genome.fa.s1279.2.7.7.80.10.50.1000.28.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

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  ( 3433 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)
6510471--6510685	103	2.1	103	94	0	376	36	23	12	26	1.91
6511227--6511269	21	2.0	21	86	0	59	16	23	30	30	1.96
6517329--6517392	23	2.8	22	88	4	92	26	26	23	23	2.00
6517408--6517625	103	2.1	103	97	0	409	36	24	13	25	1.92
6521399--6521465	34	1.9	35	93	3	118	50	8	1	38	1.43
6523715--6523752	17	2.2	18	90	4	60	21	5	0	73	1.02
6526239--6526349	24	4.8	23	75	5	91	29	24	26	19	1.99
6526884--6526939	22	2.5	22	91	5	87	14	26	19	39	1.90
6529896--6530264	131	2.8	131	81	3	388	31	11	16	40	1.83
6541405--6541441	19	2.0	19	94	5	67	32	16	29	21	1.95
6542154--6542231	21	3.8	21	77	12	81	24	15	21	38	1.92
6542158--6542231	19	3.6	19	74	13	67	22	14	22	39	1.91
6542242--6542287	20	2.2	21	84	7	58	21	15	23	39	1.92
6542276--6542328	23	2.4	22	84	12	72	18	20	18	41	1.91
6546480--6546562	29	2.8	29	92	1	139	42	13	13	31	1.82
6551243--6551325	29	2.8	29	94	1	148	40	13	14	31	1.84
6556153--6556185	14	2.4	14	100	0	66	42	0	0	57	0.98
6556749--6556785	18	2.1	18	89	0	56	54	0	5	40	1.24
6560198--6560238	10	4.1	10	84	12	57	31	29	0	39	1.57
6560348--6560568	110	2.0	111	91	0	363	36	9	9	45	1.67
6562079--6562115	18	2.1	18	100	0	74	27	29	21	21	1.99
6566228--6566340	51	2.3	51	87	3	176	30	22	23	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6566364--6566491	51	2.5	50	86	3	168	17	32	33	15	1.92
6578644--6578683	21	1.9	21	90	10	64	55	0	7	37	1.29
6582466--6582547	23	3.7	23	78	12	73	28	28	24	19	1.99
6583777--6583838	18	3.0	21	75	18	67	30	25	19	24	1.98
6594042--6594098	21	2.7	21	91	0	87	26	29	19	24	1.98
6595240--6595265	12	2.2	12	100	0	52	50	15	0	34	1.45
6597544--6597631	2	44.0	2	97	0	158	47	0	2	50	1.13
6597862--6597915	25	2.2	25	83	6	65	48	1	0	50	1.11
6597868--6597921	19	2.7	20	78	21	60	50	3	0	46	1.19
6598180--6598313	72	1.9	72	91	0	223	54	3	9	32	1.51
6598296--6598331	3	12.0	3	100	0	72	66	0	0	33	0.92
6606843--6607204	186	1.9	186	96	0	661	40	2	9	46	1.51
6613988--6614074	35	2.5	34	80	12	97	54	10	8	27	1.62
6614309--6614346	3	12.7	3	94	0	67	2	34	28	34	1.71
6616400--6616436	18	2.1	17	90	5	56	64	2	2	29	1.21
6616399--6616439	17	2.4	18	84	8	59	60	4	2	31	1.30
6616477--6616507	10	3.1	10	95	0	53	35	0	32	32	1.58
6620094--6620143	26	1.9	26	91	0	82	6	26	0	68	1.13
6620094--6620156	26	2.5	25	76	20	69	7	26	0	65	1.20
6623095--6623130	17	2.1	17	100	0	72	0	13	22	63	1.29
6624442--6624509	35	1.9	35	87	0	100	45	19	0	35	1.50
6624505--6624579	35	2.1	35	85	0	105	36	0	21	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6625060--6625407	123	2.9	116	80	9	385	38	6	7	47	1.57
6628647--6628701	21	2.6	21	100	0	110	45	21	10	21	1.82
6630090--6630135	20	2.3	20	88	3	67	39	26	0	34	1.57
6631948--6631978	15	2.1	15	93	0	53	54	0	0	45	0.99
6641548--6641596	25	2.0	25	100	0	98	32	14	40	12	1.83
6642466--6643633	582	2.0	585	95	0	2099	31	13	21	34	1.91
6645227--6645252	13	2.0	13	100	0	52	53	0	0	46	1.00
6645231--6645284	24	2.2	24	83	6	65	40	5	1	51	1.36
6645361--6645392	16	2.0	16	100	0	64	43	18	0	37	1.51
6645353--6645409	26	2.1	27	90	3	89	47	14	1	36	1.54
6647030--6647227	84	2.4	84	90	0	306	14	14	14	57	1.67
6649293--6649340	24	2.0	24	100	0	96	4	37	8	50	1.52
6652310--6652386	40	2.0	38	82	5	91	28	19	19	32	1.96
6657488--6657540	18	2.9	18	74	0	61	37	28	15	18	1.91
6664171--6664235	29	2.3	29	86	2	87	38	9	12	40	1.75
