genome.fa.s7926.2.7.7.80.10.50.1000.42.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  42  of  42  ( 5024 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)
9708897--9709000	19	5.7	19	83	13	146	14	22	18	45	1.85
9708897--9709016	38	3.4	35	80	15	140	13	22	19	45	1.85
9709008--9709076	20	3.5	20	84	4	95	18	21	24	34	1.96
9708897--9709095	72	2.8	72	80	5	204	15	22	21	40	1.90
9711509--9711562	24	2.2	24	93	0	90	40	20	18	20	1.91
9711509--9711576	24	2.8	24	84	0	64	38	20	17	23	1.93
9712424--9712484	20	3.0	20	76	4	77	19	21	19	39	1.93
9716798--9716876	39	2.0	40	90	2	124	32	22	3	40	1.72
9718938--9718999	27	2.3	28	81	10	76	37	0	1	61	1.06
9720641--9720777	60	2.3	60	80	7	154	34	15	14	35	1.88
9734281--9734330	19	2.6	19	79	17	59	50	0	0	50	1.00
9734302--9734353	27	2.0	26	92	3	86	53	0	0	46	1.00
9745709--9745763	20	2.8	20	91	0	92	32	21	20	25	1.97
9746746--9746795	24	2.1	24	96	0	91	20	26	24	30	1.98
9751976--9752023	17	2.7	18	80	6	62	47	10	10	31	1.71
9751976--9752037	17	3.6	17	86	2	61	45	11	9	33	1.73
9751996--9752058	17	3.6	17	85	4	72	44	11	7	36	1.69
9752151--9752201	20	2.5	20	96	0	93	52	9	5	31	1.58
9753034--9753090	20	2.8	20	89	0	87	31	17	22	28	1.97
9753487--9753511	2	12.5	2	100	0	50	52	0	0	48	1.00
9753741--9753782	18	2.4	18	80	11	52	40	0	19	40	1.51
9756439--9756503	23	2.8	23	73	0	67	24	26	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9759936--9759972	19	1.9	19	100	0	74	32	16	27	24	1.96
9761590--9761658	23	3.0	23	81	12	88	23	24	24	27	2.00
9768287--9768785	244	2.0	247	86	6	706	30	16	16	37	1.91
9769495--9769562	33	2.1	33	91	5	111	10	10	16	63	1.52
9771328--9771359	16	2.0	16	100	0	64	31	12	12	43	1.80
9774027--9774072	24	1.9	23	82	8	56	21	0	8	69	1.15
9775496--9775552	29	2.0	29	96	0	105	15	35	29	19	1.93
9775570--9775594	12	2.1	12	100	0	50	40	8	36	16	1.77
9775654--9775727	33	2.2	33	90	4	114	9	39	24	27	1.86
9775719--9775783	14	4.2	14	73	21	58	9	30	35	24	1.87
9775701--9775789	34	2.5	35	87	5	117	12	30	33	23	1.92
9775839--9775911	29	2.5	29	93	0	128	27	26	34	12	1.92
9779675--9779713	17	2.4	17	95	4	71	51	5	0	43	1.24
9779817--9779842	9	2.9	9	100	0	52	23	7	23	46	1.78
9784148--9784188	16	2.6	16	88	3	57	36	12	21	29	1.90
9784240--9784306	27	2.5	27	92	4	109	26	17	16	38	1.91
9789083--9789160	31	2.5	32	85	2	95	34	7	5	52	1.52
9789310--9789380	36	1.9	36	82	2	88	56	7	9	26	1.57
9789402--9789446	21	2.1	21	87	0	63	60	8	4	26	1.46
9808681--9808777	46	2.1	46	100	0	194	20	10	14	54	1.69
9809170--9809353	51	3.7	50	88	5	248	46	14	13	26	1.81
9811635--9811947	154	2.0	155	97	0	592	40	8	5	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9812924--9812963	19	2.0	20	86	13	57	70	0	0	30	0.88
9812945--9812978	16	2.1	16	88	0	50	67	0	0	32	0.91
9814230--9814269	20	2.0	20	85	0	53	45	0	2	52	1.14
9816058--9816105	12	4.0	12	77	0	51	50	18	12	18	1.78
9816060--9816128	24	2.9	24	78	4	68	44	18	13	23	1.84
9836035--9836194	57	2.8	58	76	12	152	35	7	13	44	1.72
9836159--9836274	39	2.9	39	89	3	162	37	6	12	43	1.68
