genome.fa.s9462.2.7.7.80.10.50.1000.90.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  90  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)
20426844--20426967	42	3.0	42	76	11	107	76	0	16	6	0.98
20426878--20426965	23	4.0	21	77	13	72	75	0	18	6	1.02
20428784--20429172	54	7.2	55	77	11	220	32	10	16	40	1.84
20428805--20429063	108	2.4	108	79	5	247	32	10	16	40	1.83
20428862--20429194	55	6.2	53	77	9	244	30	11	17	40	1.85
20429085--20429606	277	1.9	272	87	5	764	29	15	19	35	1.93
20432629--20433285	137	4.8	136	88	1	922	24	15	25	33	1.95
20433799--20433880	42	2.0	42	90	0	128	39	19	20	20	1.93
20433982--20434212	118	2.0	116	89	3	356	33	23	17	25	1.96
20434162--20434243	42	2.0	42	87	0	119	39	19	19	21	1.93
20433741--20434463	366	2.0	362	97	1	1367	36	19	16	27	1.93
20434659--20434740	42	2.0	42	90	0	128	37	23	18	20	1.94
20434098--20434827	248	2.9	250	91	3	1173	36	18	16	28	1.92
20437293--20437343	7	7.9	7	83	14	65	0	25	0	74	0.82
20437293--20437357	14	4.9	13	81	9	69	1	23	0	75	0.89
20437293--20437377	26	3.2	26	76	15	86	1	23	0	75	0.87
20437301--20437379	7	11.4	7	75	10	56	1	21	0	77	0.84
20437307--20437358	20	2.5	20	84	12	61	1	19	0	78	0.84
20437346--20437380	10	3.7	9	88	11	52	0	20	0	80	0.72
20451747--20452122	108	3.5	107	79	9	365	30	10	17	41	1.84
20451747--20452077	54	6.2	53	81	6	285	32	10	16	40	1.84
20452208--20452297	42	2.2	41	86	6	119	24	22	20	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20452224--20452310	41	2.1	42	80	6	97	31	19	17	32	1.95
20452047--20452590	276	2.0	275	85	3	736	29	15	20	34	1.94
20472643--20472687	20	2.1	21	84	8	56	64	2	2	31	1.18
20472664--20472727	26	2.5	25	80	7	67	62	1	3	32	1.20
20472840--20472884	23	2.0	23	86	8	65	68	2	4	24	1.19
20474568--20474609	20	2.0	21	86	4	59	52	4	9	33	1.55
20476585--20476713	43	3.1	42	85	9	158	35	13	16	34	1.88
20477798--20477858	30	2.0	30	93	0	104	54	11	8	26	1.64
20480338--20480542	75	2.8	74	80	5	211	24	5	16	52	1.66
20483805--20483925	32	3.8	32	88	4	167	28	17	19	34	1.94
20488201--20488384	32	5.8	32	90	3	277	27	17	21	33	1.96
20488201--20488384	63	2.9	63	90	4	291	27	17	21	33	1.96
20489811--20489858	21	2.3	21	88	0	69	29	4	14	52	1.60
20492275--20492330	27	2.1	27	100	0	112	21	19	21	37	1.94
20492857--20492908	13	3.8	13	80	9	59	65	1	0	32	1.04
20493466--20493534	15	4.7	15	81	16	83	34	1	0	63	1.03
20493460--20493557	7	13.6	7	71	13	65	38	1	0	60	1.04
20493460--20493550	29	3.1	28	80	9	94	37	1	0	61	1.03
20493487--20493550	30	2.2	28	83	5	83	35	1	0	62	1.05
20493500--20493557	30	2.0	29	82	3	71	39	1	0	58	1.08
20493837--20493866	2	15.0	2	100	0	60	50	0	0	50	1.00
20495639--20495708	3	23.3	3	100	0	140	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20496264--20496298	15	2.2	16	90	5	54	57	0	5	37	1.23
20498180--20498268	43	2.1	43	84	0	115	24	0	17	57	1.40
20498192--20498268	24	3.4	24	68	17	56	22	0	19	58	1.39
20498363--20498406	2	22.0	2	100	0	88	50	0	0	50	1.00
20498514--20498561	2	25.5	2	85	12	66	47	0	0	52	1.00
20501232--20501438	105	2.0	105	80	3	238	29	16	23	30	1.96
20515567--20515606	21	1.9	21	89	0	62	37	7	22	32	1.82
20516338--20516448	53	2.1	52	88	1	168	28	16	19	35	1.94
20522654--20522707	21	2.6	21	100	0	108	40	14	18	25	1.89
20527778--20527830	25	2.1	25	100	0	106	43	7	22	26	1.80
20538531--20538615	32	2.7	32	81	3	91	34	12	17	35	1.88
20547761--20547879	36	3.4	36	81	3	136	23	20	20	36	1.95
20547761--20547903	71	2.0	70	85	6	191	20	20	18	39	1.92
20548794--20548825	2	16.0	2	100	0	64	50	0	0	50	1.00
20550443--20550486	3	15.3	3	82	17	58	63	0	0	36	0.95
20550811--20551601	113	6.9	113	86	5	964	27	19	15	37	1.92
