genome.fa.s1129.2.7.7.80.10.50.1000.66.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  66  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)
15687260--15687354	3	32.0	3	78	10	97	68	2	0	29	1.01
15688491--15688526	18	2.0	18	88	0	54	30	25	19	25	1.98
15692006--15692089	26	3.3	24	78	8	71	75	0	7	17	1.03
15692006--15692066	26	2.4	26	83	2	79	77	0	8	14	0.99
15692026--15692066	15	2.6	16	81	14	50	78	0	7	14	0.96
15692006--15692076	13	5.5	13	72	12	58	74	0	8	16	1.05
15692087--15692111	2	12.5	2	100	0	50	52	0	0	48	1.00
15692335--15692359	2	12.5	2	100	0	50	52	0	0	48	1.00
15692408--15692445	19	2.0	19	85	10	51	63	0	2	34	1.09
15692973--15693077	37	2.8	37	86	0	147	30	14	15	40	1.87
15693681--15693763	32	2.6	32	92	0	139	18	26	30	25	1.98
15693821--15694884	106	10.0	106	92	0	1700	22	18	25	33	1.96
15695396--15695432	18	2.0	19	89	5	58	43	29	5	21	1.75
15695618--15695678	24	2.5	24	91	0	95	40	3	19	36	1.68
15695871--15695919	22	2.2	22	96	0	89	26	10	28	34	1.89
15696394--15696453	28	2.1	28	81	6	68	3	11	6	78	1.06
15696415--15696462	8	5.5	8	80	11	51	2	8	4	85	0.80
15700746--15700781	17	2.1	18	94	5	65	75	0	13	11	1.06
15700748--15700784	9	4.2	9	93	3	58	72	0	16	10	1.10
15700774--15700826	12	4.2	12	77	17	54	75	0	9	15	1.04
15700783--15700833	6	8.0	6	80	10	57	76	0	5	17	0.98
15700820--15700852	4	8.2	4	90	10	50	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15700826--15700870	21	2.1	21	83	0	54	62	0	0	37	0.96
15701561--15701601	21	2.0	21	85	0	55	36	2	0	60	1.10
15701622--15701663	2	21.0	2	90	0	66	45	0	0	54	0.99
15701796--15701859	28	2.2	28	83	8	76	18	0	7	73	1.07
15702557--15702613	18	3.1	18	77	10	62	45	14	0	40	1.44
15702601--15702858	30	8.5	29	77	11	207	40	9	0	49	1.38
15702700--15702828	64	2.0	67	83	10	169	41	9	0	48	1.35
15703022--15703070	23	2.2	23	85	3	64	14	16	18	51	1.77
15703031--15703111	24	3.4	24	75	14	78	12	14	17	55	1.69
15703576--15703635	30	2.0	30	96	0	111	41	10	0	48	1.37
15703666--15703754	30	3.0	30	85	1	117	49	1	6	42	1.36
15703672--15703754	29	2.8	29	83	5	105	51	0	7	40	1.29
15703714--15703773	29	2.1	29	81	6	68	56	1	5	36	1.31
15704458--15704567	37	2.9	37	79	5	121	40	9	4	46	1.56
15705342--15705393	22	2.4	22	96	0	95	40	17	21	21	1.91
15706621--15706670	7	7.1	7	100	0	100	14	28	28	30	1.95
15707578--15707670	3	31.0	3	78	16	86	38	2	1	58	1.17
15707579--15707670	36	2.6	33	78	20	105	39	2	1	57	1.18
15707585--15707670	33	2.7	31	76	16	95	39	2	1	56	1.19
15708758--15708800	16	2.5	17	78	21	54	25	6	2	65	1.30
15712522--15712661	4	35.0	4	86	0	181	45	0	53	1	1.09
15713212--15713383	86	2.0	86	94	2	301	21	19	12	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15715819--15716020	104	1.9	105	93	3	354	53	9	7	29	1.61
15724886--15725698	136	6.0	136	85	1	1047	26	19	17	36	1.94
15724886--15725698	407	2.0	408	87	1	1175	26	19	17	36	1.94
15727304--15727373	34	2.2	33	84	7	90	22	28	15	32	1.95
15727723--15727775	20	2.7	20	85	5	72	32	22	26	18	1.97
15727947--15727999	20	2.7	20	85	5	72	32	22	26	18	1.97
15727621--15728066	224	2.0	227	98	1	862	27	22	24	24	2.00
15728020--15728140	22	5.7	22	83	14	125	21	19	36	22	1.95
15728020--15728140	42	2.9	42	89	7	176	21	19	36	22	1.95
15728020--15728140	21	5.8	19	84	14	134	21	19	36	22	1.95
15729549--15729596	19	2.5	20	82	3	62	29	12	6	52	1.63
15730887--15730939	20	2.7	20	93	0	88	33	20	28	16	1.95
15730974--15731016	22	1.9	23	90	4	70	20	20	32	25	1.97
15730960--15731056	21	4.7	20	81	11	106	23	17	35	23	1.96
15731138--15731196	29	2.0	31	86	6	86	44	16	3	35	1.65
15734992--15735476	81	6.0	81	90	1	713	34	19	10	36	1.85
