genome.fa.s7984.2.7.7.80.10.50.1000.52.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  52  of  65  ( 7696 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)
10306526--10306665	73	1.9	73	86	2	201	33	22	19	24	1.97
10306958--10307029	37	2.0	36	94	2	126	36	20	22	20	1.96
10307044--10307343	51	5.6	54	84	7	314	30	16	23	29	1.96
10311166--10311205	15	2.7	15	100	0	80	30	5	12	52	1.60
10312935--10312995	25	2.4	25	86	0	86	21	27	39	11	1.88
10315393--10315432	15	2.7	15	92	0	71	32	5	12	50	1.62
10317383--10317422	3	13.3	3	94	0	71	65	0	0	35	0.93
10320546--10320583	19	2.1	19	85	9	53	15	23	13	47	1.81
10321444--10321478	12	2.9	12	86	0	52	85	0	2	11	0.69
10326390--10326429	15	2.7	15	92	0	71	32	5	12	50	1.62
10328001--10328030	15	1.9	16	93	6	53	6	13	6	73	1.24
10332996--10333035	15	2.7	15	84	0	62	35	5	10	50	1.58
10337235--10337274	15	2.7	15	100	0	80	30	5	12	52	1.60
10340195--10340224	15	1.9	16	93	6	53	6	13	6	73	1.24
10349406--10349449	17	2.6	17	100	0	88	9	34	15	40	1.79
10353402--10353468	34	2.0	34	82	5	82	37	5	8	47	1.59
10354167--10354287	43	2.8	43	84	5	136	28	16	28	27	1.97
10354185--10354419	43	5.5	43	79	1	211	23	18	26	31	1.98
10354183--10354419	86	2.8	86	84	1	305	24	18	26	30	1.98
10354185--10354439	129	2.0	130	82	5	311	22	18	25	33	1.96
10354228--10354456	43	5.3	43	78	0	224	22	19	24	32	1.97
10358495--10358819	42	7.8	42	83	7	389	33	19	20	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10358495--10358819	83	3.9	84	87	5	448	33	19	20	26	1.96
10358491--10358862	42	9.0	42	81	6	352	33	19	19	26	1.96
10359366--10359447	40	2.0	39	83	6	101	35	15	14	34	1.89
10359363--10359546	41	4.5	42	77	8	157	33	16	14	35	1.88
10359388--10359537	82	1.8	81	85	7	214	36	16	12	35	1.86
10359388--10359709	41	7.9	40	71	14	157	30	17	16	35	1.92
10359631--10359725	42	2.3	40	81	5	100	30	21	14	33	1.93
10360012--10360042	13	2.4	13	94	0	53	32	0	3	64	1.09
10361694--10361739	18	2.6	18	89	0	65	45	13	8	32	1.73
10364465--10364509	22	2.0	22	100	0	90	31	8	13	46	1.74
10365888--10365947	20	3.2	19	79	6	77	70	0	1	28	0.97
10366658--10366698	21	2.0	21	95	0	73	39	12	2	46	1.54
10369209--10369254	24	1.9	24	86	0	65	47	2	0	50	1.13
10369418--10369446	14	2.1	14	100	0	58	20	20	51	6	1.70
10371774--10371813	21	1.9	21	84	0	53	62	7	2	27	1.35
10372036--10372072	18	2.0	19	89	5	58	48	0	2	48	1.15
10372036--10372075	16	2.5	17	76	15	50	47	0	2	50	1.14
10373337--10373384	14	3.5	15	72	18	50	31	0	2	66	1.03
10373201--10373385	101	1.8	99	88	10	286	32	1	4	61	1.24
10373335--10373400	26	2.5	25	76	9	69	33	0	1	65	1.02
10373365--10373416	22	2.4	21	81	15	61	32	0	0	67	0.91
10375030--10375077	21	2.3	21	85	0	60	25	39	12	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10375081--10375173	21	4.5	21	89	8	120	18	35	25	20	1.95
10375087--10375167	41	2.0	41	85	7	110	18	37	23	20	1.94
10375662--10375758	31	3.1	31	76	15	92	53	5	3	38	1.39
10376133--10376731	124	4.8	125	95	2	1098	31	19	26	22	1.98
10376133--10376731	249	2.4	249	96	1	1105	31	19	26	22	1.98
10376799--10376839	8	5.2	8	88	5	66	36	26	0	36	1.57
10376799--10376839	15	2.6	16	84	7	57	36	26	0	36	1.57
10379825--10379862	13	3.0	13	88	3	60	44	0	0	55	0.99
10381557--10381594	18	2.1	18	90	0	58	31	0	10	57	1.32
10383516--10383564	24	2.1	23	84	3	62	44	4	0	51	1.20
10387376--10387488	29	3.8	29	76	9	111	20	7	9	61	1.51
10388259--10388311	23	2.3	23	93	0	88	32	26	20	20	1.98
10389010--10389065	20	2.8	20	80	2	67	25	30	19	25	1.98
10389460--10389530	34	2.1	33	84	2	88	33	14	28	23	1.94
10392445--10392523	21	3.8	21	98	0	149	20	40	18	20	1.92
