genome.fa.s8747.2.7.7.80.10.50.1000.39.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   43   44   45   46   47   48   
          49   50   51   

This is table  39  of  51  ( 6054 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)
9947988--9948714	140	5.2	140	86	1	985	27	20	15	35	1.94
9947988--9948714	279	2.6	279	87	1	1012	27	20	15	35	1.94
9949756--9949807	12	4.3	12	80	7	61	15	5	0	78	0.92
9949756--9949822	18	3.6	19	88	10	93	16	4	0	79	0.90
9949741--9949823	7	11.6	7	83	10	62	13	6	0	80	0.88
9961350--9961426	37	2.1	37	83	9	95	46	2	3	46	1.34
9961572--9961609	20	1.9	20	88	0	58	21	26	10	42	1.85
9962724--9962767	22	2.0	22	95	0	79	25	25	22	27	2.00
9962800--9962873	32	2.3	32	100	0	148	27	16	13	43	1.85
9962937--9962984	22	2.2	22	88	7	71	35	22	4	37	1.74
9966883--9966925	21	2.0	22	90	4	70	30	25	4	39	1.76
9966894--9966935	21	2.0	21	81	9	50	40	21	4	33	1.74
9969667--9969728	23	2.7	23	84	0	70	8	16	40	35	1.78
9970962--9971001	7	5.7	7	100	0	80	42	0	0	57	0.98
9971159--9971189	14	2.2	14	94	0	53	45	0	6	48	1.28
9974345--9974562	94	2.3	95	89	2	325	34	14	24	26	1.94
9974886--9975050	59	2.9	56	80	10	176	35	11	18	33	1.87
9975334--9975652	81	3.9	81	91	1	505	36	12	22	27	1.91
9978332--9978388	26	2.2	26	93	0	96	33	40	15	10	1.82
9981835--9982217	4	98.0	4	94	4	685	50	24	0	25	1.50
9987047--9987110	20	3.1	20	68	24	51	23	15	20	40	1.90
9987029--9987110	42	2.0	42	90	0	128	23	18	19	39	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9987029--9987092	22	3.0	22	68	22	55	21	18	17	42	1.89
9987286--9987408	20	6.1	20	87	1	174	22	19	21	36	1.95
9987469--9987671	93	2.2	93	81	6	232	36	14	18	29	1.91
9991794--9992139	170	2.0	171	99	0	685	27	29	21	21	1.99
9992287--9992356	32	2.2	32	86	0	95	22	31	27	18	1.97
9992391--9992586	96	2.1	95	86	0	266	42	17	13	26	1.87
10004251--10004362	55	2.0	55	100	0	224	16	25	27	31	1.96
10007492--10007651	81	2.0	82	97	2	304	30	21	11	36	1.88
10009549--10009583	17	2.1	18	89	10	56	48	0	28	22	1.51
10010450--10010642	79	2.4	79	92	0	323	33	21	18	26	1.96
10010529--10010774	116	2.1	116	94	0	429	33	21	17	26	1.96
10010413--10010773	195	1.9	194	91	1	598	33	21	17	27	1.96
10010743--10010805	31	2.0	31	87	0	90	38	19	12	30	1.89
10010606--10010968	36	9.9	36	74	9	263	34	21	18	25	1.96
10010971--10011466	55	9.1	55	85	4	589	34	18	23	22	1.96
10010971--10011466	163	3.0	164	82	6	600	34	18	23	22	1.96
10010969--10011486	54	9.5	54	84	5	575	34	19	23	22	1.97
10014501--10014551	22	2.3	22	80	6	59	41	1	1	54	1.22
10017876--10017907	10	3.1	11	86	13	50	15	9	0	75	1.05
10019753--10019816	7	9.3	7	71	10	51	78	4	14	3	1.04
10019781--10019821	20	2.0	21	85	9	57	80	4	9	4	1.00
10021549--10021837	36	8.1	36	79	10	301	26	20	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10021550--10021808	138	1.9	137	89	4	405	26	19	13	40	1.89
10021679--10021837	73	2.2	73	83	5	189	25	20	15	39	1.91
10021679--10021837	37	4.4	37	84	4	155	25	20	15	39	1.91
10021824--10021937	30	3.5	33	82	13	157	42	18	7	31	1.79
10023987--10024056	26	3.0	22	70	25	63	17	11	1	70	1.24
10028327--10028628	154	2.0	148	95	3	541	25	24	17	32	1.96
10031373--10031416	19	2.4	18	85	11	54	72	4	6	15	1.22
10032145--10032218	21	3.6	21	74	3	87	21	17	27	33	1.96
10032141--10032238	41	2.4	41	96	0	178	19	18	24	37	1.94
10032166--10032266	20	4.9	20	75	9	87	15	19	22	41	1.90
10032207--10032264	22	2.8	21	87	10	75	10	20	22	46	1.81
10032864--10032895	5	6.6	5	96	3	57	0	40	21	37	1.54
10032892--10032922	6	5.2	6	100	0	62	0	16	48	35	1.46
10032998--10033063	19	3.3	19	70	12	60	42	21	18	18	1.89
10033013--10033084	22	3.4	22	71	11	78	37	26	19	16	1.93
10032998--10033104	41	2.6	41	89	4	162	42	23	18	15	1.89
