genome.fa.s1129.2.7.7.80.10.50.1000.50.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  50  of  89  ( 10573 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)
11172887--11172987	32	3.2	32	85	1	123	36	21	11	29	1.90
11173906--11174043	69	2.0	69	88	0	204	26	13	20	39	1.90
11175745--11175811	22	3.0	22	100	0	134	26	26	26	19	1.99
11176741--11176775	18	1.9	18	88	11	54	22	17	5	54	1.64
11177360--11177402	21	2.0	21	86	0	59	16	27	27	27	1.97
11180342--11180389	18	2.7	18	80	3	62	72	0	12	14	1.11
11180412--11180495	34	2.4	35	74	16	86	65	4	3	26	1.29
11180489--11180572	22	3.6	21	76	16	62	72	1	4	21	1.10
11180489--11180532	21	2.0	22	86	4	63	75	0	4	20	0.98
11180665--11180704	20	1.9	20	90	10	62	67	0	0	32	0.91
11180664--11180730	23	2.8	22	82	11	62	65	0	5	28	1.16
11184205--11184270	31	2.2	32	81	10	84	39	6	21	33	1.78
11185753--11185804	24	2.2	24	89	0	77	32	1	13	51	1.52
11186636--11186686	22	2.4	22	96	3	95	23	47	0	29	1.52
11186970--11187010	17	2.4	17	95	0	73	56	17	4	21	1.60
11188944--11188995	20	2.6	20	87	0	86	17	19	28	34	1.94
11189026--11189101	20	3.7	20	86	8	100	25	15	27	31	1.96
11194413--11194468	21	2.7	21	97	0	103	21	26	26	25	1.99
11194526--11194735	65	3.2	64	79	13	209	26	18	24	30	1.98
11196006--11196039	17	2.1	16	89	10	52	52	11	14	20	1.73
11198538--11198680	49	2.9	49	84	2	180	40	13	18	26	1.89
11204923--11204978	22	2.6	22	84	13	73	44	14	17	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11213955--11213995	16	2.6	16	92	0	64	43	4	17	34	1.70
11218829--11218895	22	2.8	24	82	15	84	25	29	10	34	1.89
11226245--11226346	34	2.9	36	91	5	172	44	13	14	27	1.83
11226737--11226779	18	2.5	17	85	7	61	25	4	2	67	1.22
11227283--11227318	2	18.0	2	100	0	72	50	0	0	50	1.00
11234608--11234722	60	1.9	60	83	0	149	39	14	11	34	1.82
11244885--11244954	34	2.1	32	89	5	104	21	31	15	31	1.95
11245169--11245208	21	1.9	22	90	10	66	12	10	40	37	1.77
11245237--11245278	21	2.0	21	95	0	75	26	28	21	23	1.99
11245457--11245516	29	2.0	31	90	6	97	41	15	6	36	1.73
11259392--11259436	23	2.0	23	86	0	63	17	24	26	31	1.97
11264436--11264526	23	4.0	23	83	0	119	18	26	25	29	1.98
11268445--11268518	35	2.1	35	92	0	121	22	13	12	51	1.74
11279980--11280017	3	12.7	3	100	0	76	0	31	0	68	0.90
11291127--11291180	22	2.6	21	80	11	67	40	18	12	27	1.87
11291528--11291807	55	5.2	55	85	5	349	34	17	19	27	1.95
11291543--11291809	109	2.5	108	84	7	355	34	18	20	26	1.96
11295660--11295705	22	2.1	22	100	0	92	41	15	8	34	1.78
11296018--11296107	5	18.2	5	74	17	73	58	1	1	38	1.12
11296005--11296107	20	5.2	19	70	26	72	59	0	0	38	1.11
11296005--11296107	25	4.0	25	70	25	79	59	0	0	38	1.11
11296004--11296100	29	3.4	28	74	17	92	59	1	1	38	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11297343--11297507	73	2.3	73	82	4	199	40	9	20	30	1.83
11297386--11297507	35	3.4	34	74	8	91	40	10	21	27	1.86
11298711--11298759	18	2.6	19	84	12	66	30	12	8	48	1.69
11299342--11299556	73	3.0	71	81	3	254	41	11	18	28	1.85
11299342--11299620	144	2.0	141	81	9	325	40	12	17	28	1.87
11300108--11300179	31	2.3	31	100	0	144	33	12	22	31	1.91
11304104--11304145	15	2.9	14	86	6	57	73	0	0	26	0.83
11304516--11304540	13	1.9	13	100	0	50	56	16	8	20	1.65
11304750--11304793	7	6.3	7	97	0	70	0	43	9	47	1.35
11305649--11305682	14	2.3	15	95	5	61	64	2	0	32	1.08
11316305--11316332	2	14.0	2	100	0	56	50	0	0	50	1.00
11318995--11319064	3	23.0	3	86	13	99	32	0	0	67	0.91
11320563--11320838	135	2.0	135	92	4	459	36	7	9	46	1.64
11321297--11321321	7	3.6	7	100	0	50	68	0	0	32	0.90
11321347--11321404	28	2.1	27	84	6	73	32	6	1	58	1.35
11327240--11327803	114	4.9	114	94	0	966	33	13	19	33	1.91
