genome.fa.s9639.2.7.7.80.10.50.1000.27.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  27  of  62  ( 7398 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)
5888385--5888483	29	3.3	29	85	7	119	77	0	17	5	0.94
5888397--5888494	10	10.4	9	74	13	65	77	0	18	4	0.92
5888374--5888508	18	7.6	17	70	19	55	75	0	19	5	0.98
5888397--5888509	28	4.0	26	77	18	111	77	0	17	4	0.92
5890462--5890985	55	9.8	55	83	6	454	32	9	16	41	1.80
5890462--5891134	53	12.6	54	82	6	466	31	9	17	41	1.82
5890462--5890985	109	4.9	107	82	6	489	32	9	16	41	1.80
5890688--5890891	101	2.0	100	84	2	266	31	9	16	43	1.79
5890806--5891190	53	7.2	53	83	4	409	29	10	17	42	1.83
5890796--5891247	159	2.8	159	84	4	575	29	10	17	41	1.84
5891352--5891393	21	2.0	21	85	0	57	28	16	28	26	1.97
5891178--5891636	254	1.8	254	93	0	792	27	15	21	34	1.94
5891734--5891863	39	3.4	38	84	4	172	32	20	13	34	1.90
5891814--5892099	72	3.9	73	80	7	323	31	19	11	37	1.88
5891741--5892105	146	2.5	145	78	8	330	31	19	12	36	1.89
5892168--5892277	36	3.1	36	75	12	118	32	20	6	40	1.78
5892781--5892881	42	2.4	41	85	8	125	28	22	19	28	1.98
5892944--5893007	17	3.3	19	67	20	51	40	12	23	23	1.88
5892822--5893211	199	2.0	199	87	2	559	35	19	19	25	1.96
5894262--5894338	30	2.6	30	76	12	77	48	3	12	35	1.60
5895458--5895502	21	2.2	21	84	11	58	42	4	15	37	1.67
5897727--5897774	24	2.0	24	100	0	96	41	12	12	33	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5898951--5899009	31	1.9	31	89	0	91	33	32	5	28	1.79
5902947--5903461	257	2.0	258	99	0	1023	23	21	16	38	1.92
5905405--5905451	24	2.0	24	100	0	94	44	8	12	34	1.73
5906667--5906725	31	1.9	31	89	0	91	33	33	3	28	1.74
5909332--5909376	24	1.9	23	82	13	56	22	6	22	48	1.73
5912862--5912910	21	2.4	20	86	10	64	36	0	20	42	1.52
5922183--5922236	21	2.7	20	76	2	54	33	22	14	29	1.94
5924667--5924719	23	2.3	23	90	0	79	32	22	26	18	1.97
5924822--5924905	30	2.8	30	75	8	91	39	17	5	36	1.75
5924822--5924906	15	5.7	15	65	8	57	38	17	5	37	1.74
5925389--5925438	21	2.5	20	87	9	66	32	26	12	30	1.92
5925782--5925834	25	2.0	28	82	17	69	39	26	0	33	1.57
5932905--5932965	23	2.7	23	84	0	86	36	19	19	24	1.95
5932990--5933068	21	3.8	21	96	0	140	20	16	29	34	1.94
5932978--5933068	42	2.2	42	86	4	121	23	17	27	31	1.97
5951955--5952039	30	2.8	30	72	0	80	38	18	7	35	1.78
5951971--5952039	15	4.6	15	78	7	68	39	18	8	33	1.82
5951955--5952040	15	5.7	15	75	5	57	38	18	6	36	1.78
5952502--5952573	20	3.5	20	78	15	69	29	25	12	33	1.92
5955550--5955676	60	2.1	59	84	7	159	33	16	14	35	1.90
5955825--5955931	3	35.0	3	92	3	178	31	1	0	65	1.10
5956896--5956933	10	4.0	10	80	13	53	0	44	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5957698--5957775	30	2.6	30	73	16	72	19	19	7	53	1.68
5957766--5957847	29	2.8	30	81	1	85	14	14	13	57	1.66
5958168--5958201	17	1.9	18	88	5	52	41	2	0	55	1.15
5959679--5959740	32	1.9	32	96	0	115	16	14	9	59	1.60
5960250--5960296	6	7.5	6	81	11	51	14	19	12	53	1.73
5960256--5960285	15	2.1	15	93	6	53	13	20	13	53	1.72
5960250--5960289	21	2.0	20	90	5	62	15	20	15	50	1.79
5961574--5961648	15	5.2	14	77	16	73	76	10	13	0	1.03
5961571--5961677	45	2.3	47	81	9	132	77	10	11	0	1.04
5961623--5961667	18	2.4	19	85	10	58	77	11	8	2	1.07
5961581--5961728	11	13.4	11	71	20	78	73	10	13	2	1.19
5962825--5962878	4	14.0	4	75	21	53	50	27	0	22	1.50
5962825--5962870	12	3.7	12	91	5	65	50	28	0	21	1.49
5963350--5963505	36	4.3	36	81	8	165	35	18	10	35	1.85
5963271--5963786	107	4.9	105	77	10	439	33	16	10	39	1.83
