genome.fa.s7999.2.7.7.80.10.50.1000.47.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  47  of  50  ( 5918 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)
11052765--11052957	20	9.6	20	84	5	246	35	27	19	17	1.94
11053462--11053538	21	3.7	21	82	6	111	46	18	23	11	1.81
11053523--11053579	14	3.7	14	75	20	60	43	22	24	8	1.81
11053515--11053595	33	2.5	33	95	0	144	46	22	22	8	1.78
11053621--11053685	21	3.1	21	86	4	105	10	24	15	49	1.76
11053620--11053683	20	3.2	20	86	4	101	12	23	15	48	1.79
11055627--11055739	19	6.5	19	75	19	129	47	28	15	7	1.74
11055665--11055723	14	3.9	14	76	20	64	47	28	15	8	1.74
11055645--11055739	33	2.9	33	93	0	163	47	28	15	8	1.75
11055627--11055739	52	2.2	51	82	6	138	47	28	15	7	1.74
11055735--11055907	19	9.6	19	76	12	159	10	20	23	45	1.81
11055757--11055813	14	3.7	14	75	20	51	10	22	22	43	1.84
11055735--11055907	33	4.8	38	80	8	168	10	20	23	45	1.81
11057833--11057868	14	2.6	14	95	0	63	33	0	22	44	1.53
11057966--11058064	19	5.4	19	83	14	136	45	17	23	14	1.84
11057966--11058083	53	2.2	53	96	3	220	44	17	24	13	1.85
11058073--11058210	19	7.7	19	77	18	161	15	21	18	44	1.86
11058079--11058210	53	2.5	53	95	2	230	14	21	18	46	1.84
11058079--11058224	34	4.2	33	72	18	109	13	21	18	45	1.84
11058079--11058243	53	3.1	53	85	6	185	13	21	19	45	1.85
11060509--11060533	12	2.1	12	100	0	50	0	28	0	72	0.86
11060708--11060754	24	2.0	24	87	8	69	38	21	14	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11061447--11061637	20	9.6	20	85	4	233	20	17	25	36	1.94
11061624--11061675	20	2.6	20	84	6	61	11	17	26	44	1.83
11069778--11069928	76	2.0	77	93	1	259	43	14	8	33	1.76
11072483--11072527	19	2.4	19	96	0	81	44	11	22	22	1.84
11075487--11075741	128	2.0	122	88	6	368	38	14	17	30	1.89
11079342--11079400	32	1.9	32	82	6	77	57	3	1	37	1.25
11083140--11083169	13	2.3	13	94	0	51	16	43	23	16	1.87
11083184--11083217	17	2.0	17	88	0	50	38	2	11	47	1.55
11083168--11083426	128	2.0	128	81	5	301	30	22	14	33	1.94
11084140--11084189	25	2.0	25	88	0	73	28	6	20	46	1.74
11085040--11085082	21	2.0	21	81	0	50	32	11	18	37	1.87
11092143--11092200	20	2.9	19	82	12	64	20	13	22	43	1.87
11100176--11100217	13	3.0	14	79	6	50	47	0	0	52	1.00
11105786--11105877	41	2.3	41	92	1	159	27	35	9	27	1.88
11116185--11116214	14	2.1	14	93	0	51	3	13	23	60	1.48
11116185--11116266	25	3.3	24	91	1	119	10	14	19	54	1.69
11117179--11117243	21	3.0	21	73	10	60	35	4	6	53	1.46
11117213--11117265	25	2.1	25	86	6	72	39	3	1	54	1.29
11119313--11119350	17	2.2	17	85	0	58	55	7	0	36	1.29
11119369--11119414	24	2.0	24	86	4	67	43	6	0	50	1.28
11119476--11119698	30	7.5	30	76	5	168	39	5	0	54	1.29
11120657--11120689	8	4.2	8	88	7	50	48	0	15	36	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11120657--11120689	15	2.1	16	88	5	50	48	0	15	36	1.45
11124617--11124651	3	11.7	3	87	0	52	28	2	2	65	1.21
11130841--11130880	21	1.9	21	85	10	55	35	30	10	25	1.88
11132058--11132106	19	2.5	20	86	3	64	48	6	14	30	1.67
11132114--11132157	23	2.0	22	86	4	61	56	4	11	27	1.53
11134852--11134885	2	17.5	2	93	6	61	50	0	0	50	1.00
11136294--11136337	3	14.0	3	85	4	52	34	2	0	63	1.07
11137828--11137869	2	21.0	2	95	0	75	52	0	0	47	1.00
11140230--11140271	13	3.1	14	87	12	61	14	16	9	59	1.60
11140230--11140271	7	6.1	7	84	15	61	14	16	9	59	1.60
11140342--11140461	46	2.6	47	85	2	161	16	10	12	60	1.60
11142811--11142862	22	2.3	22	87	12	70	80	0	17	1	0.80
11142794--11142864	15	4.6	14	78	16	61	83	2	12	1	0.83
11142792--11142862	23	3.0	24	83	8	74	81	2	14	1	0.87
11142792--11142864	32	2.3	30	78	17	85	82	2	13	1	0.85
11143734--11143781	24	2.0	24	100	0	96	37	16	29	16	1.91