11330346--11330397	22	2.4	22	93	0	86	36	9	17	36	1.82
11331105--11331446	37	9.3	37	77	1	321	32	16	11	39	1.85
11331105--11331464	73	4.9	73	92	1	585	31	16	12	39	1.85
11331105--11331464	147	2.5	147	92	0	596	31	16	12	39	1.85
11331624--11331930	76	4.0	76	96	0	533	23	20	22	34	1.97
11331944--11332561	113	5.3	113	90	2	765	37	15	19	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11332244--11332630	124	3.2	123	89	4	572	41	15	17	25	1.89
11332521--11332678	84	1.9	84	89	2	246	39	15	16	28	1.89
11332963--11333011	3	16.0	3	80	19	57	32	0	0	67	0.91
11332963--11333011	16	3.2	16	81	16	59	32	0	0	67	0.91
11332961--11333007	19	2.5	19	90	10	78	29	0	0	70	0.88
11337859--11337905	2	23.5	2	100	0	94	51	0	0	48	1.00
11337924--11337955	17	1.9	16	93	6	55	31	0	3	65	1.08
11358369--11358518	74	2.0	74	96	0	273	27	17	22	33	1.96
11362587--11362645	21	2.6	24	82	15	81	47	20	15	16	1.83
11372805--11372924	60	2.0	58	80	6	134	41	16	5	36	1.70
11372800--11372969	88	1.9	86	82	8	209	45	17	4	32	1.67
11373294--11373367	26	2.8	26	89	0	103	47	12	9	31	1.73
11374674--11374751	31	2.6	28	75	15	77	34	21	5	38	1.76
11398168--11398197	16	1.9	15	93	6	51	50	0	3	46	1.18
11403188--11403217	16	1.9	15	93	6	51	50	0	3	46	1.18
11407238--11407429	59	3.3	58	76	10	194	31	17	20	30	1.96
11407259--11407436	58	3.1	58	76	8	182	31	17	20	30	1.96
11407186--11407436	117	2.1	117	83	2	317	31	17	20	30	1.96
11411009--11411055	20	2.4	20	85	3	60	38	2	25	34	1.68
11412484--11412670	59	3.2	59	77	6	209	29	14	25	31	1.95
11412470--11412720	117	2.1	117	83	4	319	28	15	23	32	1.95
11413167--11413196	16	1.9	15	93	6	51	50	0	3	46	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11421303--11421335	17	1.9	17	100	0	66	30	18	12	39	1.87
11430546--11430583	16	2.4	16	90	0	58	15	0	26	57	1.38
11431279--11431434	65	2.4	66	82	3	190	29	20	18	31	1.96
11440762--11440841	26	3.1	26	96	0	151	33	30	15	21	1.94
11444700--11444876	96	1.8	96	87	0	264	39	12	20	27	1.88
11445252--11445464	45	4.7	45	78	8	218	43	11	21	23	1.85
11445252--11445465	90	2.4	90	83	3	270	43	11	21	22	1.85
11445307--11445484	90	2.0	90	80	4	198	44	11	20	23	1.83
11451746--11451776	15	2.1	15	100	0	62	35	6	38	19	1.77
11452182--11452431	45	5.5	45	84	3	315	46	12	20	22	1.83
11452173--11452430	135	1.9	135	84	1	347	46	11	20	21	1.82
11460098--11460131	9	3.8	9	88	11	52	44	0	0	55	0.99
11464935--11464985	9	6.2	8	77	20	52	64	0	25	9	1.24
11470645--11470797	37	4.1	37	84	8	195	40	20	20	18	1.92
11470645--11470797	73	2.1	75	86	8	215	40	20	20	18	1.92
11470835--11471352	214	2.4	215	92	0	849	33	17	17	31	1.93
11471256--11471435	42	4.3	42	72	6	143	26	23	20	30	1.98
11471298--11471435	41	3.3	41	80	2	186	24	23	22	29	1.99
11471251--11471435	83	2.2	83	95	0	325	27	22	20	30	1.98
11471037--11471917	298	3.0	298	91	1	1381	31	17	19	31	1.95
11471549--11471733	42	4.5	42	74	12	159	25	22	22	30	1.99
11471549--11471733	83	2.2	83	92	0	307	25	22	22	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11472250--11472289	9	4.6	9	84	6	55	42	0	0	57	0.98
11478802--11479233	54	8.0	55	80	8	363	33	9	14	42	1.78
11478802--11479267	109	4.3	108	77	8	392	33	9	15	41	1.80
11479041--11479169	52	2.4	52	90	5	195	32	9	13	44	1.75
11479331--11479423	42	2.2	42	88	0	141	23	18	18	39	1.92
11481360--11481401	2	21.0	2	100	0	84	50	0	0	50	1.00
11482381--11482430	23	2.2	23	88	0	73	38	8	20	34	1.82
11482344--11482506	87	1.9	87	94	2	292	42	11	12	33	1.79
11482501--11483203	198	3.5	198	87	3	923	30	15	15	38	1.88
11485944--11486049	19	5.6	19	91	0	167	52	12	4	30	1.59

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89