genome.fa.s1547.2.7.7.80.10.50.1000.45.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  45  of  51  ( 6083 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)
8749625--8749888	125	2.1	124	93	4	453	44	2	10	43	1.50
8749547--8750176	217	2.9	218	95	3	1130	43	2	11	43	1.52
8749721--8749981	98	2.7	97	92	4	422	43	2	11	43	1.52
8749819--8750105	119	2.3	123	91	5	483	43	2	10	42	1.52
8749942--8750172	98	2.4	97	93	5	389	41	2	11	44	1.53
8749547--8750172	315	2.0	311	87	9	914	42	2	11	43	1.52
8750101--8750151	19	2.9	17	78	18	52	37	0	15	47	1.46
8750104--8750175	27	2.8	27	81	10	71	37	1	15	45	1.55
8750280--8750321	14	3.2	14	77	19	54	38	7	9	45	1.64
8752087--8752117	14	2.2	14	94	0	53	54	6	0	38	1.26
8752116--8752150	18	2.0	17	88	5	52	68	14	0	17	1.21
8752032--8752296	129	2.1	127	86	11	366	56	14	0	27	1.43
8752217--8752247	15	2.1	14	94	5	53	54	6	0	38	1.26
8752222--8752268	16	3.0	16	84	9	53	59	10	0	29	1.31
8752303--8752383	33	2.5	33	84	11	98	49	12	0	38	1.41
8752442--8752553	40	2.6	44	72	13	108	48	11	0	39	1.46
8752424--8752512	43	2.0	47	85	12	125	47	11	0	41	1.39
8752862--8752970	50	2.2	50	91	6	179	22	18	38	21	1.93
8753005--8753099	29	3.3	29	95	0	163	23	32	30	13	1.93
8753086--8753157	32	2.2	32	90	0	117	8	30	30	30	1.87
8753172--8753209	19	2.0	19	100	0	76	10	21	36	31	1.87
8757318--8757347	15	1.9	16	93	6	53	13	10	13	63	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8761922--8762014	44	2.1	44	95	0	168	36	17	13	32	1.89
8762633--8762669	2	19.0	2	88	5	58	45	0	0	54	1.00
8762841--8763020	90	2.0	90	100	0	360	41	16	15	26	1.88
8763339--8763378	14	2.9	14	84	0	53	10	15	22	52	1.71
8764442--8764671	114	2.0	115	99	0	453	26	14	18	40	1.89
8764663--8764783	16	7.7	16	85	1	138	14	10	16	58	1.62
8764665--8764783	32	3.8	32	84	2	161	14	10	15	58	1.62
8764663--8764783	48	2.6	48	89	2	183	14	10	16	58	1.62
8764845--8764877	16	2.1	16	94	0	57	9	12	21	57	1.62
8768810--8768873	21	3.0	21	83	4	83	18	9	25	46	1.79
8772261--8772307	2	23.5	2	100	0	94	48	0	0	51	1.00
8772317--8772350	8	4.2	8	92	0	59	58	0	2	38	1.13
8773410--8773447	19	2.0	20	89	5	60	36	7	52	2	1.45
8786978--8788000	163	6.2	165	93	1	1659	28	14	28	28	1.95
8786978--8788000	55	18.7	55	92	2	1612	28	14	28	28	1.95
8788321--8788355	2	17.5	2	100	0	70	48	0	0	51	1.00
8788365--8788398	8	4.2	8	92	0	59	58	0	2	38	1.13
8789391--8789428	19	2.0	20	89	5	60	39	7	52	0	1.31
8792365--8792595	115	2.0	115	87	7	335	37	29	4	28	1.78
8799544--8799587	21	2.2	20	80	11	56	52	2	4	40	1.34
8803433--8803553	39	3.0	40	86	6	174	35	18	6	39	1.77
8811839--8811879	18	2.3	17	84	12	55	36	0	2	60	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8811850--8811908	26	2.1	28	84	9	77	37	0	1	61	1.07
8812623--8812655	2	16.5	2	100	0	66	48	0	0	51	1.00
8821654--8821697	24	2.0	21	86	13	61	50	2	0	47	1.13
8822314--8822381	20	3.4	20	89	0	100	36	19	22	22	1.95
8822314--8822405	40	2.3	40	84	1	114	32	19	20	27	1.97
8822352--8822413	20	3.2	20	75	9	65	24	20	19	35	1.96
8824417--8824466	21	2.4	21	86	0	73	18	14	34	34	1.90
8824483--8824578	21	4.5	22	69	14	51	21	11	32	34	1.89
8824882--8824991	21	5.2	21	76	2	96	23	37	16	22	1.94
8824875--8824988	42	2.7	42	84	0	129	24	36	14	24	1.92
8828114--8828274	63	2.5	65	82	6	170	25	18	22	34	1.96
8831832--8831870	15	2.5	15	83	4	51	66	0	5	28	1.12
8832045--8832121	20	3.8	20	77	13	68	28	9	28	33	1.88
8832039--8832139	41	2.5	40	82	6	114	26	10	27	34	1.90
8833171--8833195	2	12.5	2	100	0	50	52	0	0	48	1.00
8838851--8838888	8	4.9	8	90	3	60	23	7	13	55	1.64
