genome.fa.s9462.2.7.7.80.10.50.1000.58.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  58  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)
13257126--13257303	36	4.9	36	82	6	200	23	18	16	41	1.90
13258619--13258796	36	4.9	36	82	6	191	24	18	16	39	1.91
13258616--13258788	72	2.4	71	84	2	211	23	19	16	41	1.90
13260118--13260295	36	4.9	36	82	6	200	23	18	17	39	1.92
13261618--13261795	36	4.9	36	81	8	175	22	18	18	40	1.91
13263146--13263290	36	4.0	36	84	5	186	25	18	16	39	1.91
13264647--13264791	36	4.0	36	84	5	186	25	18	16	39	1.91
13266151--13266290	36	3.9	36	85	5	176	24	19	17	38	1.93
13267647--13267782	72	1.9	72	85	0	191	22	18	17	41	1.90
13267646--13267778	36	3.7	36	86	0	167	24	18	16	41	1.90
13274931--13274991	26	2.3	26	80	5	70	73	4	9	11	1.23
13274987--13275057	25	2.9	24	73	20	67	77	1	11	9	1.06
13275126--13275183	18	3.2	19	81	13	61	70	0	0	29	0.87
13275139--13275185	18	2.5	19	83	13	62	65	0	0	34	0.93
13275215--13275258	17	2.5	17	81	7	52	45	6	15	31	1.73
13276270--13276373	2	55.5	2	75	16	98	48	1	1	48	1.24
13278185--13278223	18	2.2	18	86	4	53	5	17	0	76	0.96
13288698--13288730	13	2.5	13	95	0	57	81	0	3	15	0.80
13288844--13288878	6	5.8	6	87	12	54	68	0	2	28	1.04
13288839--13288879	12	3.5	11	84	12	55	73	0	2	24	0.96
13288943--13288977	10	3.7	10	85	14	56	80	0	0	20	0.72
13288943--13288977	14	2.5	14	82	17	54	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13288941--13288977	18	2.2	16	90	9	56	81	0	0	18	0.70
13289213--13289246	11	3.0	11	83	8	50	29	23	29	17	1.97
13291682--13291742	24	2.5	24	94	0	104	52	8	19	19	1.71
13291892--13291942	15	3.3	15	73	24	52	39	1	0	58	1.09
13300985--13301010	13	2.0	13	100	0	52	38	7	23	30	1.83
13301354--13301402	24	2.1	22	85	7	62	55	8	2	34	1.41
13301361--13301418	22	2.5	23	86	10	75	56	10	5	27	1.54
13304267--13304314	20	2.3	22	75	17	57	31	14	20	33	1.93
13305251--13305287	12	3.1	12	96	0	65	27	29	8	35	1.85
13313498--13313550	26	2.0	27	82	10	65	47	16	0	35	1.48
13318927--13319005	27	3.1	27	62	20	71	30	26	1	41	1.64
13321509--13321588	25	3.2	26	77	10	69	33	31	11	23	1.90
13321516--13321580	21	3.1	21	84	8	96	33	32	9	24	1.87
13321509--13321584	17	4.5	17	76	12	59	32	31	11	23	1.91
13322361--13322409	20	2.5	20	86	0	71	34	20	18	26	1.95
13340534--13340563	15	1.9	16	93	6	53	80	0	13	6	0.91
13342220--13342273	29	2.0	29	89	10	87	48	0	7	44	1.31
13342609--13342657	19	2.5	19	80	3	53	51	10	2	36	1.48
13346777--13346835	31	1.9	31	82	0	73	33	18	1	45	1.60
13357302--13357340	18	2.1	19	90	4	62	5	15	5	74	1.17
13360578--13360616	20	2.0	20	100	0	78	48	10	5	35	1.59
13360671--13360947	54	5.1	54	89	1	412	38	18	11	31	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13367412--13367635	54	4.1	54	86	4	326	39	17	10	32	1.84
13368042--13368098	20	2.8	19	84	10	69	22	17	14	45	1.84
13368064--13368135	19	3.6	19	84	5	90	31	13	12	41	1.82
13373900--13373954	22	2.6	21	80	5	67	27	16	27	29	1.97
13374380--13374512	27	5.4	27	64	30	84	44	9	20	25	1.82
13374349--13374532	47	3.9	47	91	2	280	44	9	20	25	1.82
13374406--13374647	114	2.1	114	91	0	385	43	9	22	23	1.83
13374520--13374754	47	5.0	47	87	2	339	44	9	22	23	1.82
13374360--13374556	94	2.2	91	83	9	224	43	10	21	23	1.84
13374453--13374599	67	2.2	67	91	2	233	44	8	23	23	1.81
13374360--13374693	20	14.6	20	67	23	137	43	10	22	24	1.84
13375414--13375487	30	2.5	31	80	12	93	45	4	8	41	1.52
13375451--13375615	35	4.8	34	70	18	108	45	3	7	44	1.47
13375478--13375573	35	2.7	35	88	3	131	51	4	6	38	1.47
13375696--13375742	16	2.9	16	76	20	53	19	6	2	72	1.17
13381774--13381822	24	2.0	24	100	0	98	42	12	12	32	1.79