10033076--10033271	20	9.6	20	76	4	142	39	23	19	17	1.92
10033073--10033293	21	10.8	21	76	3	164	38	23	18	19	1.93
10033073--10033296	41	5.5	41	85	1	297	38	23	18	19	1.93
10033050--10033230	62	3.0	60	77	7	202	39	24	19	16	1.91
10033032--10033296	123	2.1	123	82	5	313	38	23	18	18	1.93
10035856--10035896	18	2.3	18	91	4	66	63	2	4	29	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10036629--10036691	25	2.9	22	78	19	69	33	6	28	31	1.82
10036665--10036701	19	1.9	19	100	0	74	37	5	29	27	1.79
10037174--10037241	21	3.3	21	79	2	75	27	19	16	36	1.93
10037339--10037379	21	2.0	21	85	0	55	36	19	19	24	1.95
10037224--10037467	113	2.1	115	88	6	357	31	16	22	29	1.96
10037430--10037466	19	1.9	19	88	0	56	24	16	27	32	1.96
10045062--10045099	20	1.9	20	88	0	58	28	18	13	39	1.88
10054167--10054204	20	1.9	19	89	5	58	23	15	23	36	1.94
10054213--10054333	64	1.9	64	91	0	197	32	16	9	41	1.81
10058298--10058336	21	1.9	21	89	5	62	17	17	28	35	1.94
10058298--10058336	10	3.8	11	87	12	57	17	17	28	35	1.94
10058299--10058340	9	4.3	10	82	11	52	16	21	28	33	1.95
10058337--10058373	9	4.1	9	86	13	58	24	51	24	0	1.49
10063038--10063458	209	2.0	210	98	0	808	28	15	23	32	1.95
10065782--10065812	7	4.4	7	91	0	53	16	25	29	29	1.96
10072564--10072684	64	1.9	64	89	0	188	29	16	13	40	1.86
10075509--10075573	34	1.9	34	81	12	80	43	1	1	53	1.19
10079689--10079732	15	2.8	16	93	6	72	34	6	4	54	1.47
10079724--10079842	36	3.4	34	78	8	121	41	4	4	50	1.41
10080273--10080310	2	19.5	2	94	5	69	47	0	0	52	1.00
10080347--10080422	26	2.9	26	94	0	134	39	17	0	43	1.49
10081236--10081263	14	2.0	14	100	0	56	28	7	21	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10086114--10086145	15	2.1	15	94	0	55	9	40	0	50	1.35
10086117--10086155	18	2.2	18	85	0	51	15	41	2	41	1.61
10087269--10087486	109	2.0	109	100	0	436	44	16	14	23	1.85
10087556--10087607	22	2.4	22	96	0	95	53	0	25	21	1.45
10088104--10088219	60	1.9	60	84	3	153	36	16	12	35	1.86
10088749--10088774	13	2.0	13	100	0	52	61	15	0	23	1.33
10093074--10093178	31	3.4	31	73	6	104	45	11	6	36	1.67
10095137--10095186	21	2.4	20	76	6	55	24	26	18	32	1.97
10095217--10095289	21	3.5	21	79	3	76	23	21	17	36	1.94
10095279--10095372	20	4.7	20	85	2	134	39	19	21	20	1.93
10095173--10095398	41	5.5	40	70	12	115	33	19	19	27	1.96
10095913--10095972	19	3.1	19	82	2	75	45	18	23	13	1.84
10095940--10095979	19	2.1	19	90	0	62	47	25	17	10	1.78
10096001--10096089	14	5.6	14	68	23	52	11	22	21	44	1.83
10095984--10096138	33	4.5	33	85	6	202	11	22	19	46	1.82
10096075--10096138	20	3.1	21	82	8	78	10	25	17	46	1.80
10096202--10096256	25	2.2	24	78	15	58	20	9	18	52	1.71
10098394--10098460	21	3.2	21	66	6	55	23	35	20	19	1.95
10099802--10099838	14	2.6	14	91	0	65	32	0	21	45	1.52
10099955--10100006	13	3.7	13	77	12	50	51	21	17	9	1.73
10099955--10099993	13	2.9	13	88	3	51	51	23	17	7	1.71
10100005--10100042	19	2.1	19	90	5	60	47	26	13	13	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10100049--10100126	19	4.4	19	76	15	94	12	23	17	46	1.83
10101090--10101139	23	2.0	25	88	11	77	28	12	32	28	1.92
10102174--10102198	12	2.1	12	100	0	50	0	28	0	72	0.86
10102365--10102411	23	2.0	24	87	4	69	38	21	14	25	1.92
10103228--10103363	20	6.7	20	77	7	114	19	19	21	38	1.93
10103175--10103344	41	4.2	40	77	8	137	22	19	24	32	1.97
10103148--10103344	20	9.7	20	80	7	146	23	19	23	32	1.97
10103230--10103346	62	1.9	62	94	0	207	18	19	22	39	1.93
10103353--10103405	21	2.5	22	81	6	74	33	18	26	20	1.96
10114471--10114512	22	1.9	22	95	0	75	11	11	30	45	1.77

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   43   44   45   46   47   48   
          49   50   51