genome.fa.s9634.2.7.7.80.10.50.1000.28.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  28  of  78  ( 9351 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)
5784558--5784664	55	1.9	55	90	0	169	22	21	13	42	1.87
5788900--5788965	30	2.2	30	80	0	78	34	24	30	10	1.89
5790215--5790411	39	5.1	39	82	5	238	37	12	2	48	1.54
5791847--5791925	2	39.5	2	100	0	158	49	0	0	50	1.00
5793342--5793369	2	14.0	2	100	0	56	50	0	0	50	1.00
5794861--5794906	22	2.0	25	87	12	71	45	2	0	52	1.13
5795030--5795081	11	4.7	11	80	0	68	40	1	1	55	1.22
5795030--5795089	22	2.8	21	87	2	84	38	1	3	56	1.26
5796144--5796187	13	3.1	14	87	6	54	18	2	9	70	1.24
5806651--5806819	72	2.3	72	94	0	293	37	18	23	20	1.94
5806651--5806817	36	4.6	36	73	4	149	37	17	23	20	1.94
5807001--5807046	11	4.4	11	81	10	60	36	0	2	60	1.09
5807001--5807046	3	16.3	3	78	13	53	36	0	2	60	1.09
5808094--5808132	13	2.8	13	88	7	51	17	2	10	69	1.28
5812977--5813041	26	2.5	26	94	0	112	41	12	26	20	1.87
5815182--5815222	21	1.9	21	85	5	55	21	12	7	58	1.58
5816701--5816892	21	9.8	18	69	23	74	76	1	18	4	1.02
5816743--5816881	28	4.9	28	72	18	92	76	0	19	4	0.95
5816707--5816880	41	4.1	41	76	16	101	75	0	18	5	1.02
5816701--5816799	47	2.1	47	83	9	121	77	2	14	6	1.04
5816771--5816892	22	5.2	23	72	20	92	75	0	22	2	0.92
5816743--5816887	35	4.1	33	77	19	125	75	0	20	4	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5816720--5816851	51	2.6	50	77	15	128	75	0	18	6	1.00
5816740--5816887	14	10.4	14	72	21	78	75	0	20	4	0.96
5816722--5816892	72	2.4	70	82	14	190	75	0	19	4	0.98
5816789--5816887	9	12.2	9	73	17	51	75	0	21	3	0.93
5818567--5818612	8	5.8	8	100	0	92	36	23	13	26	1.91
5818811--5820265	4	371.8	4	93	4	2566	49	25	0	24	1.53
5820744--5820857	42	2.7	43	80	8	137	28	21	21	29	1.98
5821070--5821360	154	1.9	155	82	6	376	32	22	13	30	1.93
5821262--5821755	135	3.7	134	84	3	600	32	23	15	29	1.95
5821262--5821753	270	1.8	269	85	2	702	32	22	15	29	1.95
5821926--5821964	3	13.0	3	88	0	60	33	2	2	61	1.23
5827687--5827799	41	2.8	41	98	0	217	32	6	17	43	1.74
5832282--5832314	10	3.0	11	91	8	50	12	6	9	72	1.26
5834574--5834615	18	2.3	18	95	0	75	16	16	11	54	1.70
5838838--5839852	134	7.6	134	84	1	1158	32	21	15	30	1.94
5838806--5839852	402	2.6	401	83	3	1280	32	21	15	30	1.94
5840025--5840074	3	17.7	3	80	12	61	26	0	4	70	1.05
5840023--5840079	12	4.4	13	74	12	55	24	0	3	71	1.01
5840128--5840188	23	2.7	22	83	16	72	40	37	14	6	1.72
5841952--5842271	130	2.5	131	82	3	403	31	9	15	43	1.79
5851830--5851871	14	3.1	14	79	3	50	23	0	2	73	0.94
5854660--5854694	14	2.4	14	95	4	61	45	17	22	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5856374--5856536	30	5.5	30	78	5	154	20	12	9	57	1.62
5856374--5856536	59	2.8	58	82	7	177	20	12	9	57	1.62
5871780--5871878	2	49.5	2	100	0	198	50	0	0	49	1.00
5872345--5872387	20	2.2	20	82	0	50	76	6	9	6	1.15
5874126--5874155	15	2.0	15	93	0	51	33	3	0	63	1.11
5882728--5882772	21	2.1	21	87	0	63	57	6	8	26	1.54
5884123--5884161	20	2.0	21	85	10	55	30	12	7	48	1.69
5885154--5885186	9	3.8	9	84	8	50	39	0	0	60	0.97
5885160--5885192	17	1.9	17	93	0	57	39	0	0	60	0.97
5885159--5885201	23	1.9	22	90	4	68	39	0	0	60	0.97
5885159--5885196	6	6.5	6	84	6	51	42	0	0	57	0.98
5886073--5886226	65	2.4	63	82	7	168	29	17	21	31	1.96
5888977--5889008	15	2.2	14	94	5	55	18	6	6	68	1.32
5889023--5889058	2	18.0	2	100	0	72	50	0	0	50	1.00
5894277--5894333	24	2.4	24	85	5	71	35	7	3	54	1.45
