genome.fa.s1129.2.7.7.80.10.50.1000.60.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  60  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)
13772332--13772453	52	2.3	52	84	2	154	31	21	9	37	1.86
13776446--13776492	14	3.1	15	75	12	51	72	6	19	2	1.17
13779107--13779227	60	2.0	60	93	0	206	29	24	13	32	1.93
13780466--13780578	36	3.2	36	92	1	174	32	36	3	27	1.74
13780466--13780564	13	8.3	11	71	23	67	31	36	3	29	1.73
13780478--13780617	36	4.1	33	83	9	97	30	36	2	30	1.72
13786064--13786176	36	3.2	36	92	1	174	32	36	3	27	1.74
13786064--13786162	13	8.3	11	71	23	67	31	36	3	29	1.73
13786076--13786215	36	4.1	33	83	9	97	30	36	2	30	1.72
13788898--13788936	19	2.1	19	90	4	62	58	15	15	10	1.62
13794509--13794562	28	1.9	28	96	0	99	25	18	11	44	1.83
13804585--13804610	10	2.6	10	100	0	52	73	0	26	0	0.84
13811183--13811234	23	2.3	22	80	6	59	63	13	15	7	1.51
13811351--13811720	181	2.0	183	98	1	717	32	20	9	37	1.84
13812365--13812415	19	2.6	20	87	3	68	45	5	15	33	1.71
13813577--13813636	30	2.0	31	83	3	77	26	8	10	55	1.61
13814983--13815051	33	2.1	34	97	2	131	20	23	0	56	1.42
13814986--13815069	33	2.5	32	87	11	100	20	20	0	59	1.38
13815318--13815369	12	4.2	12	81	11	61	78	1	17	1	0.93
13815319--13815371	16	3.1	17	83	8	63	77	1	18	1	0.96
13819206--13819259	14	3.5	15	85	12	65	75	1	20	1	0.98
13822443--13822494	21	2.6	20	87	6	70	38	13	5	42	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13823200--13823255	16	3.2	16	85	10	67	75	1	21	1	0.99
13823217--13823255	8	4.8	8	96	3	69	76	0	23	0	0.78
13825525--13825584	30	2.0	31	83	3	77	26	8	10	55	1.61
13826448--13826499	21	2.6	20	87	6	70	38	13	5	42	1.68
13827218--13827246	8	3.8	8	95	4	51	79	0	20	0	0.74
13827194--13827253	19	3.2	17	84	11	66	76	1	20	1	0.96
13827193--13827254	30	2.1	30	85	11	85	77	1	19	1	0.94
13829548--13829607	30	2.0	31	83	3	77	26	8	10	55	1.61
13830480--13830531	21	2.6	20	87	6	70	38	13	5	42	1.68
13831260--13831292	8	4.1	8	100	0	66	75	0	24	0	0.80
13831267--13831300	13	2.7	12	86	13	50	79	0	20	0	0.73
13831243--13831299	18	3.2	16	82	12	60	75	1	21	1	0.98
13833598--13833657	30	2.0	31	83	3	77	26	8	10	55	1.61
13834530--13834581	21	2.6	20	87	6	70	38	13	5	42	1.68
13835309--13835349	8	5.1	8	100	0	82	75	0	24	0	0.80
13835292--13835359	24	2.7	24	84	11	84	75	1	22	1	0.97
13838563--13838614	21	2.6	20	87	6	70	38	13	5	42	1.68
13841866--13841895	13	2.4	13	94	5	53	43	0	30	26	1.55
13844846--13844900	24	2.3	25	81	6	60	29	21	16	32	1.95
13846138--13846183	24	1.9	24	82	8	58	4	15	8	71	1.26
13849230--13849281	27	1.9	27	88	7	79	78	11	9	0	0.95
13849240--13849293	19	2.7	21	85	11	76	77	11	11	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13857116--13857166	19	2.6	20	90	3	77	43	5	13	37	1.69
13857748--13857844	36	2.7	35	93	1	158	27	6	37	28	1.81
13858185--13858235	19	2.6	20	87	3	68	45	5	15	33	1.71
13861593--13861632	20	1.9	20	85	10	53	32	7	32	27	1.85
13862965--13862994	13	2.4	13	94	5	53	26	30	0	43	1.55
13867144--13867183	20	1.9	20	85	10	53	32	7	32	27	1.85
13869048--13869152	36	2.9	35	91	1	156	28	5	36	29	1.80
13869493--13869543	19	2.6	20	87	3	68	45	5	15	33	1.71
13871140--13871179	20	2.0	21	90	5	64	52	10	17	20	1.72
13874809--13874851	23	1.9	21	81	13	50	32	18	13	34	1.90
13878443--13878528	13	7.2	12	72	22	58	30	3	36	30	1.74
13878425--13878529	36	2.9	36	94	1	176	29	4	35	30	1.78
13880731--13880770	20	1.9	22	85	10	57	40	12	30	17	1.86
13884444--13884483	20	1.9	22	85	10	57	40	12	30	17	1.86
13888154--13888193	20	1.9	22	85	10	57	40	12	30	17	1.86
13894659--13894744	13	7.2	12	72	22	58	29	3	37	30	1.74