5963762--5963920	36	4.4	36	85	1	167	32	17	12	37	1.88
5963797--5963935	36	3.9	36	81	3	136	33	16	12	37	1.86
5964292--5964352	31	2.0	31	86	0	86	34	11	8	45	1.70
5964620--5964680	31	1.9	31	87	9	88	31	13	13	42	1.82
5964904--5964975	32	2.2	33	80	2	92	38	16	9	34	1.82
5965112--5965191	28	2.9	28	83	3	90	22	16	15	46	1.84
5965199--5965554	134	2.7	133	85	2	471	28	30	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5965482--5965597	43	2.8	39	72	11	108	24	32	18	25	1.97
5965743--5965800	3	18.7	3	89	7	89	31	3	0	65	1.09
5966770--5966807	10	4.0	10	80	13	53	0	44	0	55	0.99
5967619--5967689	29	2.4	30	85	2	90	15	14	11	59	1.62
5967573--5967725	30	5.1	30	73	8	89	13	16	11	58	1.64
5968021--5968054	17	1.9	18	88	5	52	41	2	0	55	1.15
5974748--5974821	37	2.0	37	86	0	103	36	16	8	39	1.78
5975905--5976034	59	2.2	59	97	2	244	39	6	26	28	1.80
5977083--5977132	23	2.2	23	81	0	55	52	20	6	22	1.68
5977089--5977133	23	2.0	23	86	0	63	51	15	6	26	1.68
5977422--5977607	43	4.3	43	86	2	250	27	18	26	26	1.98
5978553--5978595	19	2.1	20	83	12	52	55	4	11	27	1.55
5981213--5981601	83	4.7	81	76	4	305	28	18	20	32	1.96
5981208--5981603	164	2.4	164	87	1	551	28	18	19	32	1.96
5982543--5982617	34	2.2	35	87	2	107	40	10	9	40	1.72
5983330--5983380	26	2.0	25	84	3	66	25	1	7	64	1.31
5983539--5983601	31	2.0	31	87	0	90	30	9	14	46	1.76
5983757--5983789	2	17.0	2	87	6	50	45	0	0	54	0.99
5984018--5984070	11	4.6	11	73	17	54	28	20	24	26	1.99
5984018--5984092	35	2.1	35	90	4	116	29	22	21	26	1.99
5984045--5984149	11	9.2	11	68	12	50	29	22	15	32	1.95
5984742--5984775	14	2.4	14	85	0	50	29	5	0	64	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5985609--5985671	11	5.9	11	73	14	60	39	1	1	57	1.18
5987652--5987688	6	6.2	6	100	0	74	48	18	0	32	1.49
5992873--5993429	199	2.8	199	83	5	633	29	20	17	32	1.96
5997275--5997299	13	1.9	13	100	0	50	52	0	0	48	1.00
5997268--5997639	35	10.3	35	78	9	320	42	8	3	45	1.53
5997333--5997640	37	8.4	36	79	11	265	41	9	3	45	1.55
5997267--5997626	71	5.0	71	82	7	361	42	9	3	44	1.54
5997333--5997682	35	9.5	37	75	14	137	42	8	4	45	1.54
6002495--6002549	28	2.0	28	100	0	110	25	10	23	40	1.87
6004614--6004888	69	4.0	69	97	1	518	43	12	16	27	1.84
6004614--6004888	136	2.0	137	97	1	516	43	12	16	27	1.84
6005793--6006027	124	1.9	124	96	0	434	41	21	10	25	1.85
6006046--6006114	7	9.9	7	78	9	61	66	0	21	11	1.23
6006137--6006208	3	23.7	3	97	2	135	66	0	33	0	0.92
6006015--6006174	83	1.9	82	91	3	259	62	1	19	16	1.42
6006310--6006907	3	201.7	3	82	8	699	60	0	38	0	1.05
6007074--6007118	7	6.4	7	94	0	81	71	0	15	13	1.15
6007905--6007967	21	3.0	21	88	0	81	31	28	14	25	1.95
6015760--6015820	19	3.2	19	75	11	61	22	31	29	16	1.96
6020908--6020980	12	6.3	12	72	13	64	45	0	0	54	0.99
6022344--6022382	2	19.5	2	100	0	78	48	0	0	51	1.00
6022627--6022663	2	19.5	2	83	10	51	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6022343--6022681	142	2.4	137	75	16	359	38	5	6	48	1.53
6023135--6023226	28	3.2	28	80	6	78	32	5	1	60	1.26
6023142--6023214	28	2.8	27	80	10	80	32	5	1	60	1.28
6023154--6023226	28	2.6	30	85	8	91	31	5	1	61	1.27
6028694--6028723	12	2.5	12	100	0	60	60	10	30	0	1.30
6036601--6037276	114	6.0	113	88	3	864	38	14	19	26	1.91
6036988--6037032	24	1.9	23	82	13	56	53	6	24	15	1.66
6037639--6037725	12	6.7	12	71	20	50	29	0	1	68	0.96
6037667--6037700	12	2.8	12	95	4	59	38	0	0	61	0.96
6037641--6037723	31	2.8	29	78	10	96	31	0	1	67	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