genome.fa.s9462.2.7.7.80.10.50.1000.38.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  38  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)
8211075--8211148	23	3.2	23	69	18	64	40	14	21	22	1.90
8215315--8215364	21	2.4	21	96	0	91	32	8	32	28	1.86
8217410--8217613	97	2.1	97	84	3	279	38	15	22	23	1.92
8218036--8218406	45	8.2	45	88	0	517	40	13	22	23	1.89
8219640--8219766	2	63.5	2	100	0	254	50	0	0	49	1.00
8219973--8220028	24	2.3	23	78	6	58	53	0	8	37	1.32
8221963--8222114	79	1.9	80	81	6	184	26	19	17	36	1.94
8221913--8222475	283	2.0	282	85	4	760	28	19	17	34	1.94
8223648--8223696	22	2.2	23	85	3	64	22	16	22	38	1.92
8224414--8224472	21	2.8	21	89	0	82	20	16	28	33	1.95
8226817--8226871	24	2.3	23	78	6	56	52	0	9	38	1.33
8236572--8236623	13	3.7	13	76	18	50	34	21	25	19	1.96
8247295--8247337	18	2.4	18	84	7	52	37	0	0	62	0.95
8248192--8248230	20	2.0	20	84	0	51	33	15	10	41	1.81
8248605--8249242	182	3.5	182	92	0	1035	27	16	12	43	1.84
8249113--8249391	112	2.5	112	97	0	513	24	17	14	44	1.86
8257748--8257780	15	2.4	14	85	14	50	30	0	0	69	0.88
8259085--8259122	17	2.2	17	86	9	51	50	2	2	44	1.30
8260862--8260895	10	3.4	10	91	0	59	29	38	20	11	1.88
8265157--8265193	18	2.1	18	94	0	65	21	21	32	24	1.98
8266492--8266542	19	2.7	19	96	0	93	29	27	21	21	1.99
8266610--8266717	21	5.1	21	73	15	89	21	20	22	36	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8266616--8266753	42	3.3	42	89	2	217	23	19	21	36	1.95
8266635--8266746	21	5.4	21	74	12	115	22	18	20	38	1.93
8267482--8267754	21	12.6	20	71	16	113	32	22	20	23	1.98
8267489--8267692	42	4.7	42	75	17	193	34	22	21	22	1.97
8267570--8267625	20	2.8	20	76	13	69	37	17	21	23	1.94
8267665--8267760	21	4.6	21	92	0	138	30	27	19	22	1.98
8267769--8267814	21	2.2	21	88	0	65	23	17	26	32	1.97
8270645--8272363	81	21.2	81	88	0	2429	36	10	20	32	1.87
8279979--8280043	20	3.1	20	68	12	58	29	21	20	29	1.98
8279964--8280027	20	2.9	22	70	13	60	28	23	20	28	1.99
8279941--8280045	43	2.4	44	88	6	160	31	21	18	28	1.97
8279969--8280038	23	3.2	22	67	19	56	27	22	21	28	1.99
8286366--8286460	2	47.0	2	97	2	181	49	1	0	49	1.07
8286612--8286666	13	4.2	13	80	0	65	38	16	21	23	1.93
8286984--8287041	17	3.5	17	90	9	102	39	0	44	15	1.47
8287044--8287077	12	2.7	13	86	9	52	44	8	5	41	1.60
8287549--8287591	21	2.0	21	95	0	77	27	25	23	23	2.00
8287562--8287620	29	2.0	29	96	0	109	27	28	20	23	1.99
8287591--8287635	21	2.1	21	95	0	81	24	28	22	24	1.99
8288298--8288351	18	2.7	19	78	21	58	38	16	14	29	1.89
8288712--8289171	55	8.4	55	89	4	662	34	11	18	35	1.87
8294360--8294464	52	2.0	51	96	1	192	22	1	25	49	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8294749--8294796	21	2.3	21	81	0	60	47	2	10	39	1.49
8302762--8302808	23	2.0	23	91	0	76	27	6	38	27	1.81
8305246--8305293	24	2.0	24	95	0	87	27	8	39	25	1.84
8305741--8305866	50	2.5	50	97	0	234	30	13	15	39	1.86
8306970--8307015	21	2.2	21	92	3	76	56	0	4	39	1.19
8312717--8312751	18	1.9	18	88	0	52	34	45	5	14	1.68
8316898--8316951	26	2.1	26	92	0	90	22	12	27	37	1.91
8317969--8318007	16	2.4	16	95	0	69	51	17	5	25	1.66
8319230--8319256	9	3.0	9	100	0	54	33	22	11	33	1.89
8320500--8320560	19	3.3	19	77	13	56	14	6	3	75	1.13
8320500--8320552	25	2.1	25	82	6	63	15	5	3	75	1.13
8332878--8332922	19	2.5	17	82	13	54	6	13	6	73	1.24
8337814--8337919	26	4.1	26	85	0	149	22	16	28	33	1.95
8345459--8345610	68	2.2	68	89	4	236	32	23	15	28	1.95
8345526--8345723	111	1.8	106	84	7	272	32	23	18	26	1.97
