genome.fa.s1129.2.7.7.80.10.50.1000.59.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  59  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)
13437126--13437331	111	1.9	111	85	0	286	32	18	15	33	1.92
13437487--13437511	12	2.1	12	100	0	50	48	28	0	24	1.52
13439913--13439969	20	2.8	21	82	10	66	31	24	12	31	1.92
13448220--13448268	20	2.5	20	82	0	62	32	12	20	34	1.90
13455959--13456025	29	2.3	29	77	10	73	49	5	5	38	1.52
13457504--13457548	3	15.3	3	86	4	65	71	2	0	26	0.98
13457641--13458014	111	3.4	110	86	5	504	29	16	24	28	1.97
13472526--13472621	2	50.0	2	73	15	69	51	1	3	44	1.24
13472766--13472832	29	2.3	29	77	10	73	49	5	5	38	1.52
13474319--13474353	3	12.3	3	88	11	56	71	0	0	28	0.86
13474322--13474353	14	2.3	14	100	0	64	71	0	0	28	0.86
13480412--13481312	137	6.6	137	90	3	1327	24	15	23	35	1.94
13480412--13481310	408	2.2	409	89	3	1371	24	15	23	35	1.94
13483034--13483111	41	1.9	41	87	10	115	32	21	12	33	1.91
13490301--13490332	3	10.7	3	93	0	55	62	0	0	37	0.95
13496464--13496518	29	1.9	28	85	3	74	29	18	9	43	1.80
13498982--13499012	13	2.4	13	94	0	53	19	29	3	48	1.64
13504109--13504640	226	2.4	224	83	2	627	29	18	19	32	1.96
13504780--13504957	72	2.5	71	77	9	184	25	19	22	33	1.97
13507947--13507975	11	2.6	11	100	0	58	6	10	24	58	1.55
13511819--13511889	26	2.6	27	82	11	90	40	8	2	47	1.48
13512959--13512989	12	2.6	12	94	0	53	77	3	0	19	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13513744--13513798	16	3.4	16	84	0	74	21	25	12	40	1.89
13514279--13514316	18	2.1	18	90	0	58	42	7	2	47	1.46
13514706--13514732	2	13.5	2	100	0	54	48	0	0	51	1.00
13515094--13515189	7	13.7	7	82	4	104	54	27	1	17	1.50
13515093--13515189	21	4.6	21	84	5	115	53	26	1	18	1.51
13515206--13515236	2	15.0	2	93	6	53	48	0	3	48	1.17
13515303--13515449	68	2.1	68	87	1	204	44	5	3	46	1.43
13515421--13515598	13	12.8	13	70	15	108	41	5	5	47	1.49
13515303--13515489	68	2.8	68	81	5	195	44	5	3	45	1.45
13515422--13515599	28	6.9	26	70	19	90	42	5	5	47	1.49
13515484--13515638	18	8.2	18	71	21	104	43	2	5	48	1.39
13515441--13515633	98	2.0	98	95	0	350	43	4	5	47	1.44
13515552--13515657	28	3.4	28	73	20	77	44	1	3	50	1.31
13518242--13518285	19	2.2	20	84	11	56	38	25	11	25	1.89
13521519--13521546	4	7.0	4	100	0	56	50	0	25	25	1.50
13527423--13527547	44	2.9	44	80	1	135	32	22	17	28	1.96
13527474--13527560	44	2.0	44	86	4	122	28	26	16	28	1.97
13528045--13528074	2	15.0	2	100	0	60	50	0	0	50	1.00
13529351--13529381	14	2.2	14	94	0	53	51	3	0	45	1.17
13530214--13530285	27	2.7	27	93	2	119	34	12	27	25	1.92
13534339--13534372	16	2.2	16	94	5	61	0	17	0	82	0.67
13534361--13534414	23	2.2	24	87	6	74	9	14	11	64	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13534960--13535011	25	2.1	25	100	0	104	26	15	32	25	1.95
13541412--13541450	15	2.6	14	84	11	51	0	17	5	76	0.96
13546255--13546295	20	2.0	20	90	0	64	31	9	21	36	1.86
13551116--13551155	20	2.0	20	90	0	62	20	32	27	20	1.97
13551116--13551177	23	2.9	21	83	7	72	20	33	27	17	1.96
13551118--13551203	21	4.1	20	73	14	66	22	33	27	16	1.95
13560512--13560580	33	2.1	33	83	5	86	31	1	36	30	1.67
13562233--13562296	32	2.0	32	93	0	110	37	10	23	28	1.89
13567344--13567576	45	5.2	45	93	0	358	32	20	7	39	1.80
13571169--13571249	15	5.4	14	72	20	56	3	17	0	79	0.88
13571179--13571277	21	4.8	20	73	17	71	5	12	3	79	1.00
13571179--13571277	27	3.7	27	81	6	78	5	12	3	79	1.00
13571179--13571227	6	7.7	6	82	13	62	4	16	0	79	0.88
13573594--13573642	22	2.2	22	82	7	64	40	14	20	24	1.89
13573648--13573694	21	2.2	21	96	0	85	31	25	17	25	1.97