5898106--5898169	28	2.3	28	100	0	128	15	25	39	20	1.92
5906405--5906475	25	2.8	25	76	21	76	78	4	14	2	1.01
5906401--5906465	27	2.4	26	78	16	71	80	6	12	1	0.97
5906412--5906477	15	4.6	14	71	14	53	80	1	15	3	0.91
5908437--5908770	58	5.9	54	77	11	246	33	10	17	38	1.84
5908437--5908711	59	4.9	58	79	10	300	31	10	17	40	1.83
5908898--5909026	59	2.2	60	80	6	147	29	28	12	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5920365--5920485	3	40.0	3	81	11	131	37	2	0	59	1.17
5920370--5920474	49	2.2	44	83	11	129	37	2	0	59	1.19
5920369--5920495	31	4.2	30	76	11	116	39	2	0	57	1.17
5922929--5922968	16	2.6	16	88	4	55	35	20	7	37	1.81
5928211--5928256	22	2.1	22	95	0	83	34	13	13	39	1.83
5928893--5928947	20	2.8	20	75	10	58	25	21	21	30	1.98
5928788--5929075	119	2.4	118	90	1	450	31	15	19	33	1.93
5929012--5929065	20	2.7	20	88	0	72	25	24	22	27	2.00
5929205--5929323	3	39.7	3	85	6	152	37	2	0	59	1.11
5932916--5933063	7	21.0	7	83	10	144	77	0	17	4	0.96
5932942--5932977	4	9.8	4	82	17	51	77	0	22	0	0.76
5938799--5938849	22	2.3	22	83	6	59	58	1	0	39	1.09
5938898--5938967	31	2.2	29	77	20	70	47	0	4	48	1.21
5939056--5939136	27	3.0	25	75	13	81	51	1	1	45	1.16
5939056--5939169	54	2.1	54	85	9	153	50	0	0	48	1.13
5939200--5939270	34	2.1	36	81	7	85	50	1	2	45	1.25
5939219--5939265	25	2.0	23	83	8	58	55	0	2	42	1.12
5954568--5954608	21	1.9	22	85	5	57	48	4	2	43	1.37
5954523--5954611	32	2.9	29	72	18	81	47	6	4	41	1.50
5955115--5955369	123	2.1	123	96	0	465	37	12	16	33	1.87
5956377--5956874	248	2.0	248	88	2	732	33	13	18	35	1.89
5959338--5959439	43	2.4	43	83	3	116	30	13	24	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5959381--5959513	43	3.1	43	77	6	135	27	13	23	35	1.92
5959955--5959995	21	2.0	21	85	0	55	2	36	21	39	1.67
5971247--5971299	26	2.0	26	85	7	70	50	5	0	43	1.25
5971299--5971488	25	7.9	23	74	14	134	43	6	2	47	1.42
5971390--5971485	49	1.9	50	87	10	144	40	4	2	53	1.32
5971299--5971488	72	2.6	72	84	8	228	43	6	2	47	1.42
5971313--5971491	23	7.5	22	70	16	72	41	6	2	48	1.44
5977949--5977982	17	2.0	17	100	0	68	41	11	11	35	1.78
5979018--5979443	41	10.4	41	82	3	507	26	18	19	35	1.95
5979015--5979443	125	3.5	123	79	6	465	26	18	19	35	1.95
5979021--5979421	166	2.4	164	85	2	500	26	18	19	34	1.95
5981699--5981778	36	2.2	36	95	0	142	30	15	17	37	1.90
5982649--5982707	21	2.8	21	84	0	73	18	5	20	55	1.61
5982904--5983104	43	4.7	43	91	0	303	27	22	22	26	1.99
5982854--5983104	86	2.9	88	85	4	273	27	23	21	28	1.99
5982904--5983129	43	5.3	43	87	2	283	26	22	22	28	1.99
5987227--5987310	19	4.1	20	78	15	82	16	28	30	23	1.96
5987227--5987312	20	4.2	20	73	17	70	16	29	30	24	1.96
5988415--5988451	2	18.5	2	94	0	65	0	45	0	54	1.00
5991793--5991830	12	3.3	12	78	14	53	65	0	5	28	1.14
5991789--5991841	22	2.5	22	96	3	99	67	0	3	28	1.07
5991831--5991916	43	1.9	43	81	6	100	45	1	1	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5994898--5994980	29	2.8	29	90	1	139	42	13	13	31	1.82
5999663--5999744	29	2.8	29	92	5	130	41	12	13	32	1.81
6004348--6004517	84	2.0	82	90	2	268	31	1	9	57	1.41
6004348--6004561	84	2.6	83	84	8	217	29	2	9	57	1.45
6005367--6005452	8	10.5	8	71	13	50	29	4	0	66	1.12
6005415--6005449	17	2.0	18	88	5	54	28	0	0	71	0.86
6006882--6006928	21	2.2	21	85	7	60	36	21	27	14	1.93
6011060--6011091	13	2.5	13	100	0	64	28	0	0	71	0.86
6011060--6011104	13	3.4	14	90	3	58	22	0	0	77	0.76
6014377--6014415	21	1.9	20	84	5	51	28	5	0	66	1.12

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