genome.fa.s1129.2.7.7.80.10.50.1000.25.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  25  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)
5409998--5410047	4	12.8	4	76	19	52	22	4	2	72	1.12
5409991--5410044	19	2.8	19	86	8	65	20	7	1	70	1.21
5415281--5416139	84	10.4	83	75	7	676	31	23	19	25	1.98
5415281--5416139	165	5.2	165	80	6	904	31	23	19	25	1.98
5415281--5416139	249	3.5	248	77	7	915	31	23	19	25	1.98
5416744--5416874	68	1.9	70	85	6	187	43	3	6	46	1.45
5416811--5417031	38	5.9	38	67	21	126	44	3	4	47	1.41
5416812--5416965	83	1.9	82	89	4	229	45	3	3	46	1.39
5416764--5417063	149	2.0	151	83	7	380	44	3	5	46	1.44
5416912--5417044	66	2.0	66	88	2	194	45	4	4	45	1.44
5417655--5417698	23	2.0	22	82	13	54	31	2	2	63	1.19
5417815--5417861	8	5.5	8	80	14	58	17	0	2	80	0.80
5424704--5424767	23	2.8	23	97	0	119	26	32	26	14	1.94
5424703--5424775	23	3.4	19	87	10	56	27	28	28	15	1.96
5428416--5428718	55	5.6	55	82	7	365	33	10	14	41	1.81
5428571--5428664	49	1.9	49	93	0	161	32	10	18	38	1.85
5428721--5428960	54	4.4	54	82	5	270	31	8	20	40	1.82
5429485--5429739	136	1.9	136	90	0	411	34	17	23	25	1.96
5433607--5433701	40	2.3	40	85	8	113	30	18	18	31	1.96
5433629--5433703	20	3.8	20	98	0	141	28	17	18	36	1.94
5433933--5433975	18	2.4	18	80	7	52	37	18	4	39	1.72
5440900--5440969	33	2.1	33	94	0	122	32	20	25	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5445146--5445223	31	2.5	31	81	6	88	29	29	24	16	1.97
5449377--5449479	31	3.3	31	84	2	118	29	32	24	14	1.95
5458511--5458569	30	2.0	30	93	3	102	30	15	16	37	1.90
5462830--5462883	20	2.7	20	88	0	72	24	20	22	33	1.97
5462725--5463056	119	2.8	119	90	1	531	32	15	18	33	1.92
5462949--5462997	20	2.5	20	89	0	71	28	26	16	28	1.97
5463121--5463309	20	9.4	20	85	3	247	27	19	21	31	1.98
5463301--5463355	20	2.8	20	88	0	74	32	9	12	45	1.74
5463467--5463575	47	2.3	46	85	6	139	38	17	17	26	1.92
5463623--5463727	35	3.0	35	84	4	131	38	17	20	24	1.93
5471628--5471756	30	4.3	30	79	2	125	58	10	13	18	1.63
5471638--5471819	30	6.1	30	73	6	118	55	10	14	19	1.68
5471819--5471895	30	2.6	30	82	0	91	59	14	10	15	1.60
5471819--5471909	30	3.0	31	80	4	87	57	15	10	16	1.66
5472514--5472620	49	2.2	49	91	3	171	30	36	3	28	1.75
5475020--5475058	20	2.0	20	94	0	69	38	20	5	35	1.75
5477063--5477094	16	2.0	16	93	0	55	31	21	12	34	1.91
5477230--5477289	18	3.1	20	70	15	54	53	1	1	43	1.20
5477232--5477314	30	2.8	30	82	10	84	48	2	2	46	1.28
5477303--5477381	13	5.6	13	76	20	63	35	5	1	58	1.28
5477305--5477453	22	6.9	22	76	16	93	34	6	4	55	1.44
5477306--5477381	7	10.7	7	75	21	54	36	5	1	56	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5477313--5477399	43	2.0	42	81	14	99	36	6	2	54	1.40
5481461--5482020	240	2.4	239	88	5	811	25	21	18	33	1.97
5481939--5482435	139	3.6	139	92	1	825	24	20	18	36	1.95
5483168--5483338	54	3.2	52	81	5	182	45	18	9	27	1.80
5485259--5485321	22	2.8	22	79	13	67	7	14	0	77	0.97
5485259--5485367	17	6.8	16	69	18	50	5	14	2	77	1.07
5485261--5485353	19	4.6	19	76	7	69	6	13	3	76	1.11
5485338--5485375	14	3.1	12	82	17	51	0	21	0	78	0.74
5486758--5486808	21	2.3	23	80	9	63	60	7	13	17	1.56
5501081--5501419	128	2.6	128	98	0	660	23	24	17	33	1.96
5501791--5501820	15	2.0	15	100	0	60	46	13	6	33	1.69
5501933--5502039	34	3.2	33	81	6	133	36	3	4	55	1.39
5502559--5502652	21	4.5	21	89	5	127	19	25	34	21	1.96
5502572--5502676	42	2.5	41	77	10	122	21	21	34	21	1.97
5502656--5502703	21	2.3	21	85	0	60	22	12	39	25	1.89
5504427--5504515	34	2.7	31	79	6	88	58	2	0	39	1.11
