genome.fa.s8620.2.7.7.80.10.50.1000.39.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  39  of  64  ( 7674 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)
7885350--7885389	20	2.0	20	100	0	80	55	25	5	15	1.60
7885399--7885479	33	2.4	33	89	2	117	39	22	20	17	1.92
7885380--7885465	19	4.7	19	72	16	74	39	22	19	18	1.92
7885419--7885479	14	4.0	14	73	19	50	42	22	21	13	1.87
7885419--7885498	33	2.4	33	85	0	97	43	25	20	11	1.84
7885463--7885499	19	1.9	19	94	0	65	48	27	16	8	1.74
7885562--7885664	54	1.9	54	83	0	134	19	21	23	35	1.96
7885504--7885683	20	9.6	20	72	13	114	19	20	22	37	1.95
7885501--7885683	74	2.5	74	86	0	267	20	20	22	36	1.95
7887692--7887732	20	2.0	20	90	0	64	58	14	14	12	1.63
7887704--7887786	20	4.2	20	73	3	69	42	20	20	16	1.90
7888123--7888199	22	3.5	22	81	0	100	22	18	40	19	1.92
7888361--7888466	20	5.2	20	85	6	151	22	21	28	27	1.99
7888361--7888487	61	2.1	61	93	0	218	21	22	27	29	1.99
7888481--7888528	20	2.4	20	100	0	96	22	18	16	41	1.90
7888614--7888650	19	1.9	19	88	0	56	21	13	29	35	1.92
7890322--7890648	29	11.2	29	78	9	308	27	6	20	45	1.76
7890336--7890482	60	2.6	54	83	10	181	24	7	25	42	1.80
7890352--7890403	23	2.3	23	86	3	70	23	7	26	42	1.81
7890379--7890648	93	3.0	89	84	6	312	27	6	20	45	1.75
7890626--7890670	22	2.0	22	82	0	54	31	4	13	51	1.61
7890947--7890999	21	2.5	21	81	6	72	20	26	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7890989--7891060	20	3.5	20	88	1	99	40	18	23	18	1.91
7891049--7891163	20	5.7	20	84	6	133	32	26	18	22	1.97
7891047--7891183	41	3.4	40	83	6	177	34	25	17	22	1.96
7891651--7891709	20	3.0	20	84	0	64	18	18	20	42	1.90
7893004--7893049	18	2.6	18	92	0	83	28	45	13	13	1.80
7893586--7893631	20	2.3	20	88	0	65	36	26	21	15	1.93
7893625--7893721	19	5.6	19	70	22	88	46	20	19	13	1.83
7893641--7893699	14	3.9	14	76	20	64	49	23	16	10	1.77
7893625--7893716	33	2.8	33	96	0	166	47	20	18	13	1.81
7893733--7893791	14	3.9	14	76	20	64	10	16	23	49	1.77
7893728--7893807	33	2.4	33	97	0	151	11	18	22	47	1.80
7893749--7893826	19	4.4	19	75	15	76	14	20	21	43	1.87
7893792--7893865	20	3.8	19	89	5	103	17	24	24	33	1.96
7893813--7893891	20	4.0	20	88	0	95	21	17	26	34	1.96
7894240--7894308	21	3.3	20	76	6	75	24	39	15	20	1.92
7894230--7894320	42	2.2	42	90	2	148	21	40	15	21	1.90
7895729--7895767	14	2.8	14	84	0	51	35	0	17	46	1.49
7895874--7895952	33	2.4	34	86	2	106	44	21	20	13	1.86
7895971--7896046	20	3.8	20	92	0	125	14	21	23	40	1.90
7898329--7898353	12	2.1	12	100	0	50	0	28	0	72	0.86
7899323--7899476	20	7.7	20	83	4	157	25	18	25	29	1.98
7899323--7899498	40	4.3	41	79	6	117	24	19	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7899507--7899559	21	2.5	22	81	6	74	33	18	26	20	1.96
7900413--7900493	37	2.2	38	80	13	96	44	1	3	50	1.27
7900624--7900656	16	2.1	16	88	5	50	30	24	3	42	1.70
7904241--7904277	17	2.1	18	85	14	51	45	10	2	40	1.53
7904637--7904693	22	2.6	22	88	2	80	12	22	17	47	1.81
7905137--7905173	2	18.5	2	100	0	74	51	0	0	48	1.00
7905550--7905597	24	2.0	24	87	4	69	41	2	2	54	1.24
7907433--7907497	29	2.2	30	86	2	87	43	4	18	33	1.71
7909319--7909394	29	2.5	30	79	12	75	30	0	3	65	1.10
7922078--7922135	30	1.9	30	96	0	107	50	18	6	24	1.72
7923210--7923315	40	2.6	40	85	5	142	41	0	0	58	0.98
7923225--7923301	3	25.3	3	87	7	111	38	0	0	61	0.96
7924551--7924593	15	2.9	14	83	10	50	32	4	2	60	1.30
7924557--7924615	30	1.9	31	83	10	77	27	5	3	64	1.30
7924625--7924678	23	2.4	21	76	11	54	22	5	3	68	1.26