8838850--8838896	24	2.0	22	88	8	67	25	6	12	55	1.61
8840668--8840872	106	1.9	106	100	0	410	30	10	13	44	1.78
8841788--8841840	23	2.4	22	74	20	56	49	5	1	43	1.37
8847436--8847509	30	2.5	30	97	0	139	40	5	10	43	1.63
8849202--8849255	27	2.0	27	100	0	108	40	0	51	7	1.30
8856431--8856501	17	4.1	16	75	13	61	60	0	1	38	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8859286--8859324	13	2.9	14	80	7	53	38	10	0	51	1.36
8861136--8861256	36	3.3	36	85	8	165	44	19	4	32	1.69
8861184--8861248	21	3.4	21	63	30	54	47	18	3	30	1.64
8861136--8861255	37	3.3	37	87	5	165	45	19	3	32	1.67
8865977--8866028	21	2.5	21	81	3	61	38	19	25	17	1.93
8866017--8866151	20	6.7	20	78	7	130	33	23	17	25	1.96
8866014--8866145	61	2.2	61	88	0	192	35	23	16	24	1.95
8866319--8866363	22	2.0	22	95	0	81	20	46	15	17	1.84
8866588--8866641	20	2.7	20	88	0	81	16	18	25	38	1.92
8866787--8866841	25	2.2	24	78	15	58	20	9	18	52	1.71
8867964--8868007	17	2.5	18	85	7	63	25	43	15	15	1.87
8868496--8868605	19	6.1	19	76	15	72	43	19	20	16	1.88
8868496--8868540	20	2.3	20	84	3	65	37	15	24	22	1.93
8868524--8868605	19	4.6	19	75	17	95	46	20	19	13	1.83
8868617--8868707	14	5.9	14	74	20	83	10	17	23	48	1.79
8868612--8868723	33	3.4	33	97	1	208	11	18	22	47	1.81
8868708--8868763	20	2.8	19	84	7	76	17	23	21	37	1.94
8870763--8870868	19	5.8	19	91	8	177	47	16	21	14	1.82
8870895--8870982	20	4.4	20	75	5	97	18	20	23	37	1.94
8871247--8871295	20	2.4	21	86	3	64	20	22	16	40	1.91
8871323--8871441	58	2.0	59	98	1	231	35	16	18	29	1.93
8872129--8872182	24	2.2	24	90	0	81	22	16	20	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8874670--8874794	33	3.8	33	86	4	189	44	19	21	15	1.87
8874671--8874803	66	2.0	66	94	0	230	42	18	21	17	1.90
8874670--8874800	19	7.7	19	65	23	94	43	19	22	15	1.87
8874811--8874867	14	3.7	14	75	20	60	8	24	22	43	1.81
8874795--8874885	33	2.8	33	94	0	155	13	21	20	43	1.86
8874825--8874885	19	3.5	19	72	21	69	11	22	21	44	1.84
8874993--8875026	14	2.4	14	90	0	59	44	23	0	32	1.54
8876406--8876569	42	3.9	41	72	4	139	25	17	35	22	1.95
8876397--8876572	84	2.1	84	93	0	298	25	17	35	22	1.95
8876791--8876975	91	2.0	90	91	6	300	47	18	12	21	1.82
8878549--8878647	33	3.0	33	90	1	153	40	23	25	11	1.87
8878524--8878669	19	8.1	19	71	17	105	43	20	23	12	1.86
8878665--8878740	14	4.5	16	71	18	57	9	18	26	46	1.79
8879243--8879336	20	4.7	20	77	7	91	24	19	24	31	1.98
8879263--8879357	41	2.3	41	83	3	111	21	21	22	35	1.96
8879446--8879476	15	2.1	15	100	0	62	29	19	25	25	1.99
8880229--8880350	36	3.4	37	85	5	169	44	18	4	33	1.68
8880278--8880342	21	3.4	21	63	30	54	47	18	3	30	1.64
8881331--8881393	3	21.3	3	88	3	83	39	0	0	60	0.97
8881312--8881380	32	2.2	31	87	7	95	42	0	1	56	1.08
8881653--8881709	26	2.2	26	100	0	114	43	24	7	24	1.79
8883883--8884142	130	2.0	130	100	0	520	31	16	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8884321--8884455	66	2.0	66	94	0	234	25	18	24	31	1.97
8885495--8885522	6	4.7	6	100	0	56	17	17	17	46	1.85
8889437--8889471	2	18.0	2	94	5	63	51	0	0	48	1.00
8890647--8890953	125	2.5	125	84	4	395	33	15	26	24	1.95
8891713--8891816	39	2.6	41	75	10	115	26	25	20	27	1.99
8891708--8892679	216	4.6	216	91	3	1467	33	16	18	31	1.93
8892135--8892236	42	2.5	42	80	1	116	25	23	21	29	1.99
8892357--8892450	42	2.3	41	86	1	125	23	24	23	28	1.99
8891708--8892679	430	2.3	423	89	4	1476	33	16	18	31	1.93
8892573--8892666	42	2.3	41	79	1	98	24	21	23	30	1.99

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