20557338--20557366	13	2.2	13	100	0	58	79	0	0	20	0.74
20557406--20557443	16	2.3	17	86	4	51	76	2	10	10	1.12
20557503--20557550	19	2.4	20	74	19	55	70	4	6	18	1.25
20559372--20560111	106	7.0	107	87	4	972	22	18	25	33	1.96
20564555--20564579	12	2.1	12	100	0	50	52	0	8	40	1.31
20564648--20564701	24	2.3	23	81	6	65	70	7	7	14	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20564819--20564866	19	2.5	20	74	16	55	70	4	6	18	1.25
20565930--20565978	14	3.4	14	78	15	64	59	2	2	36	1.21
20565930--20565986	16	3.9	15	76	17	57	59	3	3	33	1.31
20569448--20569570	64	2.0	64	85	3	169	46	4	2	47	1.34
20575946--20576757	68	11.9	68	90	0	1210	32	15	22	29	1.95
20577157--20577227	21	3.2	21	66	16	54	50	8	19	21	1.73
20576782--20577413	45	14.1	45	87	0	863	46	7	18	26	1.76
20580940--20580969	12	2.5	12	94	0	51	56	13	26	3	1.52
20581388--20582264	68	13.0	68	86	2	1210	30	14	24	30	1.95
20582285--20582692	45	9.1	45	89	1	593	47	6	20	26	1.74
20582672--20582764	46	2.0	45	82	10	109	41	10	21	25	1.85
20589762--20589816	24	2.3	24	77	0	56	38	18	18	25	1.93
20590411--20590448	19	2.0	19	94	0	67	34	15	10	39	1.82
20592240--20592551	42	7.2	44	75	7	194	34	16	18	30	1.93
20592319--20592551	42	5.4	42	80	5	218	33	16	19	30	1.94
20592350--20592551	86	2.4	86	87	3	284	33	16	19	30	1.95
20592912--20592972	21	2.9	21	87	0	86	1	31	18	49	1.57
20592915--20592983	21	3.3	21	83	4	59	1	34	15	47	1.55
20600776--20601094	156	2.0	158	98	1	615	29	14	33	22	1.94
20601229--20601357	41	3.3	39	80	9	120	24	19	20	35	1.96
20601311--20601407	50	2.0	49	86	10	135	26	17	20	35	1.95
20602414--20602466	22	2.4	22	87	0	79	32	13	7	47	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20603181--20603262	42	2.0	42	85	0	110	32	23	14	29	1.94
20604100--20604142	18	2.5	18	85	7	54	51	0	6	41	1.29
20604859--20605193	132	2.5	130	81	2	418	29	19	19	31	1.97
20606513--20606595	1	83.0	1	75	0	67	1	10	1	86	0.68
20606505--20606599	8	12.2	8	86	8	126	1	12	1	85	0.71
20606500--20606599	15	6.5	16	80	10	95	2	12	1	85	0.75
20606505--20606599	38	2.5	37	85	13	104	1	12	1	85	0.71
20617536--20617575	19	2.2	19	86	8	57	50	2	0	47	1.14
20618983--20619034	17	3.1	17	81	16	63	65	0	5	28	1.16
20622356--20622384	14	2.1	14	100	0	58	13	13	17	55	1.70
20622648--20622723	10	6.9	10	75	19	71	9	13	19	57	1.62
20629303--20629341	21	1.9	21	89	5	62	25	15	25	33	1.95
20637513--20637866	118	3.0	117	72	10	324	40	14	17	27	1.88
20638056--20638090	10	3.5	10	88	0	52	42	0	8	48	1.33
20638056--20638090	14	2.5	14	90	0	61	42	0	8	48	1.33
20639824--20639888	14	4.7	13	73	17	51	23	6	7	63	1.44
20643196--20643248	21	2.3	24	87	12	76	28	9	1	60	1.38
20646303--20646338	17	2.1	17	94	0	63	27	5	27	38	1.79
20647192--20647248	23	2.5	23	88	8	89	29	26	15	28	1.96
20647299--20647339	19	2.2	19	86	0	55	31	4	7	56	1.48
20652351--20652386	3	12.0	3	100	0	72	66	0	0	33	0.92
20652623--20653102	39	12.6	39	80	8	506	22	22	11	43	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20652652--20652801	80	1.9	80	91	0	246	23	22	12	42	1.86
20652747--20652882	66	2.1	65	86	2	184	23	22	9	44	1.82
20652810--20653099	77	3.7	77	88	4	395	23	20	11	44	1.84
20652810--20653099	116	2.5	116	88	2	404	23	20	11	44	1.84
20653153--20653500	45	7.7	46	85	3	363	31	19	21	27	1.97
20653170--20653500	90	3.7	90	86	3	423	31	19	21	27	1.97
20653167--20653500	135	2.5	135	84	2	409	31	19	21	27	1.97
20654153--20654223	24	3.2	23	86	13	96	35	14	12	38	1.84
20654587--20654752	54	3.1	54	90	3	262	23	25	15	35	1.94
20655792--20655889	42	2.3	42	83	0	115	31	26	13	28	1.94

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