13381996--13382024	12	2.3	13	94	5	51	51	17	0	31	1.45
13388904--13388952	24	2.0	24	96	0	89	42	14	12	30	1.82
13389126--13389154	12	2.3	13	94	5	51	51	17	0	31	1.45
13390314--13390384	30	2.4	30	83	9	83	40	16	4	38	1.68
13390341--13390402	29	2.1	30	81	3	72	40	19	3	37	1.68
13392859--13392924	10	6.8	10	76	11	66	16	22	31	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13392859--13392926	19	3.5	19	88	6	84	16	25	30	27	1.96
13392920--13392977	17	3.4	17	97	0	107	17	41	24	17	1.90
13392967--13393009	7	6.4	7	89	10	72	16	30	30	23	1.96
13392967--13393005	13	3.0	13	100	0	78	15	30	30	23	1.95
13392967--13393009	20	2.2	20	91	8	70	16	30	30	23	1.96
13400165--13400243	10	8.1	10	76	10	83	18	24	30	26	1.98
13400183--13400238	29	1.9	29	92	7	96	17	26	32	23	1.97
13400181--13400243	19	3.2	20	84	6	85	17	23	31	26	1.97
13400239--13400296	17	3.4	17	95	0	98	17	39	24	18	1.92
13400286--13400315	7	4.4	7	91	8	53	16	30	30	23	1.96
13400286--13400311	13	2.0	13	100	0	52	15	30	30	23	1.95
13405261--13405303	12	3.6	12	78	12	52	53	4	2	39	1.34
13405877--13405937	30	2.0	32	83	6	81	54	4	3	37	1.39
13409093--13409141	23	2.1	23	85	7	64	77	0	12	10	0.99
13413498--13413548	23	2.2	23	100	0	102	25	7	21	45	1.79
13417996--13418303	150	2.1	150	85	1	411	29	13	21	35	1.92
13419961--13419997	16	2.4	15	90	4	56	35	0	10	54	1.36
13426467--13427530	139	7.7	139	86	3	1441	26	21	16	35	1.95
13438867--13438918	23	2.3	23	82	0	59	15	9	32	42	1.79
13438946--13439014	3	23.0	3	96	0	129	66	0	1	31	1.00
13444966--13445048	33	2.5	32	80	9	85	67	1	12	19	1.29
13445024--13445078	15	3.5	15	79	16	58	70	1	3	23	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13446200--13446349	5	30.2	5	73	19	75	57	0	1	40	1.12
13446184--13446317	13	10.1	13	69	19	55	63	0	1	34	1.09
13446335--13446423	41	2.1	40	85	8	115	46	5	2	46	1.39
13446340--13446635	38	7.9	36	70	20	150	43	7	3	44	1.49
13446330--13446425	43	2.2	44	82	14	119	45	5	2	46	1.37
13446378--13446646	110	2.4	111	82	7	307	43	8	3	44	1.52
13455464--13455521	29	2.0	30	82	3	73	68	0	5	25	1.10
13456611--13456742	5	27.6	5	72	24	99	61	0	1	36	1.11
13456604--13456749	9	15.7	9	68	19	77	63	0	1	34	1.08
13456616--13456762	20	7.9	19	70	23	93	61	1	1	36	1.13
13456617--13456766	54	2.9	47	72	19	102	61	1	1	36	1.13
13456609--13456764	41	3.8	40	76	12	113	61	1	1	35	1.12
13456656--13456767	10	11.4	10	71	16	65	58	0	1	39	1.15
13456767--13456799	17	1.9	17	93	0	57	45	6	3	45	1.43
13456747--13456842	41	2.3	42	85	8	126	51	5	2	41	1.36
13456841--13456867	13	2.1	13	100	0	54	40	7	7	44	1.60
13456748--13456985	37	6.3	37	78	10	205	44	8	4	42	1.54
13456957--13456987	14	2.2	14	94	0	53	41	16	0	41	1.48
13456991--13457070	38	2.1	37	90	2	124	45	11	2	41	1.53
13456907--13457066	88	1.8	87	88	7	245	43	10	3	42	1.57
13456925--13457104	88	2.0	88	80	10	199	46	12	3	37	1.60
13458775--13458816	22	2.0	21	86	13	61	38	7	2	52	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13462268--13462342	31	2.5	30	78	8	80	32	17	4	46	1.66
13463847--13463882	2	18.5	2	94	5	65	50	0	0	50	1.00
13467424--13467497	19	3.7	20	75	12	71	29	14	21	33	1.94
13471164--13471682	107	4.8	109	86	8	701	27	28	15	28	1.96
13471164--13471682	160	3.2	161	89	6	768	27	28	15	28	1.96
13471176--13471682	267	1.9	270	88	7	775	28	27	15	28	1.96
13485499--13485751	36	7.1	35	73	8	163	30	11	18	39	1.86
13486425--13486460	18	2.0	18	94	0	63	47	0	19	33	1.50
13486688--13486729	21	2.0	21	95	0	75	19	16	0	64	1.30
13486709--13486798	45	2.0	45	82	0	108	38	20	5	35	1.76

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