genome.fa.s9462.2.7.7.80.10.50.1000.57.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  57  of  91  ( 10815 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)
13036344--13036525	95	1.9	96	86	3	260	31	15	26	26	1.96
13036347--13036568	95	2.3	95	82	3	232	32	14	25	27	1.94
13036839--13036876	18	2.1	18	100	0	76	47	0	21	31	1.51
13037404--13037728	137	2.4	136	88	4	458	32	13	23	30	1.93
13037404--13037728	68	4.8	69	87	3	453	32	13	23	30	1.93
13037678--13038545	81	10.7	81	86	0	1153	36	11	22	29	1.89
13038601--13038628	2	14.0	2	100	0	56	50	0	0	50	1.00
13041897--13042223	162	2.0	163	99	0	647	38	22	12	26	1.90
13049914--13050067	77	2.0	78	86	7	215	41	12	2	43	1.56
13054742--13054784	22	2.0	22	90	0	68	39	9	13	37	1.78
13058167--13058494	98	3.3	96	66	15	229	48	11	5	35	1.61
13058136--13058500	198	1.8	198	91	1	597	46	11	5	36	1.63
13058574--13058617	17	2.5	18	81	7	54	25	13	9	52	1.70
13073943--13073981	19	2.1	19	90	9	62	38	15	25	20	1.92
13077801--13077866	32	2.1	31	82	2	78	62	6	1	30	1.29
13080422--13080541	63	1.9	61	83	3	150	26	23	21	28	1.99
13087783--13087844	2	31.0	2	100	0	124	50	0	0	50	1.00
13092359--13092402	18	2.4	17	82	17	52	56	15	2	25	1.51
13092359--13092402	19	2.3	20	85	14	58	56	15	2	25	1.51
13093555--13093879	55	6.0	55	78	7	283	29	24	16	29	1.96
13093882--13093989	37	2.9	36	87	4	153	21	20	18	39	1.92
13095287--13095426	8	17.6	8	74	24	95	8	14	0	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13095278--13095412	62	2.2	60	84	11	168	8	14	0	77	0.99
13095330--13095425	7	13.7	7	78	16	69	8	13	0	78	0.97
13095315--13095439	60	2.0	61	82	14	152	8	14	0	76	1.00
13095287--13095424	51	2.7	51	80	15	160	8	14	0	76	1.00
13095301--13095425	44	2.7	50	71	23	62	8	14	0	76	1.00
13107263--13107306	18	2.4	17	82	17	52	56	15	2	25	1.51
13107263--13107306	19	2.3	20	85	14	58	56	15	2	25	1.51
13114891--13115076	93	2.0	93	96	0	345	26	17	20	35	1.94
13117216--13117243	2	14.0	2	100	0	56	50	0	0	50	1.00
13116915--13117591	356	2.0	328	87	8	933	45	7	5	41	1.54
13117572--13117614	2	21.5	2	100	0	86	51	0	0	48	1.00
13117662--13117702	18	2.3	18	87	8	57	60	0	2	36	1.10
13118152--13118200	17	3.1	17	71	14	50	51	2	0	46	1.12
13118138--13118200	31	2.0	33	87	6	94	49	4	0	46	1.23
13118201--13118237	19	1.9	19	94	0	65	51	0	5	43	1.24
13128982--13129114	24	5.5	24	84	1	142	21	9	16	52	1.72
13129008--13129114	12	8.9	12	71	8	65	20	10	16	52	1.73
13131292--13131453	63	2.5	64	81	8	188	33	20	19	25	1.96
13132092--13132137	23	2.0	23	83	8	58	19	21	26	32	1.97
13138141--13138302	63	2.5	63	76	8	159	34	19	18	27	1.95
13138893--13138945	23	2.3	23	80	6	54	26	11	18	43	1.84
13138943--13138995	23	2.3	23	90	0	79	20	28	24	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13142116--13142148	17	2.1	17	88	11	52	21	3	6	69	1.24
13144537--13144594	18	3.4	18	72	13	68	68	3	13	13	1.33
13144530--13144612	33	2.5	33	96	0	148	73	2	13	10	1.19
13144555--13144657	33	3.0	35	81	9	88	74	0	12	11	1.12
13144596--13144652	9	6.0	10	76	15	50	80	0	14	5	0.87
13146629--13147426	55	14.6	55	80	4	686	33	9	16	41	1.80
13146629--13147530	55	16.7	54	79	5	554	33	9	16	41	1.80
13147652--13148206	144	3.9	142	81	5	649	27	26	14	30	1.95
13147664--13148184	280	1.9	280	88	3	789	27	26	15	30	1.96
13148240--13148310	22	3.3	22	67	21	60	23	19	25	30	1.98
13148232--13148337	42	2.5	42	89	3	151	22	20	25	31	1.98
13152211--13152253	21	2.0	21	90	0	68	46	13	4	34	1.65
13158219--13158484	45	6.4	44	70	20	178	27	22	12	37	1.90
13158296--13158494	34	5.2	34	70	23	146	26	23	11	38	1.89
13158251--13158494	79	3.1	79	93	0	416	25	22	12	38	1.89