11146227--11146520	54	5.5	54	87	0	358	37	12	21	28	1.90
11147706--11147764	21	2.8	21	72	15	59	35	25	22	16	1.95
11147581--11147987	116	3.5	116	90	3	622	31	22	19	26	1.98
11147959--11148007	20	2.5	20	100	0	98	32	32	18	16	1.93
11147843--11148123	136	2.1	136	93	0	481	31	21	20	25	1.98
11147727--11148469	252	3.0	251	84	9	1044	31	21	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11148190--11148247	21	2.8	21	76	7	64	34	25	20	18	1.96
11148306--11148364	21	2.8	21	72	15	59	35	25	22	16	1.95
11147979--11148493	116	4.4	116	92	1	825	31	20	21	26	1.98
11149882--11149914	15	2.1	16	88	5	50	18	3	0	78	0.87
11150176--11150246	23	3.1	23	74	11	65	30	1	4	63	1.22
11151958--11151988	16	1.9	16	93	0	53	48	19	12	19	1.81
11156189--11156225	18	2.1	18	89	0	56	37	0	2	59	1.12
11156370--11156415	14	3.3	14	100	0	92	65	0	15	19	1.28
11161065--11161117	27	2.0	27	96	0	97	47	16	1	33	1.58
11163187--11163217	12	2.5	12	94	5	53	70	0	3	25	1.02
11163203--11163246	23	2.0	22	91	8	72	65	4	0	29	1.12
11163284--11163328	7	6.7	7	85	10	67	0	40	0	60	0.97
11163743--11163800	13	4.5	13	84	4	73	34	22	12	31	1.91
11163743--11163807	26	2.5	26	82	0	85	32	23	13	30	1.93
11163815--11164028	84	2.5	84	88	3	304	32	18	19	29	1.96
11164045--11164076	2	16.0	2	100	0	64	50	0	0	50	1.00
11167343--11167371	14	2.0	15	93	6	51	58	0	13	27	1.36
11171859--11171901	20	2.2	20	86	0	59	34	23	11	30	1.90
11182908--11183015	53	2.0	54	96	3	200	25	21	7	45	1.78
11192442--11192500	14	4.1	14	76	20	52	74	1	1	22	1.00
11192445--11192501	5	11.6	5	78	17	57	75	1	1	21	0.98
11192442--11192501	15	4.1	14	82	6	75	75	1	1	21	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11194629--11195860	106	11.6	106	93	0	2007	22	17	25	34	1.96
11199517--11199573	11	5.3	11	71	24	50	71	1	1	24	1.04
11199521--11199583	14	4.4	15	77	16	62	73	1	1	23	1.01
11199517--11199594	28	2.8	27	75	14	77	71	1	2	24	1.06
11199551--11199584	5	6.8	5	87	12	52	79	0	0	20	0.73
11200683--11200725	2	22.0	2	95	4	79	51	0	0	48	1.00
11208661--11208741	42	1.9	42	90	5	128	27	22	12	38	1.90
11208661--11208754	42	2.2	42	86	3	127	30	20	12	36	1.90
11223189--11223217	2	14.5	2	100	0	58	51	0	0	48	1.00
11227153--11227411	134	1.9	134	87	3	378	28	18	16	36	1.93
11227305--11227926	319	2.0	316	85	3	856	35	17	11	35	1.86
11230948--11231008	21	3.2	21	65	29	64	31	4	21	42	1.74
11230940--11231059	35	3.3	36	88	6	172	32	5	19	43	1.72
11235549--11235609	21	3.2	21	65	29	64	31	4	21	42	1.74
11235541--11235660	35	3.3	36	88	6	172	32	5	19	43	1.72
11236345--11237321	493	2.0	493	98	0	1891	36	17	17	28	1.93
11237751--11237783	16	2.1	16	100	0	66	39	0	6	54	1.25
11240876--11240996	32	3.8	32	81	6	120	26	26	26	20	1.99
11246201--11246285	32	2.7	32	77	3	82	30	15	20	34	1.93
11252581--11252655	38	2.0	37	84	5	98	48	4	1	46	1.29
11265328--11265385	24	2.4	24	100	0	116	41	22	17	18	1.90
11275339--11275382	18	2.4	18	88	3	61	18	38	31	11	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11275480--11275549	36	1.9	37	85	2	97	28	4	1	65	1.20
11275704--11275759	25	2.3	23	85	11	69	42	1	0	55	1.10
11276041--11276104	29	2.2	30	86	8	96	31	9	14	45	1.76
11277619--11277776	85	1.9	85	91	0	262	18	19	27	34	1.95
11277594--11277776	43	4.3	43	88	2	262	18	19	26	36	1.94
11278237--11278286	21	2.4	21	86	6	66	2	30	32	36	1.69
11280140--11280225	42	2.0	42	90	0	136	32	29	10	27	1.90
11282442--11282595	41	3.8	41	80	6	125	30	19	13	36	1.90
11282582--11282781	42	4.8	40	74	14	149	25	18	21	36	1.95
11282582--11282781	82	2.4	84	81	9	232	25	18	21	36	1.95

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