6664187--6664275	29	3.0	29	87	6	133	37	15	10	37	1.82
6664187--6664278	31	3.0	31	90	3	143	35	16	9	38	1.82
6670573--6670740	87	1.9	87	98	0	327	53	13	7	25	1.66
6673425--6673463	15	2.6	15	87	0	60	25	35	5	33	1.78
6687376--6687439	33	1.9	33	96	0	119	21	9	26	42	1.83
6687768--6687818	19	2.8	19	70	5	52	60	0	0	39	0.97
6688415--6688494	42	1.9	42	100	0	160	31	0	22	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6690869--6690910	21	2.0	21	100	0	84	28	19	19	33	1.96
6691879--6691933	21	2.6	21	94	0	92	40	12	21	25	1.89
6699562--6699642	37	2.2	38	80	13	96	50	3	1	44	1.27
6709123--6709167	19	2.4	19	85	10	58	28	24	17	28	1.97
6711610--6711637	5	5.6	5	100	0	56	39	21	0	39	1.54
6712665--6712728	24	2.8	23	75	17	71	25	29	15	29	1.96
6726869--6726912	21	2.1	21	100	0	88	52	9	4	34	1.54
6728946--6729021	21	3.7	21	89	1	118	17	35	19	27	1.94
6732267--6732324	30	1.9	30	96	0	107	31	3	18	46	1.66
6732396--6732495	21	4.8	21	100	0	200	20	37	19	24	1.94
6732406--6732493	13	7.9	13	65	33	62	19	37	19	23	1.94
6732558--6732633	21	3.7	21	91	1	118	18	32	19	28	1.96
6733587--6733707	64	1.9	63	83	8	156	24	21	18	35	1.95
6739515--6739814	51	5.6	55	82	11	313	30	24	16	29	1.96
6739515--6739825	111	2.9	106	82	10	352	30	23	15	29	1.96
6739829--6739900	37	2.0	36	91	2	117	20	20	20	37	1.95
6741177--6741219	7	5.7	7	81	13	50	9	13	0	76	1.01
6741176--6741336	15	10.1	15	68	21	64	9	15	0	73	1.12
6741168--6741206	17	2.2	18	95	4	71	5	17	0	76	0.96
6741194--6741219	7	3.7	7	100	0	52	11	11	0	76	1.01
6741177--6741263	33	2.7	34	81	13	87	9	16	1	73	1.14
6741198--6741298	53	1.9	52	88	7	152	9	16	0	72	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6741201--6741275	18	4.4	17	71	20	57	10	16	1	72	1.19
6741256--6741324	35	2.0	35	82	5	86	11	14	0	73	1.09
6745322--6745356	17	2.1	17	88	0	52	8	34	11	45	1.71
6750823--6750911	45	1.9	47	93	4	155	37	23	11	28	1.89
6760700--6760873	94	1.9	94	96	0	321	37	14	25	21	1.92
6770533--6770682	74	2.0	73	96	1	273	38	10	15	36	1.81
6776663--6776790	59	2.2	59	79	10	136	32	12	5	49	1.64
6778648--6778690	20	2.3	19	88	11	70	23	30	9	37	1.86
6778653--6778690	20	1.9	20	100	0	76	23	28	10	36	1.88
6782928--6783077	72	2.1	72	91	0	237	38	12	25	24	1.90
6787678--6787793	37	3.2	37	87	4	164	35	23	16	25	1.95
6788178--6788688	54	9.5	54	94	0	869	36	18	26	19	1.95
6788690--6789083	55	7.3	55	89	5	515	27	16	27	28	1.97
6797306--6797529	38	5.7	41	72	15	113	44	5	1	48	1.36
6797353--6797402	26	1.9	26	83	0	64	46	10	0	44	1.37
6797328--6797725	37	11.0	36	78	14	326	45	5	2	46	1.41
6797541--6797601	25	2.3	27	86	10	83	47	6	3	42	1.45
6797439--6797702	139	1.9	138	89	6	408	45	5	3	45	1.44
6797499--6797640	65	2.2	64	86	9	202	45	6	4	44	1.48
6797751--6797782	2	16.5	2	93	6	57	50	0	0	50	1.00
6798312--6798352	19	2.2	19	90	0	64	21	14	26	36	1.93
6799220--6799250	15	2.1	15	100	0	62	48	0	32	19	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6802894--6802943	22	2.3	22	92	0	82	24	0	8	68	1.16
6804402--6804472	35	2.0	35	94	0	124	19	19	15	45	1.86
6818958--6819009	2	26.0	2	100	0	104	50	0	0	50	1.00
6819061--6819275	95	2.2	95	84	4	272	26	24	16	33	1.96
6821045--6821069	10	2.5	10	100	0	50	32	40	0	28	1.57
6826476--6826525	18	2.8	17	79	8	55	18	18	28	36	1.94
6828411--6828464	27	2.0	27	100	0	108	25	7	25	40	1.82
6828814--6828967	65	2.4	65	88	0	236	27	21	19	31	1.97
6829938--6829980	20	2.2	20	86	0	59	32	9	20	37	1.85
6831323--6831374	18	2.8	18	72	16	52	28	34	5	30	1.81

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