genome.fa.s1129.2.7.7.80.10.50.1000.87.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  87  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)
20888815--20888876	3	20.0	3	79	9	63	66	1	1	30	1.11
20891548--20891609	17	3.5	17	69	26	56	48	9	22	19	1.78
20891541--20891973	36	12.4	36	77	12	395	42	13	18	25	1.87
20891612--20891801	101	1.9	102	90	3	303	41	14	18	25	1.88
20891574--20891820	137	1.8	137	90	1	406	42	14	19	24	1.88
20891483--20891973	173	2.8	172	90	3	754	42	13	18	25	1.87
20891907--20891976	19	3.7	19	74	20	67	42	11	20	25	1.85
20892078--20892127	22	2.3	22	96	0	91	30	4	26	40	1.74
20893467--20893662	95	2.1	94	87	3	286	31	17	17	33	1.94
20897713--20897816	5	21.8	5	72	14	69	77	5	1	14	1.03
20897736--20897804	18	3.9	17	74	20	54	78	4	1	15	0.98
20897713--20897805	28	3.3	27	78	13	82	78	4	2	15	1.00
20897887--20897923	2	18.5	2	100	0	74	51	0	0	48	1.00
20897943--20897988	21	2.2	21	84	0	56	78	6	10	4	1.08
20897942--20897980	17	2.3	17	86	13	62	74	5	15	5	1.17
20898196--20898269	3	24.0	3	82	8	87	66	1	1	31	1.09
20898294--20898345	22	2.4	22	81	9	63	65	3	5	25	1.32
20898294--20898354	22	2.9	21	76	7	61	67	3	6	22	1.29
20898331--20898385	19	2.9	18	83	5	65	80	0	3	16	0.86
20898322--20898389	29	2.3	31	78	17	81	75	0	4	20	0.98
20898339--20898388	21	2.3	21	90	10	75	80	0	4	16	0.87
20901623--20901656	15	2.3	15	100	0	68	26	52	0	20	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20903330--20903370	22	1.9	21	85	5	55	43	34	2	19	1.64
20903659--20903717	22	2.7	21	76	10	64	69	3	20	6	1.26
20903680--20903762	28	3.0	27	89	3	123	66	3	18	12	1.38
20906650--20906692	15	2.8	16	80	16	54	32	6	4	55	1.47
20907878--20907918	22	1.9	21	85	14	57	39	34	4	21	1.75
20909641--20909692	22	2.4	22	96	3	97	13	34	30	21	1.92
20909696--20909757	31	2.0	31	96	0	115	24	38	14	22	1.91
20912808--20912884	30	2.6	29	80	12	84	61	9	12	16	1.56
20914837--20914866	2	15.5	2	93	6	53	46	0	0	53	1.00
20914989--20915039	21	2.4	21	80	6	59	47	9	9	33	1.70
20918147--20918264	30	3.9	30	86	4	166	61	9	12	16	1.57
20918147--20918264	60	2.0	60	89	3	184	61	9	12	16	1.57
20919639--20919686	3	14.7	3	85	12	60	64	2	0	33	1.05
20919876--20920234	131	2.7	131	84	3	461	23	17	33	25	1.96
20920334--20920517	66	2.8	65	83	6	214	44	12	16	26	1.84
20920344--20920568	64	3.5	64	79	13	198	41	13	16	28	1.86
20920478--20920706	102	2.3	100	79	8	243	37	13	18	30	1.90
20920645--20920734	36	2.5	37	85	5	121	34	12	22	31	1.91
20920834--20920897	32	2.0	32	84	6	85	29	28	14	28	1.95
20921934--20922018	30	2.9	30	70	16	79	1	14	5	78	0.99
20921944--20922006	19	3.4	18	82	10	74	1	12	6	79	0.99
20921937--20922018	26	3.2	26	76	20	75	1	13	6	79	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20925728--20925815	30	2.9	30	86	3	115	61	3	14	20	1.47
20926574--20926598	11	2.3	11	100	0	50	0	0	16	84	0.63
20928527--20928628	3	34.0	3	81	14	122	33	0	0	65	0.99
20929633--20929741	2	54.5	2	100	0	218	50	0	0	49	1.00
20930014--20930051	18	2.2	17	86	9	51	34	0	0	65	0.93
20932819--20932854	16	2.2	16	95	0	63	16	19	19	44	1.87
20941487--20941516	11	2.7	11	100	0	60	43	20	20	16	1.88
20941711--20941767	17	3.2	17	83	14	62	82	0	10	7	0.84
20941708--20941766	19	3.1	20	83	13	72	81	0	11	6	0.87
20941708--20941768	20	3.2	18	78	15	61	80	0	13	6	0.90
20942105--20942141	18	2.1	18	94	0	65	27	18	5	48	1.70
20942767--20942852	22	3.9	22	89	0	118	39	11	10	38	1.76
20943211--20943542	122	2.7	121	90	3	513	39	15	19	25	1.91
20943910--20943978	3	23.0	3	77	16	72	33	0	1	65	1.02
20943908--20943976	23	2.8	24	85	12	88	31	0	1	66	1.00
20957182--20957219	20	1.9	20	88	0	58	55	15	15	13	1.70
