genome.fa.s8488.2.7.7.80.10.50.1000.27.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  27  of  54  ( 6450 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)
6629343--6629408	29	2.3	29	91	0	105	31	3	22	42	1.69
6636101--6636139	17	2.3	17	86	8	53	20	43	20	15	1.88
6636174--6636324	29	5.5	29	83	13	212	32	2	19	45	1.64
6636208--6636250	21	2.1	21	95	4	79	39	4	11	44	1.62
6639239--6639585	181	1.9	183	86	4	504	23	19	25	30	1.98
6642707--6642738	10	3.2	10	100	0	64	50	9	0	40	1.35
6642702--6642759	20	2.9	20	75	10	64	53	8	3	34	1.49
6643881--6643975	3	33.0	3	77	12	101	62	2	1	34	1.14
6649420--6649579	28	5.6	29	68	16	102	37	2	13	46	1.56
6650002--6650064	12	5.7	12	70	26	50	25	0	0	74	0.82
6650018--6650068	6	8.5	6	82	8	59	21	0	0	78	0.75
6651365--6651393	12	2.3	13	94	5	51	31	0	0	68	0.89
6654366--6654403	19	2.0	20	89	5	60	44	18	13	23	1.85
6654603--6654696	42	2.2	43	81	7	104	56	9	17	17	1.66
6664716--6664796	42	1.9	43	87	2	119	53	7	17	22	1.68
6668844--6668893	18	2.6	19	81	6	57	36	10	24	30	1.88
6669068--6669123	20	2.8	20	83	2	76	28	14	28	28	1.95
6674058--6674099	21	2.0	22	90	4	68	69	0	0	30	0.89
6674058--6674094	16	2.2	17	86	13	51	70	0	0	29	0.88
6684995--6685044	23	2.2	23	92	0	82	32	26	20	22	1.98
6685003--6685059	23	2.6	22	83	5	62	28	28	26	17	1.98
6685067--6685288	100	2.2	101	90	4	342	36	23	13	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6686082--6686119	19	2.0	19	94	0	67	28	26	13	31	1.93
6690535--6690563	14	2.1	14	100	0	58	34	13	20	31	1.92
6697436--6697480	18	2.5	18	100	0	90	42	15	24	17	1.88
6697941--6698745	402	2.0	395	95	4	1436	28	12	16	43	1.83
6698715--6698792	36	2.2	36	88	4	113	29	5	3	61	1.35
6698901--6698967	33	2.0	33	97	0	125	38	4	8	47	1.55
6700915--6701081	6	27.2	6	77	16	155	2	65	0	31	1.05
6700989--6701083	22	4.4	22	74	16	83	1	70	0	28	0.94
6701495--6701554	29	2.1	29	81	6	68	43	6	6	43	1.57
6701650--6701678	10	2.9	10	100	0	58	51	0	0	48	1.00
6701664--6701708	20	2.2	20	79	20	58	35	2	0	62	1.08
6701667--6701727	23	2.8	23	87	7	83	37	1	1	59	1.17
6714355--6714379	2	12.5	2	100	0	50	52	0	0	48	1.00
6715607--6715663	20	2.7	22	72	25	59	42	1	3	52	1.28
6715720--6715751	2	16.0	2	100	0	64	50	0	0	50	1.00
6718801--6718854	26	2.1	26	86	6	74	61	0	3	35	1.14
6719272--6719376	38	2.7	38	82	8	122	46	3	6	42	1.48
6719363--6719433	24	3.0	23	75	15	74	47	1	4	46	1.30
6719440--6719483	3	14.0	3	81	9	52	29	2	0	68	1.02
6720616--6720645	10	3.0	10	100	0	60	20	10	10	60	1.57
6722084--6722184	51	2.0	51	82	7	125	18	33	7	39	1.80
6734459--6734498	21	1.9	21	89	0	62	25	40	25	10	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6740357--6740412	26	2.2	26	93	0	94	25	3	21	50	1.65
6740363--6740418	26	2.2	26	100	0	112	26	3	23	46	1.68
6740422--6740499	22	3.6	21	78	11	70	65	3	0	30	1.10
6741111--6741157	15	3.4	13	76	23	51	57	2	0	40	1.11
6745590--6745637	18	2.7	18	77	6	53	54	18	0	27	1.44
6746063--6746110	21	2.3	21	77	0	51	60	8	0	31	1.26
6759620--6759779	83	1.9	82	89	1	248	45	10	4	39	1.59
6760415--6760486	31	2.3	31	100	0	144	47	8	0	44	1.33
6761511--6761594	21	4.0	21	73	0	87	30	29	17	21	1.96
6761878--6762776	460	2.0	446	81	6	1030	27	17	15	39	1.90
6762394--6762486	21	4.4	21	79	5	80	34	23	13	27	1.93
6762489--6762521	13	2.4	14	90	5	50	27	18	9	45	1.79
6766858--6767175	53	5.9	53	81	3	325	23	25	20	31	1.98
6766928--6767175	108	2.3	106	84	2	325	22	25	20	31	1.98
6767596--6767871	42	6.6	41	82	3	275	32	21	20	26	1.97
