genome.fa.s8027.2.7.7.80.10.50.1000.29.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  29  of  38  ( 4505 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)
5944667--5944714	17	2.8	18	81	9	64	10	8	4	77	1.12
5946923--5947001	4	19.5	4	75	21	67	73	2	2	21	1.07
5946949--5947001	17	3.1	17	86	8	72	75	1	0	22	0.90
5948924--5949012	34	2.6	34	80	0	97	42	16	14	25	1.87
5949001--5949051	22	2.3	22	100	0	102	50	15	13	19	1.77
5950137--5950227	20	4.5	20	74	10	78	32	25	10	30	1.90
5950116--5950227	41	2.8	39	76	12	111	32	25	12	30	1.92
5950200--5950276	40	1.9	40	84	5	102	25	18	14	41	1.88
5950193--5950267	20	3.8	20	71	11	64	26	18	13	41	1.87
5950177--5950287	40	2.7	39	74	9	98	30	18	12	37	1.88
5951073--5951106	12	2.8	12	90	0	50	55	29	0	14	1.40
5951952--5951990	19	2.1	19	100	0	78	25	23	20	30	1.98
5953842--5953936	49	1.9	49	82	0	118	36	12	21	29	1.90
5955487--5955599	21	5.4	21	83	0	145	19	22	38	20	1.94
5955487--5955599	42	2.7	42	94	0	199	19	22	38	20	1.94
5955999--5956045	21	2.2	21	88	0	67	31	36	14	17	1.90
5957604--5957650	20	2.4	20	92	3	78	48	23	14	12	1.78
5957657--5957695	20	2.0	20	100	0	78	15	12	20	51	1.76
5957659--5957702	20	2.2	20	91	0	70	15	13	20	50	1.78
5958036--5958090	22	2.5	22	90	0	92	16	18	45	20	1.86
5958494--5958540	24	1.9	25	83	12	62	40	6	19	34	1.77
5959066--5959094	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5959086--5959379	37	8.2	38	75	14	209	43	4	6	45	1.51
5959243--5959305	29	2.2	29	88	0	90	44	6	6	42	1.55
5959206--5959335	67	2.0	64	87	4	188	41	4	7	46	1.53
5961909--5961941	17	1.9	17	93	0	57	6	12	9	72	1.26
5962562--5962606	19	2.4	19	92	3	74	11	13	8	66	1.44
5965989--5966583	84	7.2	82	78	7	578	30	25	21	23	1.99
5966008--5966672	165	4.0	165	84	2	868	30	24	20	23	1.98
5967222--5967515	37	8.2	38	75	14	209	43	4	6	45	1.51
5967379--5967441	29	2.2	29	88	0	90	44	6	6	42	1.55
5967342--5967471	67	2.0	64	87	4	188	41	4	7	46	1.53
5968535--5968574	19	2.1	19	100	0	80	20	20	35	25	1.96
5968539--5968580	19	2.2	19	91	0	66	16	26	40	16	1.90
5984018--5984070	2	26.5	2	100	0	106	49	0	0	50	1.00
5984241--5984285	23	2.0	23	86	0	63	57	8	2	31	1.41
5988585--5988615	16	1.9	16	93	0	53	29	12	3	54	1.53
5997930--5997964	10	3.4	10	92	4	52	28	31	22	17	1.96
5998568--5998620	20	2.7	20	96	0	97	67	5	0	26	1.12
6001296--6001331	12	3.0	12	100	0	72	41	25	16	16	1.89
6005339--6005397	19	2.8	22	78	19	72	40	0	1	57	1.09
6005339--6005470	21	6.4	21	66	21	75	46	0	3	50	1.22
6005370--6005470	42	2.4	41	85	12	127	48	0	2	47	1.23
6005601--6005634	16	2.1	16	94	0	59	52	26	11	8	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6005698--6005740	10	4.7	10	78	21	58	58	20	11	9	1.61
6005702--6005734	16	2.1	16	100	0	66	57	24	12	6	1.57
6006842--6006873	14	2.3	14	100	0	64	50	28	15	6	1.68
6006825--6006858	10	3.4	10	95	0	59	55	23	11	8	1.63
6014977--6015005	8	3.6	8	100	0	58	31	0	0	68	0.89
6015150--6015225	28	2.7	28	76	8	73	32	3	17	46	1.66
6015592--6015668	31	2.5	31	84	0	109	27	11	15	45	1.81
6016670--6016825	65	2.4	63	91	5	235	29	19	23	28	1.98
6019456--6019534	23	3.5	23	77	10	83	27	22	22	26	1.99
6022586--6022621	18	2.0	18	94	0	63	22	47	11	19	1.80
6026587--6026742	65	2.4	64	89	5	235	30	18	23	28	1.98
6027272--6027348	31	2.5	31	83	8	111	25	9	14	50	1.72
6027729--6027821	39	2.4	39	78	12	109	36	17	1	45	1.56
6027871--6027921	26	2.0	26	81	11	61	37	1	0	60	1.08
6028111--6028177	25	2.6	26	80	7	82	41	4	2	50	1.37