13894641--13894745	36	2.9	36	95	1	185	28	4	36	30	1.78
13897306--13897356	20	2.6	20	90	3	77	35	15	5	43	1.71
13902666--13902750	11	7.2	11	72	22	66	31	37	3	27	1.74
13902663--13902767	36	2.9	35	94	1	174	30	37	4	27	1.77
13907233--13907331	13	8.3	11	71	24	67	29	3	37	30	1.72
13907216--13907331	36	3.2	36	93	1	198	29	3	37	30	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13912241--13912305	13	5.4	12	75	21	57	29	3	35	32	1.73
13912223--13912338	36	3.2	36	91	1	180	31	3	35	30	1.74
13914993--13915077	11	7.2	11	72	22	66	31	37	3	27	1.74
13914990--13915094	36	2.9	35	94	1	174	30	37	4	27	1.77
13923218--13923261	17	2.6	17	85	10	63	0	18	4	77	0.94
13930537--13930605	33	2.1	33	83	5	86	31	1	36	30	1.67
13930591--13930687	13	8.0	12	72	22	62	28	3	37	30	1.73
13930576--13930688	36	3.2	36	92	1	174	27	3	36	32	1.74
13931216--13931245	14	2.1	14	100	0	60	20	6	26	46	1.75
13942762--13942791	13	2.4	13	94	5	53	43	0	30	26	1.55
13947292--13947360	33	2.1	33	83	5	86	31	1	36	30	1.67
13947346--13947442	13	8.0	12	72	22	62	28	3	37	30	1.73
13947331--13947443	36	3.2	36	92	1	174	27	3	36	32	1.74
13956069--13956123	24	2.3	25	81	6	60	29	21	16	32	1.95
13959581--13959631	20	2.6	20	90	3	77	37	13	5	43	1.69
13963332--13963388	25	2.2	25	84	3	69	63	14	12	10	1.53
13963382--13963410	15	2.0	15	93	6	51	75	3	20	0	0.94
13964330--13964381	19	2.6	21	90	6	81	46	5	13	34	1.67
13966953--13966994	22	1.9	22	85	9	59	11	11	4	71	1.29
13971506--13971547	22	1.9	22	90	9	68	14	11	4	69	1.34
13975519--13975554	18	2.0	18	100	0	72	11	33	11	44	1.75
13976613--13976654	22	1.9	22	85	9	59	66	4	11	16	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13984226--13984294	33	2.1	33	83	5	86	30	36	1	31	1.67
13996762--13996830	33	2.1	33	83	5	86	30	36	1	31	1.67
13998061--13998108	9	5.6	9	82	2	55	87	8	4	0	0.66
13998060--13998115	27	2.2	24	87	9	76	82	12	5	0	0.83
14003377--14003427	5	10.2	5	100	0	102	80	0	19	0	0.71
14004304--14004350	11	4.1	11	80	20	60	25	2	36	36	1.68
14004304--14004350	24	2.0	24	84	15	64	25	2	36	36	1.68
14004304--14004383	35	2.2	37	88	4	119	27	2	37	32	1.70
14004719--14004769	19	2.6	20	87	3	68	45	5	15	33	1.71
14008042--14008079	19	2.0	20	84	5	51	0	10	5	84	0.77
14008464--14008543	35	2.2	37	91	4	128	27	3	37	31	1.74
14008878--14008928	19	2.6	20	87	3	68	45	5	15	33	1.71
14010940--14010976	19	1.9	19	100	0	74	24	10	32	32	1.90
14024193--14024308	35	3.3	35	82	1	151	30	2	37	29	1.71
14024250--14024307	13	4.7	13	70	12	50	29	1	39	29	1.67
14025405--14025474	36	1.9	36	91	5	115	31	1	37	30	1.66
14026881--14026949	33	2.1	33	83	5	86	31	1	36	30	1.67
14026935--14027031	13	8.0	12	72	22	62	28	3	37	30	1.73
14026920--14027032	36	3.2	36	92	1	174	27	3	36	32	1.74
14036403--14036454	21	2.6	21	90	6	81	32	13	7	46	1.72
14037109--14037155	19	2.6	18	83	12	60	65	0	14	19	1.26
14038471--14038521	20	2.6	20	93	3	86	47	5	13	33	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14039213--14039240	13	2.2	13	100	0	56	32	14	14	39	1.86
14041125--14041162	10	3.9	10	83	16	53	0	26	0	73	0.83
14041124--14041162	18	2.1	19	95	4	71	0	25	0	74	0.82
14041872--14041921	21	2.5	21	90	6	77	48	6	12	34	1.65
14042831--14042890	30	2.0	31	86	3	86	53	10	8	28	1.63
14045142--14045166	8	3.1	8	100	0	50	0	24	0	76	0.80
14045458--14045495	19	2.1	18	85	9	51	68	0	15	15	1.22
14054353--14054384	11	2.9	11	100	0	64	56	15	0	28	1.40
14055430--14055480	20	2.6	20	93	3	86	47	5	13	33	1.67
14057849--14057917	33	2.1	33	83	5	86	30	34	1	33	1.67

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