5504427--5504506	34	2.4	33	81	8	92	60	1	0	38	1.05
5504709--5504811	50	2.1	50	90	0	161	19	32	33	15	1.93
5509589--5509655	3	22.3	3	93	0	116	64	0	2	32	1.09
5509856--5510542	138	5.0	138	87	0	912	27	17	27	27	1.97
5510545--5510866	65	4.9	65	88	3	468	40	14	18	27	1.89
5510541--5510669	36	3.8	36	70	12	117	41	13	17	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5511780--5511826	3	16.0	3	86	4	69	63	0	0	36	0.94
5512196--5512240	20	2.2	20	96	0	81	22	26	22	28	1.99
5512066--5512378	158	2.0	156	86	1	437	25	17	29	27	1.98
5512216--5512595	138	2.8	138	87	0	526	25	18	27	27	1.98
5512602--5512740	66	2.1	65	88	4	199	41	14	18	25	1.89
5512616--5512722	36	3.1	36	62	20	84	41	15	18	24	1.90
5512683--5512790	50	2.2	50	94	0	189	39	12	19	28	1.87
5512733--5512969	65	3.6	65	91	0	384	40	13	18	26	1.89
5512617--5512855	115	2.1	116	91	0	390	39	13	19	27	1.89
5512779--5512996	36	6.4	35	69	17	147	39	13	18	28	1.89
5512815--5512931	29	3.8	29	68	22	85	38	13	19	28	1.90
5512909--5513005	37	2.6	37	85	4	117	40	14	16	28	1.88
5512917--5513150	88	2.6	92	78	11	268	40	14	17	28	1.88
5514156--5514704	138	4.0	137	81	6	581	29	15	26	28	1.96
5514707--5515026	65	4.9	65	92	1	509	40	13	19	26	1.88
5514707--5515026	128	2.5	130	92	1	536	40	13	19	26	1.88
5514874--5514980	29	3.5	29	72	16	108	39	12	20	28	1.88
5515011--5515207	88	2.2	91	87	9	278	40	13	15	30	1.86
5515978--5516032	3	18.3	3	84	0	74	63	0	5	30	1.17
5515980--5516036	18	3.2	18	92	0	96	61	0	7	31	1.23
5516237--5516780	138	3.9	138	85	3	650	27	16	28	27	1.97
5516237--5516780	276	2.0	276	84	2	725	27	16	28	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5516852--5517207	36	10.6	36	66	18	178	39	13	17	28	1.88
5516888--5517125	29	7.5	29	66	22	104	39	13	18	27	1.89
5516786--5517172	65	5.9	65	89	1	560	40	13	18	27	1.89
5517603--5517641	20	2.0	20	85	5	53	2	23	7	66	1.30
5518132--5518198	3	23.0	3	93	6	120	67	0	0	32	0.91
5518121--5518202	12	7.2	11	90	5	103	65	0	0	34	0.93
5518404--5518951	138	4.0	139	84	2	651	28	16	27	28	1.97
5519026--5519264	36	7.3	34	62	25	95	41	13	19	25	1.88
5519121--5519228	28	3.5	29	71	18	101	38	13	19	27	1.90
5518954--5519274	65	4.9	65	90	4	488	40	14	19	26	1.89
5518957--5519274	129	2.4	131	90	4	484	41	14	18	25	1.88
5519259--5519452	88	2.1	92	80	10	220	40	11	15	31	1.83
5521872--5521932	24	2.6	23	75	14	61	4	13	3	78	1.03
5521875--5521938	29	2.1	32	83	16	82	3	15	4	76	1.08
5526456--5526559	44	2.4	44	85	3	129	30	19	20	29	1.97
5531909--5531953	19	2.4	19	100	0	90	15	22	35	26	1.94
5533307--5533341	17	2.1	17	88	0	52	25	34	11	28	1.91
5536726--5536767	20	2.1	20	95	0	75	35	16	11	35	1.86
5541832--5541881	23	2.2	23	88	0	73	42	10	6	42	1.63
5541962--5542003	20	2.1	21	91	8	70	35	14	9	40	1.78
5545207--5545258	23	2.4	22	84	9	70	28	26	19	25	1.98
5545468--5545501	17	2.0	17	88	0	50	67	2	0	29	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5545785--5545840	20	2.7	20	80	5	58	26	28	14	30	1.95
5546492--5546534	3	14.7	3	90	4	70	65	0	32	2	1.06
5554400--5554438	21	1.9	20	84	5	51	35	20	15	28	1.93
5559910--5559939	15	2.0	15	100	0	60	66	13	6	13	1.43
5564041--5564091	23	2.3	22	80	6	59	33	27	11	27	1.92
5567187--5567229	17	2.5	17	100	0	86	32	32	0	34	1.58
5572083--5572271	2	107.5	2	69	24	88	56	0	0	42	1.07
5572064--5572230	22	7.2	25	73	16	130	58	0	0	41	0.98
5572064--5572230	34	5.2	34	79	15	210	58	0	0	41	0.98
5572090--5572208	59	2.0	59	98	0	229	58	0	0	41	0.98

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