8346096--8346135	17	2.4	18	84	16	59	32	0	0	67	0.91
8346096--8346134	16	2.5	17	88	12	57	33	0	0	66	0.92
8347163--8347208	3	16.0	3	78	17	53	28	2	2	67	1.14
8351752--8351776	13	1.9	13	100	0	50	48	0	0	52	1.00
8352260--8352456	99	2.0	100	91	2	324	44	10	10	34	1.73
8353089--8353137	24	2.0	26	84	15	68	46	0	10	42	1.37
8353135--8353200	23	2.9	22	75	8	62	50	1	7	40	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8353155--8353217	20	3.2	20	72	18	60	47	1	9	41	1.45
8353130--8353489	24	15.6	23	70	13	129	45	3	8	43	1.49
8353185--8353222	17	2.2	17	90	9	60	44	5	7	42	1.56
8353163--8353245	39	2.1	39	88	0	121	46	3	7	42	1.48
8353139--8353458	22	14.3	22	69	19	139	45	3	8	42	1.52
8353203--8353458	46	5.6	44	72	21	172	44	3	8	42	1.53
8353276--8353325	25	2.0	25	88	7	75	38	4	8	50	1.51
8353139--8353452	94	3.5	91	80	10	285	45	3	8	42	1.52
8353474--8353500	2	13.5	2	100	0	54	51	0	0	48	1.00
8353508--8353537	15	2.0	15	93	0	51	23	0	0	76	0.78
8353505--8353543	12	3.2	13	85	10	55	23	0	0	76	0.78
8354747--8354788	14	2.9	14	79	13	50	23	0	0	76	0.79
8354736--8354791	15	3.5	15	79	13	51	26	1	0	71	0.96
8355785--8355822	20	1.9	20	88	0	58	44	23	7	23	1.79
8357238--8357359	64	1.9	63	83	3	156	52	9	9	28	1.65
8357536--8357583	24	2.0	25	84	12	64	64	0	14	20	1.28
8359497--8359543	3	16.0	3	82	4	60	61	2	4	31	1.27
8359491--8359539	17	3.0	16	82	17	57	59	2	6	32	1.34
8359697--8360120	43	9.8	42	74	12	315	24	20	29	25	1.99
8359829--8360151	40	7.6	40	70	14	218	24	20	30	25	1.98
8359739--8360148	129	3.2	129	95	0	712	24	20	30	25	1.99
8360557--8360600	15	2.9	15	93	0	70	43	4	20	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8360757--8360960	65	3.2	63	84	4	275	44	11	11	32	1.77
8360922--8360978	27	2.1	27	93	0	96	45	15	7	31	1.73
8361071--8361307	29	8.5	25	90	5	105	48	11	10	29	1.72
8361086--8361298	29	7.5	29	95	2	353	47	12	9	30	1.73
8361948--8361993	4	12.2	4	82	13	62	26	0	21	52	1.47
8361950--8361985	18	2.1	17	94	5	63	25	0	22	52	1.47
8367243--8367364	64	1.9	63	83	3	156	52	9	9	28	1.65
8369504--8369559	3	19.0	3	85	3	78	62	1	3	32	1.23
8373947--8373976	15	2.0	15	100	0	60	26	13	26	33	1.93
8375869--8375951	35	2.4	35	93	0	139	12	10	32	44	1.76
8378327--8378380	27	2.0	27	88	0	81	42	11	18	27	1.84
8379348--8379647	42	7.3	42	78	7	233	27	20	20	32	1.97
8379508--8379691	42	4.4	42	80	4	169	27	16	19	36	1.93
8386059--8386099	21	2.0	21	85	0	55	43	17	36	2	1.62
8386513--8386610	43	2.3	43	87	3	135	31	21	16	30	1.95
8390406--8390474	32	2.2	32	84	7	88	13	11	31	43	1.79
8391280--8391343	30	2.2	29	83	8	85	46	7	10	34	1.68
8391280--8391365	29	2.9	30	84	3	104	45	9	10	34	1.71
8391699--8391758	19	3.3	18	79	6	68	55	0	0	45	0.99
8392512--8392643	29	4.5	29	82	5	131	39	13	29	17	1.88
8392527--8392644	30	4.0	29	79	9	87	39	14	27	17	1.89
8392598--8392661	30	2.1	30	97	0	119	35	18	34	10	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8397700--8397733	2	17.0	2	100	0	68	50	0	0	50	1.00
8397893--8397962	24	2.9	24	80	0	77	52	17	12	17	1.74
8397911--8397962	12	4.3	12	83	9	61	51	19	13	15	1.75
8397903--8397999	48	2.0	48	82	4	115	49	16	15	18	1.80
8399126--8399161	18	2.0	18	88	0	54	30	13	0	55	1.39
8402667--8402749	12	6.9	12	70	10	71	46	15	16	20	1.83
8402660--8402726	24	2.8	24	83	0	89	52	16	14	16	1.75
8402708--8402761	24	2.2	24	76	0	63	48	12	14	24	1.79
8403996--8404028	17	1.9	17	93	0	57	36	30	15	18	1.91
8408079--8408401	55	5.9	55	93	0	549	33	18	12	35	1.88

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