genome.fa.s9462.2.7.7.80.10.50.1000.59.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  59  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)
13488787--13488876	38	2.4	38	90	3	137	12	11	37	38	1.78
13488603--13489166	260	2.2	254	90	2	871	24	11	28	35	1.91
13489043--13489136	38	2.5	38	82	3	127	11	9	38	40	1.74
13493011--13493105	30	3.2	30	100	0	190	31	16	6	45	1.73
13500023--13500089	31	2.2	31	83	2	82	40	2	10	46	1.53
13500432--13500467	7	5.3	7	86	6	56	30	16	41	11	1.83
13511155--13511193	14	2.8	14	100	0	78	41	15	7	35	1.76
13513960--13515298	238	5.4	240	84	6	1402	33	16	16	33	1.92
13514297--13515302	259	3.9	256	88	3	1427	32	17	16	33	1.93
13515071--13515192	42	2.9	42	82	1	147	23	22	22	31	1.99
13516600--13516671	5	15.2	5	74	11	62	16	1	5	76	1.05
13516635--13516670	9	3.9	9	92	3	54	13	0	5	80	0.88
13516600--13516689	47	2.0	46	81	14	109	17	1	6	74	1.09
13520431--13520911	36	13.7	35	77	11	452	25	20	15	38	1.92
13520512--13520693	65	2.8	64	88	6	267	27	21	14	36	1.92
13521657--13521848	88	2.2	88	86	0	267	31	22	18	27	1.97
13521524--13521767	132	1.8	132	84	0	335	31	21	19	27	1.97
13521563--13521982	132	3.2	132	78	4	355	30	21	19	27	1.98
13521564--13521983	44	9.5	44	68	7	242	30	21	19	27	1.98
13523149--13523206	31	1.9	31	85	3	82	32	8	24	34	1.86
13526824--13526868	11	4.2	10	81	13	54	13	0	2	84	0.72
13526836--13526872	16	2.2	18	90	9	60	16	0	0	83	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13526836--13526872	6	6.5	6	93	6	60	16	0	0	83	0.64
13526826--13526872	22	2.1	22	88	7	69	14	0	2	82	0.75
13528018--13528099	41	2.0	41	82	2	101	24	18	20	36	1.95
13527996--13528102	42	2.6	42	77	4	119	26	18	20	34	1.96
13528244--13528907	135	4.9	135	83	3	761	29	18	19	32	1.96
13533686--13533754	14	5.2	13	72	18	54	30	1	2	65	1.16
13533687--13533760	18	3.9	18	69	19	53	31	1	2	64	1.15
13534237--13535240	334	3.0	334	95	0	1810	34	18	14	32	1.91
13535199--13535538	54	6.3	54	89	0	446	36	17	12	32	1.88
13538989--13539107	3	39.7	3	89	0	184	67	0	28	4	1.09
13545105--13545232	59	2.2	59	80	2	141	27	17	25	29	1.98
13552241--13552368	59	2.2	59	85	2	168	28	17	25	28	1.98
13557642--13557732	36	2.5	36	100	0	182	25	17	19	37	1.94
13558766--13558814	21	2.5	19	83	9	71	40	0	0	59	0.98
13560154--13560189	17	2.1	17	100	0	72	50	11	19	19	1.77
13561028--13561070	16	2.8	16	82	6	54	48	0	4	46	1.22
13562977--13563081	32	3.3	31	78	11	97	23	5	27	42	1.77
13568296--13568341	23	2.0	23	95	0	83	23	23	30	21	1.99
13574167--13574342	90	2.0	90	98	0	343	39	10	8	41	1.71
13576856--13576914	26	2.3	26	84	0	73	28	8	15	47	1.74
13577115--13577171	25	2.3	24	82	11	62	26	3	8	61	1.42
13583300--13583349	22	2.3	21	77	12	57	58	10	8	24	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13593422--13593497	34	2.2	34	90	0	116	35	19	7	36	1.81
13595379--13595420	10	4.1	10	82	11	50	50	9	21	19	1.75
13603949--13604051	54	1.9	54	84	4	136	30	16	17	35	1.92
13610785--13610828	17	2.5	17	88	3	61	29	11	20	38	1.87
13623691--13623752	5	13.2	5	83	13	78	3	19	56	20	1.56
13623691--13623754	14	4.6	13	86	7	74	3	20	54	21	1.58
13623691--13623752	9	6.6	10	80	14	78	3	19	56	20	1.56
13623761--13623803	20	2.2	20	87	8	61	32	27	20	18	1.96
13630961--13631025	5	13.8	5	73	12	57	4	16	53	24	1.62
13630961--13631022	9	6.7	9	77	5	52	4	16	54	24	1.61
13630960--13631017	18	3.2	18	90	2	89	3	17	55	24	1.57
13630963--13631025	14	4.5	14	74	6	56	4	17	52	25	1.64
13633223--13633299	24	3.2	24	78	14	79	23	16	18	41	1.90
13633267--13633339	25	3.0	24	80	6	83	20	15	20	43	1.87
13634251--13634275	13	1.9	13	100	0	50	52	0	8	40	1.31
13645965--13646025	28	2.1	28	81	3	68	50	4	13	31	1.62