6031189--6031227	19	2.0	20	95	5	71	51	5	7	35	1.53
6031321--6031360	19	2.1	19	86	9	55	40	7	5	47	1.54
6035751--6035829	30	2.6	30	79	0	95	16	10	16	56	1.65
6038013--6038054	23	1.9	21	85	9	57	4	28	0	66	1.12
6041480--6041589	31	3.6	31	82	2	134	43	8	7	40	1.62
6041659--6041700	20	2.0	21	90	4	68	35	9	7	47	1.64
6044292--6044321	11	2.7	11	94	0	51	20	0	33	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6053278--6053310	16	2.1	16	100	0	66	57	24	12	6	1.57
6053372--6053443	23	3.1	23	89	2	108	59	18	11	11	1.59
6053698--6053726	14	2.1	14	100	0	58	55	17	13	13	1.70
6057676--6057713	20	1.9	20	88	0	58	13	26	36	23	1.91
6076252--6076337	42	2.0	42	97	0	163	27	23	11	37	1.89
6080146--6080268	60	2.0	60	82	0	147	34	14	16	34	1.89
6081975--6082015	21	1.9	22	90	5	66	39	17	19	24	1.92
6092717--6092743	14	1.9	14	100	0	54	37	22	11	29	1.89
6098086--6098144	18	3.3	18	80	4	75	0	45	5	49	1.24
6098093--6098196	18	5.9	18	78	6	106	2	47	4	45	1.39
6098114--6098162	21	2.3	21	85	0	62	4	48	2	44	1.33
6098153--6098202	15	3.3	15	74	20	50	4	48	4	44	1.40
6109939--6110064	47	2.8	45	85	5	164	39	7	22	30	1.82
6111343--6111416	3	24.3	3	91	2	121	66	0	2	31	1.06
6111721--6112136	47	9.0	47	84	6	423	27	19	22	30	1.98
6111721--6112174	95	5.0	94	86	5	510	28	19	22	29	1.98
6111739--6112180	132	3.2	134	86	5	577	28	19	22	29	1.98
6113266--6113373	54	2.0	54	90	3	173	25	22	13	37	1.91
6113634--6113881	75	3.3	75	84	2	293	30	22	14	31	1.94
6113782--6114158	193	1.9	193	87	1	540	29	21	15	33	1.94
6114129--6114229	41	2.4	41	79	11	107	28	21	15	33	1.95
6114703--6114758	21	2.7	21	97	0	103	42	10	16	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6115601--6115632	9	3.4	10	87	12	50	34	0	15	50	1.45
6115803--6115834	2	16.0	2	100	0	64	50	0	0	50	1.00
6118907--6118964	3	19.3	3	92	0	98	62	0	0	37	0.96
6122483--6122523	14	2.9	14	88	0	64	58	7	12	21	1.58
6124732--6124785	23	2.3	24	96	3	101	42	0	9	48	1.35
6124894--6124923	11	2.8	11	95	5	53	20	33	26	20	1.97
6125978--6126019	12	3.6	12	93	3	68	66	7	2	23	1.28
6127446--6127562	21	5.4	21	67	22	62	47	4	6	41	1.50
6127473--6127537	15	4.3	15	71	17	55	49	3	4	43	1.39
6127584--6127674	20	4.5	22	74	20	83	42	4	7	45	1.52
6127584--6127706	61	2.1	58	80	11	135	43	7	7	42	1.60
6127625--6127669	17	2.5	17	89	7	63	42	4	6	46	1.50
6127644--6127683	20	2.0	20	90	0	62	40	10	5	45	1.60
6127963--6127996	13	2.6	13	95	0	59	41	0	8	50	1.34
6127948--6127985	19	2.0	19	94	0	67	42	0	7	50	1.31
6127978--6128017	20	2.0	20	90	0	62	40	10	5	45	1.60
6127642--6128270	334	1.9	335	93	1	1093	37	7	10	45	1.66
6128258--6128603	2	177.0	2	65	22	123	45	4	2	46	1.38
6128289--6128569	103	2.5	112	79	13	307	45	4	2	46	1.39
6128298--6128511	103	2.0	107	87	3	310	44	5	2	46	1.41
6128467--6128603	13	10.2	13	76	12	91	45	2	3	47	1.35
6128523--6128660	28	4.8	30	71	20	107	46	2	1	49	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6128480--6128617	26	5.2	26	72	16	88	46	2	2	47	1.32
6128587--6128641	21	2.7	19	79	20	58	45	3	1	49	1.30
6128627--6128659	9	3.8	9	88	8	50	36	6	3	54	1.41
6128758--6128814	13	4.1	13	72	16	51	50	5	0	43	1.24
6128858--6128913	2	29.0	2	83	7	62	41	1	1	55	1.21
6130954--6131013	31	1.9	31	96	0	111	41	6	8	43	1.61
6135978--6136018	20	2.1	19	90	4	64	14	41	21	21	1.89
6138497--6138584	24	3.7	24	87	0	122	20	13	18	47	1.82
6138497--6138589	12	7.8	12	70	9	64	19	13	18	48	1.81
6138500--6138591	48	1.9	48	88	0	139	19	14	17	48	1.80

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