10392935--10393000	34	2.0	33	84	3	87	33	16	22	27	1.96
10396041--10396072	2	16.0	2	100	0	64	50	0	0	50	1.00
10397788--10397823	18	2.0	19	89	10	58	50	2	0	47	1.15
10397946--10397986	21	2.0	21	90	0	64	39	7	2	51	1.43
10398344--10398377	17	2.0	17	100	0	68	52	0	5	41	1.25
10400792--10400949	21	7.6	21	72	13	139	20	20	24	35	1.96
10400798--10400977	42	4.3	42	90	1	292	21	19	22	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10400798--10400966	21	8.1	20	70	17	105	20	19	23	36	1.95
10401680--10401837	23	7.2	23	79	11	188	38	20	20	20	1.94
10401695--10401938	21	11.6	21	78	9	189	35	23	19	21	1.96
10401681--10401862	42	4.2	42	90	2	256	37	21	20	20	1.95
10401783--10401928	61	2.4	60	88	6	213	33	26	18	21	1.96
10401956--10402020	21	3.1	21	97	0	121	21	18	32	27	1.97
10404971--10405004	12	2.8	12	100	0	68	52	0	0	47	1.00
10404991--10405198	22	9.5	22	85	2	274	43	0	9	46	1.36
10404985--10405198	66	3.2	66	91	1	322	44	0	9	45	1.35
10405222--10405280	31	1.9	31	92	0	100	44	8	5	42	1.57
10407282--10407351	34	2.1	34	91	0	113	44	11	11	32	1.76
10407765--10407807	18	2.5	17	85	7	61	25	4	2	67	1.22
10407764--10407883	62	2.0	59	80	15	131	31	3	2	62	1.25
10408318--10408353	2	18.0	2	100	0	72	50	0	0	50	1.00
10410808--10410846	8	5.0	8	84	6	53	10	17	12	58	1.61
10411955--10412039	7	11.3	7	78	15	73	81	5	12	0	0.87
10411955--10412039	15	5.6	14	75	18	73	81	5	12	0	0.87
10411959--10412006	11	3.8	12	83	16	53	85	6	8	0	0.74
10411955--10412069	44	2.6	44	82	9	130	78	6	14	0	0.99
10411952--10412056	9	11.7	9	71	19	69	80	5	13	0	0.95
10411983--10412067	27	3.2	28	76	14	76	77	7	14	1	1.03
10412686--10412740	22	2.5	22	100	0	110	36	27	12	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10413155--10413190	18	2.0	18	88	0	54	19	8	30	41	1.81
10413670--10413951	36	8.0	36	78	8	294	26	19	14	40	1.89
10413628--10413813	72	2.6	73	87	4	229	26	20	15	37	1.93
10413726--10413914	102	1.9	102	86	2	272	27	18	13	40	1.88
10413696--10414014	138	2.3	137	83	2	388	28	19	12	39	1.89
10413909--10414066	67	2.4	67	85	5	196	32	21	8	37	1.83
10413900--10414066	65	2.5	65	83	4	192	31	21	8	38	1.83
10414725--10415346	105	6.0	105	89	2	914	34	26	17	22	1.96
10415895--10415963	34	2.0	34	94	0	120	42	11	14	31	1.82
10416376--10416418	18	2.5	17	85	7	61	25	4	2	67	1.22
10416920--10416947	2	14.0	2	100	0	56	50	0	0	50	1.00
10420778--10420815	18	2.1	19	85	14	53	55	2	2	39	1.28
10423253--10423327	20	3.7	21	76	5	73	25	20	29	25	1.99
10423276--10423327	21	2.5	20	84	3	68	26	19	26	26	1.99
10435681--10435708	14	2.0	14	100	0	56	21	35	7	35	1.81
10436990--10437041	23	2.3	23	86	3	70	44	21	9	25	1.82
10437079--10437118	21	1.9	21	90	10	64	35	20	17	27	1.95
10440801--10440836	18	1.9	19	88	5	56	25	0	8	66	1.19
10440942--10440975	10	3.3	10	87	4	50	0	8	17	73	1.08
10440973--10441030	9	6.4	9	73	15	57	17	5	3	74	1.15
10441655--10441679	13	1.9	13	100	0	50	28	40	16	16	1.89
10444879--10445060	95	1.9	95	89	2	285	32	19	18	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10446326--10446609	72	3.9	72	91	0	426	29	16	12	41	1.85
10446410--10446609	36	5.6	35	68	8	116	31	17	11	40	1.85
10446610--10446686	39	2.0	39	89	0	118	27	19	11	41	1.86
10446715--10446789	39	1.9	39	86	0	105	26	21	13	38	1.90
10446805--10446890	36	2.4	36	86	3	111	22	22	15	40	1.90
10446611--10447121	101	5.0	102	94	2	819	29	19	12	37	1.88
10446906--10446991	36	2.4	36	86	3	111	24	22	12	40	1.89
10447007--10447076	37	1.9	37	85	2	97	24	20	11	44	1.84
10447006--10447089	37	2.3	36	81	2	96	25	20	10	44	1.83
10448596--10448634	17	2.4	16	86	4	51	25	2	0	71	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