15734887--15735476	162	3.7	162	88	2	804	34	19	10	35	1.86
15734887--15735477	243	2.5	242	86	3	822	34	19	10	35	1.86
15741160--15741206	22	2.1	22	92	0	76	2	10	25	61	1.39
15742010--15742114	36	2.9	36	92	1	174	17	17	19	46	1.84
15750855--15751535	342	2.0	339	99	0	1335	28	19	18	33	1.96
15753146--15753190	17	2.6	18	74	22	51	55	4	0	40	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15754199--15754277	17	4.6	17	67	14	63	55	2	1	40	1.21
15765591--15765625	18	2.1	18	89	10	56	34	0	65	0	0.93
15766441--15766478	15	2.5	15	100	0	76	39	7	0	52	1.31
15766747--15766815	21	3.3	21	95	0	129	36	26	11	26	1.90
15769332--15769390	25	2.4	25	97	0	109	47	0	0	52	1.00
15776608--15776658	23	2.2	24	86	6	70	58	3	0	37	1.16
15776736--15776819	43	1.9	44	85	7	118	54	0	1	44	1.07
15778306--15778374	3	22.7	3	88	2	102	62	1	0	36	1.04
15778505--15779448	76	12.4	76	94	0	1602	35	20	19	25	1.96
15780119--15780197	22	3.6	22	82	0	113	43	11	11	34	1.77
15784874--15784918	15	3.0	15	80	6	56	0	17	4	77	0.92
15784856--15784917	17	3.2	21	72	23	64	0	17	1	80	0.79
15789761--15789785	9	2.8	9	100	0	50	64	0	0	36	0.94
15790414--15790464	23	2.2	24	86	6	70	58	3	0	37	1.16
15790506--15790582	13	6.2	12	76	13	50	62	1	0	36	1.04
15790537--15790569	11	3.2	11	91	8	52	54	0	0	45	0.99
15790537--15790606	24	3.0	24	79	4	81	58	0	0	41	0.98
15790533--15790609	37	2.1	38	85	7	104	58	0	0	41	0.98
15790873--15790913	17	2.4	17	87	4	55	21	7	0	70	1.11
15791052--15791159	38	2.9	38	75	11	109	19	7	0	72	1.14
15791149--15791187	14	2.8	14	100	0	78	33	12	0	53	1.39
15800157--15800199	22	2.0	22	100	0	86	55	4	18	20	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15803343--15803424	10	7.4	11	72	22	57	9	12	21	56	1.65
15803342--15803417	24	3.2	24	96	0	134	9	13	22	55	1.66
15803353--15803451	14	6.9	14	72	21	71	13	12	18	56	1.67
15803367--15803438	34	2.1	34	92	0	117	12	12	19	55	1.68
15804988--15805148	64	2.5	65	85	7	195	33	18	21	27	1.96
15805864--15806166	149	2.0	147	98	1	579	27	15	20	35	1.94
15806144--15806189	23	2.0	23	91	0	74	21	23	26	28	1.99
15809443--15809603	64	2.5	65	85	7	195	32	18	21	27	1.96
15809921--15809955	18	1.9	18	88	0	52	31	5	17	45	1.71
15810943--15811243	147	2.0	145	97	2	566	27	15	20	35	1.94
15811221--15811266	23	2.0	23	91	0	74	21	23	26	28	1.99
15813540--15813569	14	2.1	14	100	0	60	70	13	0	16	1.18
15815132--15815300	36	4.7	36	83	0	196	48	11	15	24	1.78
15815101--15815300	72	2.8	72	83	3	224	46	11	15	27	1.79
15819158--15819206	24	2.0	24	96	0	89	10	14	22	53	1.71
15819170--15819199	14	2.1	14	93	0	51	6	13	23	56	1.60
15819164--15819219	24	2.3	24	87	0	76	14	10	17	57	1.65
15825647--15825761	35	3.3	35	92	0	176	14	13	31	40	1.86
15825768--15826117	30	11.7	30	98	0	520	22	19	18	39	1.92
15828399--15828423	2	12.5	2	100	0	50	52	0	0	48	1.00
15828922--15828954	15	2.2	15	89	10	50	69	6	0	24	1.10
15830185--15830290	3	33.7	3	85	7	115	59	0	0	39	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15830187--15830290	22	4.5	24	80	13	98	58	0	0	40	1.04
15830549--15831165	45	13.7	45	92	0	946	32	19	24	23	1.98
15831826--15831899	22	3.5	22	81	9	100	39	14	10	35	1.82
15832230--15832366	53	2.6	53	80	1	157	25	22	16	35	1.94
15832230--15832377	54	2.8	52	79	5	152	23	21	16	37	1.93
15835652--15835712	32	1.9	32	96	0	113	19	16	19	44	1.87
15840492--15840597	51	2.1	51	96	0	194	12	27	22	37	1.90
15845724--15845793	23	3.0	23	79	8	70	64	1	4	30	1.21
15846306--15846340	2	17.5	2	100	0	70	51	0	0	48	1.00
15846739--15846780	2	21.0	2	95	0	75	47	0	0	52	1.00

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