genome.fa.s8527.2.7.7.80.10.50.1000.26.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  26  of  37  ( 4336 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)
6309229--6309271	22	2.0	22	82	13	54	41	23	6	27	1.80
6311970--6311997	4	7.0	4	100	0	56	50	0	25	25	1.50
6316186--6316227	22	1.9	22	90	0	66	42	0	45	11	1.41
6324886--6325009	19	6.2	19	84	10	149	34	5	27	32	1.80
6325404--6325528	40	3.2	40	78	15	141	37	18	18	25	1.93
6325624--6325678	20	2.7	21	73	15	62	27	18	27	27	1.98
6338608--6338676	23	3.0	23	73	0	66	21	20	23	34	1.96
6343658--6343938	141	2.0	141	100	0	562	37	18	9	33	1.84
6353368--6353416	20	2.5	20	96	0	89	38	16	24	20	1.92
6357433--6357461	15	1.9	15	100	0	58	34	34	13	17	1.89
6358995--6359043	19	2.6	18	78	9	53	38	2	2	57	1.22
6359001--6359054	29	1.9	27	82	14	65	42	3	1	51	1.30
6359583--6359632	24	2.0	25	81	11	59	38	2	4	56	1.30
6363058--6363228	57	2.9	58	86	4	220	23	30	15	30	1.95
6367643--6367680	13	2.9	13	100	0	76	15	47	15	21	1.82
6370165--6370254	23	3.8	23	89	1	117	26	13	21	38	1.90
6370179--6370254	24	3.2	24	92	1	127	27	14	21	36	1.92
6372568--6372609	18	2.3	18	84	8	50	64	0	0	35	0.94
6374281--6374341	23	2.7	23	77	7	63	42	4	0	52	1.23
6374650--6374687	19	2.0	19	85	10	51	60	7	0	31	1.25
6388092--6388131	20	2.0	20	100	0	80	15	15	30	40	1.87
6388484--6388518	17	2.0	18	88	5	54	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6393467--6393589	7	17.6	7	100	0	246	14	28	0	56	1.38
6397804--6397841	19	2.0	20	84	5	51	36	5	2	55	1.37
6406580--6406637	23	2.5	23	91	0	89	20	27	24	27	1.99
6408862--6408899	2	19.0	2	100	0	76	50	0	0	50	1.00
6410969--6411042	2	37.0	2	100	0	148	50	0	0	50	1.00
6415946--6415972	6	4.5	6	100	0	54	0	33	0	66	0.92
6415946--6415978	12	3.0	11	91	8	50	0	33	0	66	0.92
6416209--6416448	5	48.0	5	96	0	390	24	0	15	60	1.36
6426504--6426528	5	5.0	5	100	0	50	40	0	20	40	1.52
6434300--6434384	27	3.1	27	98	0	161	34	22	15	28	1.94
6435742--6435787	23	2.0	24	86	4	67	32	4	2	60	1.28
6435741--6435801	24	2.5	23	76	10	59	27	4	1	65	1.22
6448351--6448404	20	2.7	20	76	0	63	33	29	16	20	1.95
6448413--6448465	21	2.5	21	78	0	61	22	26	16	33	1.96
6451982--6452015	14	2.4	14	90	0	50	47	17	20	14	1.83
6451933--6452033	34	3.0	33	80	2	112	42	19	20	16	1.89
6452020--6452098	33	2.4	33	91	0	122	43	15	25	16	1.87
6452104--6452169	19	3.7	19	76	19	79	12	24	19	43	1.85
6452276--6452309	14	2.4	14	90	0	50	47	17	0	35	1.48
6452285--6452311	14	1.9	14	100	0	54	37	22	0	40	1.54
6453663--6453727	21	3.1	21	66	4	51	20	20	36	23	1.95
6453700--6453779	42	1.9	42	84	0	106	22	17	38	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6454118--6454497	94	4.1	94	93	1	629	47	18	11	22	1.80
6456212--6456262	19	2.7	19	96	0	93	45	21	21	11	1.84
6456289--6456361	21	3.5	21	83	7	87	12	16	19	52	1.75
6456898--6457110	20	10.5	20	78	7	214	19	18	24	37	1.94
6456898--6457171	20	13.6	20	74	6	122	18	18	24	38	1.93
6456896--6457171	81	3.4	82	80	9	300	18	18	24	38	1.93
6456895--6457171	40	6.8	40	81	9	260	19	18	24	38	1.93
6457217--6457283	20	3.3	20	89	2	80	19	20	22	37	1.95
6457230--6457283	20	2.7	20	94	0	90	20	20	24	35	1.96
6457273--6457325	21	2.5	21	81	0	61	33	16	26	22	1.96
6470012--6470052	6	6.8	6	94	0	64	43	0	4	51	1.23
6470078--6470139	25	2.4	26	81	10	74	45	3	3	48	1.34
6471153--6471238	42	2.0	42	82	10	104	26	9	24	39	1.85
6497098--6497263	60	2.8	61	84	6	205	43	6	19	31	1.75
6498799--6498834	19	1.9	18	88	5	54	13	19	5	61	1.52
6504627--6504680	26	2.1	26	100	0	108	33	11	3	51	1.55