6773720--6774030	154	2.0	155	97	2	590	21	23	10	45	1.82
6780402--6780485	42	2.0	42	95	0	150	34	10	10	44	1.74
6780539--6780594	28	2.0	28	89	6	87	37	1	7	53	1.39
6783641--6783877	23	10.0	23	64	12	68	40	17	21	20	1.92
6788414--6788797	57	6.7	57	89	3	542	33	11	19	36	1.87
6794486--6794575	19	4.7	19	92	1	135	35	16	30	17	1.93
6794598--6794665	19	3.3	20	76	9	75	25	14	30	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6794992--6795334	58	6.0	58	92	2	534	32	11	20	34	1.89
6794992--6795327	115	2.9	115	92	1	557	32	11	20	34	1.89
6797641--6797974	165	2.0	168	97	2	638	24	11	7	56	1.60
6798519--6798557	2	20.5	2	89	10	64	53	0	0	46	1.00
6798519--6798557	13	2.9	14	92	7	64	53	0	0	46	1.00
6798519--6798557	17	2.3	17	100	0	78	53	0	0	46	1.00
6800422--6800478	22	2.5	22	91	2	96	66	3	21	8	1.34
6801860--6801885	9	2.9	9	100	0	52	69	0	0	30	0.89
6801841--6801903	29	2.1	31	85	11	87	71	4	0	23	1.05
6801841--6801904	30	2.1	31	83	13	80	71	4	0	23	1.04
6801908--6801935	2	14.0	2	100	0	56	50	0	0	50	1.00
6802465--6802625	80	2.0	80	100	0	322	36	9	4	49	1.58
6811714--6811743	14	2.1	14	93	0	51	43	0	16	40	1.48
6811815--6811851	17	2.1	18	90	5	58	16	0	16	67	1.23
6812358--6812411	16	3.3	16	71	5	54	22	9	27	40	1.84
6812341--6812418	33	2.4	34	79	12	92	19	11	29	39	1.87
6812429--6812470	22	1.9	22	100	0	84	11	9	26	52	1.68
6812433--6812480	22	2.2	22	84	0	60	10	12	33	43	1.77
6816311--6816345	16	2.2	16	89	0	52	8	2	2	85	0.79
6822768--6822818	20	2.5	20	83	3	57	35	17	21	25	1.95
6824097--6824130	9	3.7	9	96	4	59	50	17	8	23	1.74
6824365--6824398	15	2.3	15	89	0	50	47	14	2	35	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6825557--6825679	60	2.1	59	80	9	133	34	14	12	39	1.84
6830050--6830108	29	2.0	29	90	0	91	27	20	22	30	1.98
6844319--6844360	9	4.9	9	77	11	52	42	21	2	33	1.66
6864976--6865029	3	18.3	3	92	3	92	66	0	0	33	0.92
6865334--6866103	177	4.4	177	89	1	1125	30	20	17	31	1.95
6865334--6866103	353	2.2	354	89	1	1161	30	20	17	31	1.95
6867946--6868141	52	3.8	52	90	2	299	20	23	18	36	1.95
6867946--6868141	103	1.9	102	88	3	295	20	23	18	36	1.95
6869559--6869600	18	2.5	17	84	7	59	0	19	0	80	0.70
6873194--6873220	14	1.9	14	100	0	54	51	11	22	14	1.73
6873235--6873281	17	2.8	17	96	0	85	61	6	10	21	1.50
6876379--6876424	22	2.1	21	84	15	58	54	4	4	36	1.40
6878991--6879025	19	1.9	18	88	11	54	57	0	2	40	1.14
6878973--6879026	22	2.5	22	82	8	58	53	0	1	44	1.11
6884545--6884594	17	2.8	17	77	22	50	48	2	2	48	1.24
6884574--6884629	18	2.9	18	81	7	58	42	5	1	50	1.35
6884617--6884695	28	2.9	26	84	7	95	45	6	7	40	1.58
6884617--6884696	13	5.8	13	78	8	79	46	6	7	40	1.57
6884652--6884831	85	2.1	86	89	3	274	48	4	6	41	1.48
6884738--6884800	24	2.6	25	80	7	67	50	3	4	41	1.39
6884738--6884806	25	2.8	24	84	4	75	50	4	4	40	1.42
6885139--6885175	19	2.0	18	89	5	56	48	5	5	40	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6885282--6885317	16	2.2	17	95	5	65	50	5	5	38	1.49
6885343--6885448	20	4.9	20	84	8	97	43	6	6	43	1.56
6885359--6885418	2	29.0	2	75	12	50	46	5	5	43	1.47
6885359--6885448	24	4.0	23	81	11	105	44	6	4	44	1.50
6885320--6885448	65	2.0	65	84	6	170	41	6	7	43	1.60
6885455--6885545	21	4.3	21	74	19	82	39	5	7	47	1.55
6885490--6885633	78	1.8	78	88	5	220	42	5	4	47	1.48
6885568--6885621	21	2.5	22	79	8	67	44	5	5	44	1.50
6885679--6885730	21	2.5	20	82	17	63	48	0	1	50	1.12
6885679--6885756	6	13.3	6	74	23	53	47	0	1	51	1.09

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