007171--6007241	25	2.9	24	79	10	72	49	1	4	45	1.30
6012336--6012436	21	4.7	21	76	4	103	19	19	26	33	1.96
6012328--6012436	44	2.5	43	88	2	157	19	21	25	33	1.96
6016151--6016368	64	3.4	64	79	6	203	33	20	19	26	1.96
6017024--6017148	31	4.0	31	95	2	216	19	19	23	38	1.93
6017410--6017443	17	1.9	18	88	5	52	29	0	17	52	1.45
6020180--6020356	64	2.8	64	80	5	196	33	20	19	25	1.96
6021013--6021122	31	3.5	31	91	0	175	20	20	18	41	1.90

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