13574081--13574268	45	4.2	45	95	0	322	31	22	6	38	1.81
13575198--13575257	32	1.9	32	82	3	77	36	26	8	28	1.85
13576240--13576285	20	2.2	20	84	3	56	36	10	15	36	1.82
13587887--13587942	24	2.3	24	78	0	58	32	21	12	33	1.91
13593841--13593891	18	2.9	17	76	23	52	76	0	19	3	0.94
13595930--13595960	13	2.5	12	94	5	53	90	0	9	0	0.46
13597699--13597798	24	4.2	24	70	5	67	48	16	13	23	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13602418--13602468	19	2.6	20	87	3	68	33	15	5	45	1.71
13606433--13606481	22	2.4	20	90	10	73	34	10	4	51	1.55
13617968--13618005	16	2.3	17	90	4	60	10	5	13	71	1.30
13627833--13627875	19	2.4	17	88	7	59	4	16	2	76	1.05
13627826--13627883	21	2.9	19	78	16	64	5	15	1	77	1.02
13628213--13628246	13	2.6	13	85	0	50	32	0	35	32	1.58
13628965--13629032	35	1.9	36	93	3	120	29	2	36	30	1.72
13629371--13629421	19	2.6	20	87	3	68	45	5	15	33	1.71
13630945--13630985	15	2.6	16	75	17	50	29	9	4	56	1.53
13632732--13632777	24	1.9	24	91	8	76	65	15	13	6	1.46
13634320--13634350	9	3.4	9	95	0	53	70	6	19	3	1.22
13641071--13641113	23	1.9	21	81	13	50	32	18	13	34	1.90
13642817--13642901	11	7.2	11	69	22	57	31	35	3	29	1.75
13642814--13642918	36	2.9	36	94	1	185	30	35	4	29	1.78
13643541--13643593	16	3.4	16	77	12	56	13	16	0	69	1.18
13646481--13646565	11	7.2	11	72	22	66	31	36	3	28	1.74
13646478--13646582	36	2.9	36	95	1	185	30	36	4	28	1.78
13655912--13655951	21	2.0	19	85	9	53	20	7	2	70	1.24
13658444--13658482	21	1.9	20	89	5	60	35	35	2	25	1.70
13660389--13660473	11	7.2	11	72	22	66	31	36	3	28	1.74
13660386--13660490	36	2.9	36	94	1	176	30	37	4	27	1.77
13660871--13660916	12	3.7	12	82	5	56	76	4	17	2	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13660871--13660918	26	2.0	23	84	12	60	75	4	18	2	1.07
13660940--13660986	14	3.1	15	75	12	51	72	6	19	2	1.17
13664903--13665076	23	7.3	23	68	25	89	31	36	4	27	1.77
13664903--13665059	11	13.2	11	71	23	106	31	36	4	28	1.77
13664900--13665076	36	4.9	36	97	0	320	30	36	5	27	1.78
13665533--13665577	23	2.0	24	86	8	67	42	11	8	37	1.72
13665659--13665823	50	3.3	50	97	0	303	43	7	18	30	1.77
13668482--13668526	7	7.2	6	83	16	56	2	17	0	80	0.82
13673795--13673851	16	3.4	17	79	18	57	0	10	10	78	0.95
13673809--13673849	14	2.8	14	92	7	64	0	9	9	80	0.91
13673806--13673853	21	2.2	20	85	10	60	0	8	8	83	0.82
13680041--13680100	30	2.0	31	87	9	88	28	6	10	55	1.58
13681017--13681059	20	2.2	20	87	4	61	34	9	6	48	1.62
13681668--13681713	21	2.2	20	80	3	56	26	10	8	54	1.64
13685198--13685250	21	2.5	21	96	0	97	62	0	16	20	1.33
13685283--13685323	22	1.9	21	90	5	64	26	2	34	36	1.70
13689725--13689793	33	2.1	33	83	5	86	30	36	1	31	1.67
13695398--13695466	33	2.1	33	83	5	86	30	36	1	31	1.67
13701053--13701121	33	2.1	33	83	5	86	30	36	1	31	1.67
13702663--13702702	20	1.9	22	85	10	57	40	12	30	17	1.86
13706374--13706413	20	1.9	22	85	10	57	40	12	30	17	1.86
13711868--13711896	10	2.9	10	100	0	58	0	0	6	93	0.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13716378--13716438	13	4.5	12	74	22	50	75	3	19	1	1.03
13717860--13717944	11	7.2	11	72	22	66	31	36	3	28	1.74
13717857--13717961	36	2.9	36	95	1	185	30	36	4	28	1.78
13733407--13733583	36	4.9	36	95	0	291	27	35	5	32	1.79
13733956--13734002	25	2.0	24	84	16	62	74	8	17	0	1.05
13739778--13739817	20	1.9	22	85	10	57	40	12	30	17	1.86
13741032--13741208	36	4.9	36	95	0	291	27	35	5	32	1.79
13742436--13742617	90	2.0	91	88	3	269	21	25	23	28	1.99
13752208--13752251	17	2.6	17	100	0	88	4	6	6	81	0.97
13772151--13772318	79	2.1	79	78	3	174	31	20	9	38	1.84

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