13158996--13159040	20	2.3	20	84	3	56	17	33	15	33	1.92
13162897--13162950	27	2.0	27	88	0	81	27	14	16	40	1.88
13167661--13167716	27	2.0	28	93	3	96	23	16	19	41	1.90
13169564--13169817	138	1.8	138	87	1	375	40	17	13	28	1.87
13175340--13175368	2	14.5	2	100	0	58	51	0	0	48	1.00
13175905--13176160	138	1.9	138	85	3	363	39	16	15	29	1.89
13179051--13179092	21	2.0	20	86	4	57	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13179763--13179795	2	16.5	2	100	0	66	48	0	51	0	1.00
13181118--13181146	10	3.0	10	95	5	51	48	0	0	51	1.00
13183228--13183304	7	11.1	7	75	17	63	64	0	2	32	1.07
13183249--13183391	7	20.1	7	72	23	104	58	3	1	37	1.24
13183251--13183382	52	2.6	52	75	20	136	58	3	0	37	1.22
13183240--13183389	12	13.1	11	72	15	90	58	3	2	36	1.26
13183259--13183391	47	2.9	45	78	6	135	57	3	1	36	1.26
13183237--13183407	56	3.1	52	76	16	157	57	2	2	36	1.29
13184264--13184312	14	3.5	14	84	15	57	55	4	8	32	1.48
13187009--13187138	39	3.3	38	77	11	122	30	22	27	19	1.98
13187077--13187165	39	2.3	39	86	0	115	30	25	28	15	1.96
13187356--13187393	16	2.5	15	87	8	51	50	13	7	28	1.69
13192062--13192223	39	4.2	39	81	3	173	30	22	29	18	1.97
13192060--13192223	78	2.1	78	82	2	195	30	22	28	18	1.97
13193537--13193597	30	2.1	30	78	6	72	40	13	6	39	1.70
13199504--13199560	24	2.4	24	93	0	96	45	19	14	21	1.85
13200343--13200378	16	2.3	15	95	0	54	25	22	11	41	1.86
13200477--13200543	21	3.4	21	71	21	63	50	4	2	41	1.37
13200543--13200618	13	5.3	15	81	13	97	39	5	0	55	1.23
13200543--13200673	28	4.5	28	78	11	129	40	7	0	51	1.30
13201092--13201315	4	56.0	4	100	0	448	25	0	25	50	1.50
13201340--13201423	2	41.5	2	88	7	125	46	2	1	50	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13201729--13201905	2	89.0	2	74	15	136	50	1	3	43	1.30
13201681--13201746	25	2.6	26	73	17	68	42	7	3	46	1.47
13201970--13202013	18	2.3	20	84	7	56	54	2	6	36	1.40
13201937--13202015	22	3.8	20	82	12	63	56	1	7	34	1.35
13202013--13202089	41	1.9	39	84	5	100	49	2	7	40	1.45
13201822--13202097	30	8.7	31	73	19	148	51	1	7	39	1.39
13201956--13202100	41	3.5	40	67	18	93	52	2	7	37	1.42
13202079--13202127	17	2.8	17	80	17	55	57	4	8	30	1.47
13202236--13202291	28	2.1	25	87	9	76	44	12	0	42	1.42
13202249--13202294	10	4.3	11	79	20	53	45	13	0	41	1.43
13203401--13203430	16	1.9	15	93	6	51	13	0	6	80	0.91
13203596--13203667	30	2.4	30	97	0	135	23	4	15	56	1.56
13206559--13206857	150	2.0	150	90	1	465	36	17	25	20	1.94
13207831--13208032	99	2.0	99	91	0	323	33	15	20	30	1.94
13209689--13209941	85	3.0	85	86	1	337	37	21	14	26	1.92
13210678--13210720	22	2.0	20	86	8	59	44	9	0	46	1.35
13210685--13210725	17	2.6	16	84	7	57	46	12	0	41	1.41
13212269--13212297	12	2.3	13	94	5	51	31	0	0	68	0.89
13223780--13223835	28	2.0	28	100	0	112	32	21	0	46	1.52
13230033--13230069	20	1.9	19	89	10	58	45	10	24	18	1.81
13231457--13231550	48	1.9	49	82	2	118	47	9	21	21	1.78
13234101--13234127	2	13.5	2	100	0	54	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)
13234958--13234984	2	13.5	2	100	0	54	51	0	0	48	1.00
13236041--13236161	40	3.1	40	86	2	165	33	27	17	22	1.96
13237046--13237111	30	2.2	31	83	2	80	33	22	7	36	1.83
13244665--13244836	24	7.2	24	70	7	118	24	20	17	37	1.94
13244679--13244803	48	2.6	47	82	6	146	25	22	16	35	1.95
13244776--13244827	23	2.3	23	83	6	61	21	28	15	34	1.94
13249360--13249404	23	2.0	23	90	0	72	15	20	22	42	1.89
13249352--13249427	24	3.2	23	79	7	82	19	15	21	43	1.88
13249386--13249441	24	2.3	24	78	0	58	17	23	19	39	1.92
13255052--13255093	15	2.6	16	82	17	52	61	0	4	33	1.17

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   90   91