13646997--13647040	21	2.1	21	87	8	63	61	15	2	20	1.45
13659445--13659483	21	1.9	20	89	5	60	28	12	20	38	1.89
13665987--13666021	15	2.3	15	90	0	52	17	28	20	34	1.95
13681052--13681091	21	1.9	21	89	0	62	32	22	20	25	1.98
13681047--13681098	21	2.4	22	77	6	61	32	26	15	25	1.95
13689561--13689607	22	2.1	23	84	4	60	40	10	12	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13698497--13698540	22	1.9	22	86	9	61	13	31	2	52	1.53
13702019--13702127	54	2.0	54	85	0	146	19	13	15	51	1.76
13703836--13704058	85	2.6	85	87	4	272	32	17	19	30	1.95
13704030--13704071	13	3.2	13	89	0	57	38	16	19	26	1.92
13706215--13706265	25	2.0	25	96	0	93	21	9	25	43	1.83
13709397--13709567	20	7.7	20	68	21	99	39	12	25	21	1.89
13709364--13709688	46	7.1	46	93	0	515	41	14	21	22	1.89
13723162--13723335	47	3.5	47	73	11	159	29	22	20	27	1.98
13723303--13723514	83	2.6	82	83	3	228	24	18	19	37	1.94
13723500--13723851	89	4.0	89	89	1	535	29	18	17	34	1.94
13723945--13724109	67	2.5	67	85	5	208	33	18	22	26	1.96
13724172--13724319	63	2.4	61	87	4	208	40	14	16	27	1.88
13724121--13724395	62	4.4	62	79	8	247	37	14	20	27	1.92
13724344--13724434	38	2.4	39	87	5	125	38	15	21	24	1.92
13724406--13724504	29	3.3	29	67	20	85	28	19	26	26	1.99
13724298--13724496	100	2.0	100	90	3	312	34	17	23	25	1.95
13724234--13724557	162	2.0	163	87	1	463	35	15	21	26	1.94
13724384--13724619	124	1.9	125	85	4	334	35	15	22	26	1.94
13723945--13724619	286	2.3	288	79	7	697	35	15	21	27	1.94
13724397--13724620	62	3.6	62	86	3	299	35	16	21	26	1.94
13724166--13724658	224	2.2	223	82	4	589	36	15	20	26	1.93
13724584--13724815	38	6.1	38	83	2	230	37	14	18	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13725623--13725661	20	1.9	21	84	5	53	15	10	28	46	1.78
13730884--13731179	45	6.6	45	90	1	434	30	19	10	39	1.86
13730884--13731179	89	3.3	90	89	2	434	30	19	10	39	1.86
13730881--13731179	134	2.2	134	88	1	445	30	19	10	39	1.86
13731114--13731274	45	3.6	45	88	3	227	27	25	11	34	1.91
13730902--13731267	90	4.1	90	86	3	398	29	21	10	38	1.87
13731695--13731738	22	2.0	22	90	0	70	31	27	13	27	1.94
13731781--13731830	19	2.6	19	87	3	64	24	30	12	34	1.91
13734910--13734951	15	2.6	16	82	17	52	61	0	4	33	1.17
13736195--13736221	3	9.0	3	100	0	54	66	0	0	33	0.92
13738128--13738335	64	3.3	63	77	13	212	32	23	17	26	1.96
13738330--13738374	19	2.4	19	100	0	90	22	31	20	26	1.98
13743649--13743743	44	2.2	42	83	7	120	29	25	18	26	1.98
13746329--13746436	46	2.4	46	78	13	116	32	20	17	29	1.96
13746739--13746774	11	3.4	11	96	3	65	58	8	25	8	1.55
13746731--13746774	21	2.1	21	87	8	63	59	11	20	9	1.59
13749466--13749525	14	4.6	14	72	16	56	15	11	15	58	1.64
13749479--13749529	24	2.1	24	88	0	75	17	9	13	58	1.61
13749696--13749764	10	6.2	10	72	21	57	10	10	18	60	1.56
13749695--13749781	24	3.7	24	89	3	131	11	10	18	59	1.59
13751315--13752113	398	2.0	397	98	0	1526	25	12	9	53	1.68
13754165--13754234	34	2.0	35	86	2	97	51	14	17	17	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13755854--13755882	3	9.7	3	100	0	58	31	0	0	68	0.89
13756177--13756202	4	6.5	4	100	0	52	23	0	0	76	0.78
13757955--13757979	13	1.9	13	100	0	50	16	16	16	52	1.76
13760996--13761151	11	12.5	12	65	21	63	75	1	18	4	1.04
13761013--13761152	30	4.7	29	72	15	81	76	1	18	3	1.01
13761034--13761152	18	6.7	18	72	18	54	75	1	18	4	1.05
13761015--13761152	19	6.9	19	67	15	64	76	1	18	3	1.02
13765095--13765239	61	2.3	64	85	8	199	28	17	27	25	1.98
13771702--13771849	61	2.3	64	81	9	178	29	14	26	29	1.95
13773987--13774412	160	2.7	158	81	6	430	38	15	19	26	1.92

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