6514500--6514566	34	1.9	34	82	14	84	20	13	19	46	1.83
6529140--6529181	19	2.2	20	86	4	59	38	0	4	57	1.20
6539091--6539138	14	3.3	14	75	11	51	41	2	2	54	1.24
6539088--6539138	16	3.4	15	76	7	50	43	1	1	52	1.23
6539355--6539385	10	3.0	10	95	4	53	19	0	3	77	0.90
6541419--6541456	8	5.0	8	87	9	53	52	7	0	39	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6541361--6541768	203	2.0	201	98	1	782	58	3	7	30	1.44
6541622--6541659	8	5.0	8	87	9	53	52	7	0	39	1.31
6543140--6543700	105	5.4	104	93	2	898	22	17	26	33	1.96
6544496--6544520	1	25.0	1	100	0	50	0	0	0	100	0.00
6555322--6555359	8	5.0	8	87	9	53	52	7	0	39	1.31
6555264--6555674	207	2.0	200	96	3	759	58	3	7	30	1.43
6563468--6563505	3	12.7	3	100	0	76	34	0	0	65	0.93
6575603--6575653	25	2.0	25	100	0	102	19	27	11	41	1.86
6595969--6596061	45	2.1	45	89	0	141	36	7	16	39	1.77
6597237--6597280	15	2.6	17	79	17	56	29	36	20	13	1.91
6597249--6597282	15	2.3	15	100	0	68	35	32	17	14	1.91
6597363--6597448	29	3.0	29	93	3	138	18	20	15	45	1.85
6597825--6597981	64	2.5	63	78	12	169	26	19	19	35	1.95
6605022--6605086	32	2.0	32	93	0	112	13	29	27	29	1.95
6605072--6605115	23	1.9	23	100	0	88	22	22	27	27	1.99
6605533--6605594	28	2.1	30	94	5	110	30	0	12	56	1.37
6605877--6605921	21	2.2	21	84	4	56	35	0	8	55	1.31
6609086--6609188	35	3.2	35	63	30	93	42	0	12	44	1.42
6609086--6609478	49	7.2	49	83	14	336	41	0	12	45	1.46
6609079--6609479	60	7.1	59	89	7	522	41	0	12	45	1.46
6609086--6609426	109	3.1	105	79	16	390	41	0	12	45	1.47
6609290--6609436	10	14.7	10	69	23	53	41	1	13	43	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6609349--6609437	21	4.4	20	66	17	67	41	0	14	43	1.45
6609241--6609479	119	2.0	119	93	1	408	40	0	12	46	1.47
6609436--6609479	21	2.0	22	83	12	56	38	0	6	54	1.27
6609456--6609493	14	2.7	14	95	0	67	34	0	15	50	1.45
6609241--6609479	59	4.0	60	94	1	410	40	0	12	46	1.47
6612041--6612081	22	1.9	21	85	5	55	53	19	0	26	1.45
6612227--6612284	26	2.3	26	90	3	91	6	36	8	48	1.61
6612330--6612396	33	2.0	33	100	0	134	26	29	11	31	1.92
6612554--6612630	29	2.7	29	89	0	118	14	22	38	24	1.91
6615525--6615620	38	2.5	38	94	0	165	43	14	7	34	1.73
6619375--6619448	35	2.1	35	94	0	130	45	21	18	13	1.84
6623393--6623527	20	6.7	20	78	7	112	34	24	17	24	1.96
6623373--6623527	61	2.6	61	81	1	186	35	23	17	23	1.95
6624197--6624251	25	2.2	24	78	15	58	20	9	18	52	1.71
6625380--6625424	18	2.5	18	88	0	72	26	44	15	13	1.83
6625916--6625960	20	2.3	20	84	3	65	40	20	22	17	1.92
6625960--6626017	14	3.9	14	77	16	62	50	24	15	10	1.75
6625944--6626030	32	2.7	33	90	3	140	49	21	16	12	1.78
6626046--6626171	19	6.9	18	79	13	98	12	21	22	43	1.86
6626051--6626113	33	1.9	33	93	3	110	11	19	22	47	1.80
6626083--6626169	19	4.5	19	86	4	102	13	22	22	40	1.90
6626095--6626169	39	1.9	39	86	5	107	14	24	22	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6626046--6626172	52	2.3	53	84	12	152	12	21	22	44	1.85
6626046--6626188	20	7.7	19	79	9	127	13	20	22	43	1.87
6626535--6626622	41	2.1	42	85	2	124	21	43	14	20	1.88
6628038--6628073	14	2.6	14	90	0	54	30	0	22	47	1.52
6628210--6628277	19	3.8	19	85	14	101	47	17	22	13	1.82
6628296--6628371	20	3.8	20	72	6	73	17	19	21	42	1.90
6628284--6628387	40	2.9	34	76	15	109	15	22	22	40	1.91
6628585--6628676	20	4.6	20	73	2	76	20	18	21	39	1.93
6629485--6629538	24	2.2	24	93	0	90	22	14	20	42	1.88
6629713--6629737	12	2.1	12	100	0	50	72	0	28	0	0.86

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