genome.fa.s9462.2.7.7.80.10.50.1000.24.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  24  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)
4864178--4864228	20	2.5	20	96	0	93	17	21	21	39	1.93
4864239--4864305	20	3.3	20	72	12	73	35	20	23	19	1.95
4864220--4864321	41	2.5	41	86	0	150	35	18	24	21	1.96
4865258--4865310	28	1.9	27	81	11	63	52	13	7	26	1.66
4877451--4877489	2	19.5	2	100	0	78	48	0	0	51	1.00
4896107--4896218	55	2.0	55	100	0	224	29	10	19	40	1.85
4897547--4897579	2	16.5	2	100	0	66	51	0	0	48	1.00
4897627--4897663	18	2.1	18	100	0	74	43	18	0	37	1.51
4902171--4902215	23	2.0	23	95	0	81	20	11	20	48	1.79
4902356--4902395	16	2.5	16	83	0	53	50	2	0	47	1.14
4902438--4902494	29	2.0	29	82	0	69	28	8	24	38	1.85
4903463--4903487	13	1.9	13	100	0	50	0	16	0	84	0.63
4903544--4903597	19	2.8	19	100	0	108	14	16	14	53	1.73
4903993--4904022	13	2.3	13	94	0	51	33	20	20	26	1.97
4907278--4907318	20	2.0	20	85	4	55	26	7	12	53	1.64
4912910--4912957	18	2.7	18	80	3	62	72	0	12	14	1.11
4913224--4913323	23	4.4	22	72	15	71	61	0	6	33	1.21
4913255--4913329	21	3.8	18	75	16	60	66	0	5	28	1.13
4913305--4913335	14	2.2	14	94	0	53	67	0	0	32	0.91
4914679--4914876	110	1.8	110	87	4	301	22	17	22	37	1.93
4915609--4915660	22	2.4	22	100	0	104	44	3	21	30	1.70
4915631--4915783	65	2.3	65	84	5	182	38	7	20	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4915762--4915844	22	4.2	21	60	20	52	42	14	18	25	1.88
4915864--4915952	36	2.5	36	92	0	151	38	11	21	29	1.88
4915942--4916074	44	3.2	44	72	14	154	33	10	22	33	1.88
4915967--4916113	37	3.8	37	76	11	141	34	12	22	30	1.92
4915942--4916108	81	2.1	81	95	0	298	33	11	21	33	1.89
4917586--4917721	69	2.0	69	91	0	218	25	16	23	35	1.95
4917794--4917842	13	3.8	13	84	15	66	2	18	4	75	1.06
4917793--4917844	27	2.0	25	92	7	86	3	17	3	75	1.11
4920958--4921011	19	3.0	17	76	12	54	74	1	3	20	1.07
4921042--4921089	18	2.7	18	80	3	62	72	0	12	14	1.11
4921225--4921258	2	17.5	2	93	6	61	52	0	0	47	1.00
4921250--4921333	39	2.2	38	91	6	136	66	2	3	27	1.20
4921250--4921344	39	2.5	39	85	9	119	65	3	4	27	1.26
4921370--4921427	20	2.8	20	84	10	64	63	0	1	34	1.04
4921365--4921423	16	3.9	15	84	8	75	59	1	1	37	1.18
4921382--4921454	23	3.1	23	75	16	62	67	0	5	27	1.13
4926901--4926988	43	2.0	43	93	0	149	38	5	7	47	1.56
4927404--4927428	11	2.3	11	100	0	50	32	0	8	60	1.26
4927425--4927454	13	2.3	13	100	0	60	30	26	0	43	1.55
4927598--4927636	18	2.2	18	86	4	53	25	0	5	69	1.09
4931673--4931752	26	3.1	26	94	0	133	18	15	30	36	1.92
4932855--4932903	17	2.8	17	93	3	80	16	16	24	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4934379--4934430	19	2.7	19	85	8	61	34	13	5	46	1.67
4934918--4934954	15	2.5	15	91	4	58	5	21	0	72	1.04
4956004--4956116	42	2.8	40	86	5	158	19	10	23	46	1.80
4956468--4956513	22	2.1	22	100	0	92	23	8	4	63	1.42
4957699--4957725	2	13.5	2	100	0	54	51	0	0	48	1.00
4958970--4959033	8	8.4	8	78	16	73	34	1	0	64	1.03
4958958--4959033	16	5.1	15	77	16	70	32	1	1	64	1.10
4958974--4959040	16	4.3	15	75	7	55	35	1	0	62	1.04
4963015--4963052	20	1.9	20	88	0	58	13	26	34	26	1.93
4969759--4969795	18	2.0	20	84	10	51	35	5	5	54	1.47
4969852--4970205	191	1.8	192	86	3	507	39	11	11	37	1.77
4971408--4971445	15	2.5	15	95	0	67	23	7	36	31	1.84
4974907--4974957	22	2.5	20	71	9	50	62	1	11	23	1.39
4975714--4975770	2	28.5	2	100	0	114	49	0	0	50	1.00
4975824--4975866	2	21.5	2	90	9	70	48	0	2	48	1.14
4977233--4977284	21	2.5	21	100	0	104	36	19	15	28	1.92