20957497--20957557	24	2.5	24	91	0	95	59	21	9	9	1.58
20960346--20960379	2	17.0	2	100	0	68	0	50	0	50	1.00
20972114--20972146	16	2.1	16	100	0	66	57	24	12	6	1.57
20972212--20972286	10	7.7	10	69	21	61	57	21	12	9	1.62
20972216--20972280	16	4.1	16	95	0	121	56	23	12	7	1.61
20972862--20972917	14	4.3	14	80	17	66	53	25	12	8	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20972842--20972916	24	3.1	24	88	3	98	56	21	10	12	1.66
20976869--20976955	35	2.5	34	80	12	97	55	10	8	26	1.61
20977170--20977228	15	3.9	15	77	0	64	10	35	20	33	1.86
20977572--20977606	18	1.9	18	94	0	61	25	22	20	31	1.98
20979108--20979441	111	3.0	111	91	0	551	44	10	7	37	1.68
20979878--20979990	50	2.3	50	82	1	138	22	30	32	15	1.94
20983292--20983340	25	1.9	24	87	8	62	28	6	2	63	1.30
20983327--20983376	17	2.7	20	78	15	61	34	4	0	62	1.14
20983416--20983635	22	10.0	22	78	9	200	24	0	22	52	1.53
20983415--20983636	47	5.0	46	79	9	248	23	0	22	52	1.53
20983563--20983635	38	1.9	38	91	0	119	26	1	23	49	1.58
20987508--20987547	16	2.5	16	100	0	80	45	7	30	17	1.76
20994095--20994178	44	1.9	44	83	9	109	50	15	20	14	1.78
20994989--20996447	105	13.9	105	92	0	2310	33	26	17	22	1.96
20994989--20996448	316	4.6	316	92	0	2325	34	26	17	22	1.96
20997911--20997945	17	2.2	15	90	10	52	37	2	0	60	1.12
20997983--20998224	22	11.0	22	80	9	226	24	0	22	51	1.53
20997983--20998225	44	5.5	45	80	9	252	24	0	23	51	1.54
20998152--20998224	38	1.9	38	91	0	119	26	1	23	49	1.58
20998231--20998317	44	2.0	44	84	6	115	12	8	3	75	1.14
20998250--20998307	15	3.9	15	76	14	66	13	8	0	77	0.98
20998268--20998308	17	2.4	18	84	15	61	14	4	0	80	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20999175--20999221	17	2.6	18	76	6	51	44	25	6	23	1.77
21002186--21002210	2	12.5	2	100	0	50	52	0	0	48	1.00
21007613--21008073	230	2.0	229	84	2	593	31	13	24	31	1.93
21009458--21009829	55	6.8	54	85	5	462	37	16	18	27	1.93
21009458--21009829	165	2.3	165	88	1	550	37	16	18	27	1.93
21013285--21013742	228	2.0	229	99	0	900	36	13	23	26	1.92
21015110--21015204	41	2.3	41	90	1	145	28	48	1	22	1.57
21015134--21015204	21	3.2	24	68	27	66	28	47	1	22	1.59
21015117--21015186	17	3.7	17	71	23	59	28	47	0	24	1.52
21019573--21019643	14	5.4	13	75	18	58	80	4	11	4	1.00
21019557--21019641	31	2.7	29	75	13	80	78	3	12	4	1.03
21021219--21021312	31	3.0	31	90	3	127	38	23	18	20	1.93
21021965--21022009	21	2.1	21	83	0	54	15	22	28	33	1.95
21024986--21025065	30	2.7	30	88	7	126	37	22	20	20	1.94
21025715--21025759	21	2.1	21	83	0	54	15	22	28	33	1.95
21026623--21026711	32	2.8	32	81	6	117	26	15	24	32	1.96
21027113--21027344	86	2.8	85	86	8	304	28	25	21	23	1.99
21027138--21027278	44	3.3	43	68	15	128	29	24	24	21	1.99
21028344--21028632	60	4.7	60	86	5	346	37	20	15	26	1.92
21028347--21028632	121	2.3	124	85	7	375	38	20	15	26	1.92
21029138--21029185	3	15.7	3	95	4	87	35	0	0	64	0.94
21029185--21029282	41	2.4	41	91	1	151	28	47	0	23	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
21032349--21032778	55	8.0	55	81	7	472	35	19	18	26	1.95
21032456--21032740	155	1.8	155	87	3	421	35	18	20	26	1.95
21034221--21034265	17	2.8	17	83	10	58	31	28	13	26	1.94
21034359--21034391	15	2.1	16	88	5	50	48	0	3	48	1.17
21038763--21038824	32	1.9	31	84	12	81	38	20	4	35	1.74
21043265--21043310	24	1.9	24	95	0	83	45	15	26	13	1.82
21043680--21043721	11	3.9	11	93	3	68	30	47	21	0	1.51
21043705--21043739	2	17.5	2	87	0	52	45	48	5	0	1.26
21043707--21045018	8	162.9	8	82	7	904	34	48	15	1	1.54
21043694--21045019	12	109.3	12	81	5	763	34	48	15	1	1.54

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