9838883--9838950	34	2.0	34	100	0	136	32	8	20	38	1.84
9850230--9850292	2	31.5	2	100	0	126	50	0	0	49	1.00
9856728--9856767	20	2.0	20	85	9	55	42	0	0	57	0.98
9858289--9858728	222	2.0	222	85	7	604	32	10	15	40	1.82
9859114--9859160	17	2.7	18	87	9	71	29	29	8	31	1.87
9859223--9859249	13	2.1	13	100	0	54	37	0	0	62	0.95
9863140--9863172	16	2.1	16	88	5	50	42	6	6	45	1.53
9867213--9867299	35	2.5	33	78	15	95	56	8	6	28	1.54
9867290--9867377	33	2.6	33	83	7	106	63	13	2	20	1.40
9867392--9867458	17	3.8	18	70	16	52	71	5	1	20	1.15
9875975--9876062	34	2.7	34	87	8	121	32	30	3	32	1.74
9877298--9877323	13	2.0	13	100	0	52	84	0	0	15	0.62
9882198--9882429	113	2.0	116	89	5	353	29	9	19	40	1.84
9898123--9898176	26	2.1	26	85	0	72	55	9	11	24	1.64
9918596--9918635	12	3.2	12	93	6	71	15	55	15	15	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9918595--9918635	13	3.2	13	93	6	75	14	56	14	14	1.69
9925359--9925416	28	2.1	28	83	6	73	58	3	12	25	1.49
9926350--9926401	23	2.2	24	83	10	72	67	1	0	30	1.02
9926372--9926431	18	3.6	18	72	18	58	63	3	0	33	1.11
9934796--9934849	24	2.2	24	86	0	72	35	0	31	33	1.58
9943750--9943782	2	16.5	2	100	0	66	48	0	0	51	1.00
9944109--9944138	12	2.5	12	94	0	51	63	3	0	33	1.11
9946078--9946173	50	1.9	50	93	0	165	42	29	6	21	1.77
9946571--9946704	15	8.5	15	76	9	106	0	28	14	56	1.43
9946568--9946704	33	4.4	31	83	7	152	0	29	13	56	1.43
9948185--9948220	12	2.8	13	88	12	56	47	2	0	50	1.15
9953578--9953634	21	2.8	21	76	10	55	63	3	17	15	1.45
9960165--9960276	58	1.9	58	87	0	161	54	10	20	14	1.69
9961094--9961720	105	6.0	105	96	0	1121	33	24	18	23	1.97
9962031--9962066	12	2.8	13	88	12	56	47	2	0	50	1.15
9967227--9967604	185	2.0	186	92	0	623	45	8	3	41	1.54
9967525--9967619	40	2.3	41	78	8	104	43	2	2	52	1.25
9968864--9968896	16	2.0	17	94	5	59	36	9	6	48	1.60
9982246--9982283	18	2.2	18	90	4	60	68	5	2	23	1.23
9986265--9986290	12	2.2	12	100	0	52	50	19	7	23	1.73
9986287--9986356	21	3.3	21	66	18	63	55	11	1	31	1.44
9986280--9986368	43	2.1	43	97	0	169	56	13	3	26	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9995209--9995757	93	6.0	92	80	3	509	35	9	16	38	1.81
9997205--9997233	15	1.9	15	100	0	58	68	13	6	10	1.37
9998746--9998934	29	6.6	29	76	10	181	38	14	21	25	1.91
10016951--10016994	22	2.0	22	82	8	54	54	22	13	9	1.67
10017633--10017668	16	2.2	17	90	5	56	27	0	2	69	1.02
10029673--10029704	3	10.7	3	93	0	55	34	0	34	31	1.58
10031683--10031718	12	3.0	12	83	0	54	77	2	2	16	1.00
10041838--10041968	44	3.0	44	92	6	223	47	16	15	20	1.83
10044362--10044439	27	2.8	28	73	9	79	53	5	2	38	1.37
10052189--10052220	16	2.0	16	93	0	55	34	25	6	34	1.81
10055701--10055727	13	2.1	13	100	0	54	37	14	25	22	1.93
10056103--10056134	14	2.4	14	94	5	57	65	0	3	31	1.08
10059459--10059503	22	2.0	22	86	0	63	20	15	17	46	1.84
10060068--10060111	23	1.9	23	90	0	70	22	6	38	31	1.81
10060072--10060122	23	2.2	23	82	0	57	19	9	41	29	1.84
10065748--10065827	20	3.9	20	77	6	70	15	25	36	23	1.93

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

The End!