genome.fa.s9639.2.7.7.80.10.50.1000.30.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  30  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)
6475085--6475110	2	13.0	2	100	0	52	50	0	0	50	1.00
6475732--6475774	21	2.0	21	86	0	59	13	58	0	27	1.37
6479793--6479842	20	2.5	19	78	9	55	30	22	18	30	1.97
6479919--6479970	24	2.2	24	82	0	59	34	7	5	51	1.54
6495170--6495203	17	2.1	16	88	5	50	14	8	0	76	1.01
6498614--6498679	27	2.4	28	82	2	80	9	1	28	60	1.36
6499037--6499081	24	1.9	23	86	4	63	26	6	11	55	1.59
6500089--6500134	23	2.1	23	84	8	60	17	8	0	73	1.07
6500089--6500143	27	1.9	29	82	10	69	18	9	0	72	1.10
6501823--6501864	20	2.1	20	86	0	57	64	0	16	19	1.30
6503215--6503246	2	16.0	2	100	0	64	50	0	0	50	1.00
6515104--6515185	21	4.0	21	77	3	85	21	20	19	37	1.94
6515811--6515867	20	2.8	20	91	0	96	10	17	21	50	1.75
6517551--6517590	21	1.9	21	94	0	71	22	12	27	37	1.90
6517854--6517905	21	2.5	20	75	9	50	23	34	13	28	1.92
6519317--6519465	64	2.3	64	91	0	235	30	2	15	52	1.54
6519527--6519609	20	4.2	20	85	0	112	40	25	18	15	1.89
6519669--6519723	19	2.8	20	86	5	85	20	21	18	40	1.92
6519889--6519929	18	2.3	18	91	0	64	19	2	24	53	1.57
6522823--6522861	15	2.5	15	83	4	51	66	0	5	28	1.12
6523004--6523051	18	2.6	18	76	6	51	35	14	20	29	1.93
6523025--6523113	20	4.5	19	73	16	65	34	14	20	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6524599--6524648	17	3.1	17	69	16	52	52	20	6	22	1.68
6524866--6524903	20	1.9	20	89	10	60	28	10	2	57	1.45
6525345--6525380	5	7.0	5	87	6	54	55	0	0	44	0.99
6525345--6525383	16	2.5	16	95	4	71	53	0	0	46	1.00
6542177--6542245	2	35.0	2	94	2	122	47	0	0	52	1.00
6542166--6542245	14	5.5	15	92	4	114	47	0	1	51	1.08
6546437--6546531	23	4.1	23	86	2	120	21	18	23	36	1.95
6546437--6546531	46	2.1	46	87	0	136	21	18	23	36	1.95
6546495--6546581	24	3.7	23	82	10	79	26	20	20	32	1.97
6546519--6546581	24	2.7	24	87	2	92	26	20	20	31	1.98
6551336--6551417	39	2.1	39	100	0	164	43	17	13	25	1.85
6552301--6552326	13	2.0	13	100	0	52	46	0	15	38	1.46
6552884--6552918	18	1.9	18	94	0	61	22	11	40	25	1.88
6552890--6552925	18	2.0	18	88	0	54	25	13	36	25	1.93
6553455--6553504	24	2.1	24	84	0	64	22	24	24	30	1.99
6562721--6562824	31	3.3	31	85	6	122	25	30	28	14	1.95
6564015--6564103	18	4.9	18	87	0	133	26	34	20	17	1.95
6567513--6567568	14	4.0	14	90	0	85	32	16	25	26	1.96
6573035--6573091	29	2.0	29	92	0	96	40	14	8	36	1.76
6573556--6573586	12	2.6	12	100	0	62	6	35	32	25	1.82
6574438--6574683	135	1.8	134	84	2	341	22	15	14	47	1.82
6574887--6574958	16	4.8	15	77	17	69	25	9	5	59	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6574890--6574951	29	2.1	29	82	14	74	25	9	6	58	1.54
6578843--6578880	13	3.2	12	85	7	51	81	0	13	5	0.85
6579994--6580080	44	2.0	44	88	0	129	34	12	20	32	1.90
6581560--6581799	36	6.7	36	77	9	186	27	16	14	41	1.87
6581592--6581804	36	5.9	36	80	7	220	30	16	13	39	1.87
6581561--6581799	72	3.3	72	87	4	313	28	16	14	41	1.87
6582306--6582514	65	3.2	64	83	2	229	36	16	11	36	1.84
6582532--6582866	67	5.0	67	85	0	445	29	17	12	40	1.86
6582532--6582866	134	2.5	134	89	0	490	29	17	12	40	1.86
6583059--6583697	139	4.6	139	86	0	803	30	28	17	23	1.97
6584826--6585100	137	2.0	134	87	2	388	23	16	13	46	1.82
6587814--6587843	2	15.5	2	93	6	53	46	0	0	53	1.00
6597290--6597359	2	35.0	2	100	0	140	50	0	0	50	1.00
6598435--6598500	29	2.3	28	82	7	78	56	12	4	27	1.55
6604400--6604476	2	38.5	2	100	0	154	49	0	0	50	1.00
6604470--6604517	24	2.0	24	87	4	69	33	25	0	41	1.55