4977043--4977430	214	1.8	211	83	3	510	40	14	15	29	1.87
4980726--4980759	18	1.9	18	88	5	52	8	26	14	50	1.72
4981456--4982050	211	2.8	211	86	4	819	36	12	13	37	1.83
4982377--4982814	200	2.2	200	87	4	639	41	13	12	32	1.82
4982928--4982960	15	2.2	15	100	0	66	27	21	18	33	1.96
4982992--4983022	11	2.8	11	100	0	62	45	0	9	45	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4983005--4983625	226	2.8	223	84	4	759	32	13	12	40	1.83
4985387--4985412	9	2.9	9	100	0	52	19	0	0	80	0.71
4991373--4991416	21	2.1	21	83	8	54	61	2	2	34	1.21
4992496--4992542	2	23.5	2	100	0	94	48	0	0	51	1.00
4993663--4993711	21	2.3	21	92	0	80	53	18	0	28	1.45
4993661--4993725	21	2.8	22	84	13	78	50	18	0	30	1.47
4997658--4997909	138	1.8	138	90	1	407	27	15	18	38	1.90
5008240--5008283	22	2.2	20	84	15	56	27	34	11	27	1.91
5026568--5026610	20	2.2	20	86	0	59	34	20	13	30	1.92
5028286--5028395	42	2.6	42	100	0	220	32	30	16	20	1.95
5029458--5029607	41	3.7	41	80	1	140	38	18	16	27	1.92
5029450--5029616	41	4.1	41	80	1	138	35	18	17	28	1.93
5029926--5030054	44	2.9	44	89	2	188	40	15	14	29	1.87
5030350--5030555	83	2.5	83	84	1	243	31	19	17	32	1.95
5030621--5030669	21	2.3	21	92	0	80	22	40	28	8	1.82
5030642--5030699	30	1.9	30	89	0	89	22	41	27	8	1.83
5030672--5030712	21	2.0	21	90	0	64	24	34	29	12	1.91
5037073--5037119	23	2.0	23	84	8	60	72	4	6	17	1.22
5037885--5037934	3	17.0	3	80	19	61	66	0	0	34	0.92
5037988--5038021	2	17.0	2	88	11	52	50	0	2	47	1.16
5038028--5038159	22	6.2	22	77	9	123	43	9	1	45	1.46
5038013--5038153	44	3.2	43	77	17	146	43	9	2	44	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5039551--5039592	6	7.0	6	100	0	84	50	0	50	0	1.00
5048129--5048289	82	2.0	82	86	4	227	40	6	9	42	1.65
5049726--5049800	37	2.0	37	94	0	132	30	21	9	38	1.85
5050104--5050141	20	1.9	20	88	0	58	78	2	0	18	0.86
5051087--5051124	17	2.2	18	85	4	51	57	0	0	42	0.98
5051091--5051140	24	2.0	25	85	11	68	62	0	0	38	0.96
5051559--5051630	33	2.2	33	100	0	144	40	9	18	31	1.83
5056537--5056662	64	2.0	64	85	0	171	30	16	19	32	1.94
5056602--5056769	83	2.0	84	83	3	214	36	17	19	27	1.94
5056606--5056797	83	2.3	83	80	4	210	36	18	18	26	1.94
5056886--5057280	83	4.8	83	79	4	351	34	14	18	31	1.91
5057054--5057181	40	3.2	40	68	12	107	31	12	20	35	1.90
5057063--5057197	42	3.2	42	66	13	116	32	17	20	30	1.95
5057062--5057280	77	2.8	78	83	4	253	36	16	19	27	1.93
5059738--5059782	22	2.0	22	100	0	90	31	0	17	51	1.46
5064066--5064366	150	2.0	150	100	0	602	33	15	17	33	1.91
5065747--5065961	44	4.9	43	76	7	200	29	18	18	33	1.95
5065719--5065961	86	2.8	88	79	3	269	29	17	18	34	1.94
5067249--5067360	3	35.3	3	72	13	73	59	1	2	35	1.22
5067245--5067283	20	1.9	21	89	5	62	58	0	2	38	1.12
5067462--5067510	25	2.0	25	91	0	80	26	14	18	40	1.89
5068713--5068750	3	12.7	3	100	0	76	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5069170--5069212	17	2.6	17	88	3	61	62	0	0	37	0.95
5070117--5070220	45	2.3	45	84	0	127	24	22	31	22	1.98
5072259--5072305	17	2.8	17	93	0	76	17	19	34	29	1.94
5072258--5072318	5	11.2	6	78	16	53	18	18	31	32	1.94
5072597--5072637	21	2.0	21	95	0	73	51	9	7	31	1.62
5072777--5073231	152	3.0	152	97	1	871	29	20	23	27	1.98
5075227--5075505	18	15.5	18	67	15	125	25	5	20	48	1.71
5075207--5075509	36	8.4	36	86	5	364	26	5	20	47	1.72
5075477--5075532	20	2.8	20	83	2	60	28	3	19	48	1.66
5075494--5075539	20	2.3	19	82	10	56	28	4	19	47	1.68

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