7924971--7925030	2	30.0	2	96	0	111	51	0	0	48	1.00
7925734--7925767	15	2.4	15	90	9	54	26	0	2	70	1.01
7928072--7928113	7	6.0	7	89	8	50	14	16	9	59	1.60
7928072--7928113	15	3.0	14	83	10	50	14	16	9	59	1.60
7928179--7928239	14	4.5	14	76	15	65	16	14	9	59	1.61
7928172--7928227	26	2.2	26	86	0	76	19	12	7	60	1.55
7932792--7932911	60	2.0	60	100	0	240	35	23	15	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7935382--7935465	22	3.8	22	85	3	80	34	16	14	34	1.89
7935725--7935801	15	5.4	15	68	12	63	19	37	19	23	1.94
7935722--7935873	28	5.4	28	93	0	259	21	38	17	23	1.93
7937229--7937266	2	19.0	2	94	0	67	52	0	0	47	1.00
7947087--7947141	7	7.9	7	82	8	67	20	0	25	54	1.44
7947147--7947239	48	1.9	49	86	2	125	34	7	9	48	1.64
7947451--7947499	25	2.0	25	84	8	64	38	4	4	53	1.39
7947713--7947775	29	2.3	28	83	8	85	31	26	0	41	1.56
7947713--7947776	28	2.3	26	82	10	83	31	26	0	42	1.56
7947952--7947978	13	2.1	13	100	0	54	55	0	0	44	0.99
7947952--7947994	13	3.1	14	86	6	52	55	0	2	41	1.12
7948433--7948512	2	39.5	2	79	12	83	45	2	3	48	1.33
7948727--7948817	2	46.0	2	83	6	114	46	3	1	49	1.25
7949021--7949109	46	2.0	45	86	6	126	26	28	0	44	1.54
7949290--7949332	9	5.3	9	74	25	51	60	0	0	39	0.97
7949275--7949337	22	2.8	22	97	2	117	57	0	0	42	0.99
7949280--7949323	13	3.7	13	77	22	60	59	0	0	40	0.98
7949647--7949690	14	3.1	14	86	0	61	25	0	25	50	1.50
7949764--7949804	2	21.0	2	90	5	66	51	0	0	48	1.00
7949763--7949804	21	2.0	21	95	0	75	50	0	0	50	1.00
7950049--7950177	2	66.0	2	65	13	54	44	7	2	44	1.45
7950104--7950141	15	2.4	16	91	8	60	39	5	7	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7950522--7950672	24	5.6	27	71	20	102	41	4	5	48	1.46
7950547--7950672	13	9.1	14	70	25	74	42	3	5	47	1.45
7950624--7950661	19	2.0	19	90	10	60	47	0	5	47	1.24
7950607--7950689	31	2.7	32	85	10	102	43	2	4	49	1.37
7950581--7951379	439	1.9	437	88	10	1222	31	8	6	52	1.59
7950956--7951116	32	5.0	32	74	15	111	40	3	4	50	1.40
7951056--7951089	13	2.6	13	95	0	59	44	0	5	50	1.26
7952110--7952247	59	2.3	59	77	10	138	34	24	5	36	1.78
7952821--7952867	23	2.0	23	83	4	58	57	6	4	31	1.43
7956135--7956172	13	2.8	14	80	8	51	36	10	21	31	1.87
7956191--7956229	14	2.7	15	88	4	62	30	17	23	28	1.97
7960191--7960250	2	30.0	2	78	6	59	50	3	0	46	1.18
7960187--7960225	19	2.1	18	85	9	51	56	5	0	38	1.22
7961600--7961656	16	3.6	16	100	0	114	40	21	15	22	1.91
7962656--7962689	17	2.0	17	100	0	68	11	17	35	35	1.87
7963636--7963665	6	4.8	6	95	4	51	50	0	0	50	1.00
7963854--7964043	90	2.1	88	82	3	220	31	18	18	32	1.95
7963925--7964298	131	2.9	129	80	6	391	28	17	20	33	1.95
7965301--7965325	10	2.5	10	100	0	50	16	8	0	76	1.02
7969831--7969872	13	3.2	13	83	6	57	35	19	26	19	1.95
7972414--7972627	107	2.0	107	98	0	410	35	16	19	28	1.94
7972764--7972797	17	2.1	16	88	5	50	76	0	8	14	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7973274--7973320	24	2.0	24	83	8	60	55	14	2	27	1.51
7973967--7974013	18	2.6	18	86	0	67	29	42	4	23	1.73
7977096--7977129	17	2.1	16	88	5	50	76	0	8	14	1.01
7981307--7981346	21	1.9	21	85	10	55	52	0	10	37	1.35
7985114--7985170	24	2.6	21	74	15	60	29	22	19	28	1.98
7985113--7985211	45	2.2	44	82	12	123	30	23	19	27	1.98
7987399--7987436	20	1.9	20	94	0	67	28	0	55	15	1.41
7987397--7987443	20	2.3	21	77	7	60	31	0	53	14	1.42
7987811--7987969	64	2.5	64	81	8	164	32	23	15	28	1.95
7990542--7990873	82	4.0	82	80	4	323	33	13	16	35	1.89

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