6604620--6604680	29	2.1	29	90	0	95	24	22	6	45	1.76
6604570--6604846	110	2.5	110	85	3	353	28	21	8	41	1.82
6605098--6605413	79	4.0	79	89	0	472	27	22	12	37	1.90
6605352--6605447	45	2.1	45	88	0	138	30	26	10	33	1.90
6605888--6606110	95	2.4	95	85	2	288	25	26	16	31	1.96
6614329--6614391	18	3.3	18	73	16	63	26	25	23	23	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6615968--6616015	19	2.5	19	89	0	69	29	22	18	29	1.98
6617382--6617433	19	2.7	19	96	0	95	26	11	17	44	1.83
6617660--6617716	24	2.4	24	81	0	69	22	12	21	43	1.85
6618438--6618486	25	2.0	25	87	0	71	71	0	0	28	0.86
6618455--6618487	13	2.5	13	100	0	66	81	0	0	18	0.68
6621357--6621390	18	1.9	18	88	5	52	26	32	26	14	1.95
6622887--6622923	15	2.5	15	95	0	65	0	45	0	54	1.00
6626707--6626779	32	2.3	31	83	2	83	46	27	17	8	1.76
6626719--6626785	16	4.2	16	84	3	91	44	26	19	8	1.80
6626719--6626785	31	2.1	32	88	2	100	44	26	19	8	1.80
6634324--6634422	40	2.5	40	84	0	135	27	22	20	30	1.98
6636896--6636975	29	2.7	32	70	16	73	32	16	5	46	1.68
6639805--6639941	63	2.2	63	94	0	247	39	32	13	14	1.85
6643431--6643558	45	2.8	46	84	3	161	42	22	14	20	1.87
6643431--6643574	46	3.2	46	82	3	121	43	23	13	19	1.87
6644819--6644932	34	3.3	35	84	13	155	51	8	0	38	1.39
6644934--6645019	39	2.2	40	81	10	104	51	9	4	34	1.55
6652644--6652865	95	2.3	95	85	1	284	35	16	22	26	1.94
6653166--6653316	58	2.6	58	95	0	266	35	10	19	34	1.86
6653531--6654464	68	13.8	68	91	0	1485	29	15	24	30	1.96
6654414--6654651	81	2.9	80	89	1	341	34	13	22	30	1.92
6655519--6655561	19	2.3	19	100	0	86	37	9	11	41	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6661573--6661619	3	15.3	3	78	12	51	0	34	0	65	0.93
6661573--6661619	17	2.9	16	84	6	58	0	34	0	65	0.93
6667201--6667237	19	2.0	20	89	10	60	32	0	2	64	1.07
6668887--6669087	108	1.9	109	79	3	235	41	14	15	28	1.87
6668651--6669197	226	2.4	225	86	5	771	38	12	16	32	1.86
6669499--6669662	76	2.2	75	87	3	231	29	1	10	57	1.42
6669584--6669617	13	2.5	14	90	4	52	17	2	0	79	0.86
6669520--6669684	76	2.1	78	86	8	239	27	1	10	60	1.37
6670307--6670353	17	2.6	18	86	10	69	23	2	2	72	1.06
6677747--6677894	76	2.0	75	90	4	235	29	2	10	58	1.42
6677833--6677865	13	2.4	14	90	5	50	18	3	3	75	1.06
6677768--6677931	76	2.1	77	87	9	246	28	1	10	60	1.37
6678554--6678599	16	2.7	17	86	6	58	21	2	2	73	1.04
6678632--6678662	16	1.9	16	93	0	53	35	3	0	61	1.12
6679250--6679313	32	2.0	32	100	0	128	25	12	25	37	1.91
6679284--6679897	199	3.1	198	85	4	763	33	14	13	38	1.85
6681841--6681877	6	6.2	6	90	0	56	48	10	2	37	1.52
6687623--6688179	192	2.8	191	81	7	598	29	16	13	41	1.86
6688141--6688214	20	3.7	20	74	5	69	28	12	13	45	1.79
6689150--6689228	2	43.5	2	70	18	57	50	2	2	44	1.29
6689148--6689228	30	2.7	30	94	1	135	49	2	3	44	1.33
6689545--6689732	46	4.1	46	95	0	331	39	3	9	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6690161--6690197	19	1.9	19	100	0	74	40	0	5	54	1.24
6693911--6694041	32	4.0	32	88	5	199	25	10	21	42	1.85
6693951--6694037	17	5.2	17	70	13	81	21	9	22	45	1.80
6693897--6694037	67	2.1	67	93	0	237	24	10	20	44	1.83
6694307--6694538	40	5.8	39	70	7	146	36	15	20	27	1.93
6694295--6694546	80	3.2	80	83	6	298	37	14	20	28	1.91
6698071--6698133	20	3.0	20	83	4	81	39	20	23	15	1.91
6698430--6698470	11	3.6	11	87	6	55	26	21	21	29	1.99
6703029--6703121	21	4.5	21	78	4	100	39	18	24	17	1.91
6703029--6703121	41	2.3	41	100	0	186	39	18	24	17	1.91

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