genome.fa.s9634.2.7.7.80.10.50.1000.56.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   

This is table  56  of  78  ( 9351 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)
11062000--11062078	39	2.0	39	82	4	97	31	13	13	40	1.85
11062094--11062129	19	1.9	19	94	5	65	47	8	16	27	1.75
11062105--11062299	76	2.6	76	88	1	266	31	13	12	41	1.83
11062178--11062300	40	3.2	40	67	13	103	32	13	12	42	1.81
11062340--11062398	20	3.0	20	64	14	50	35	13	13	37	1.84
11062302--11062936	39	16.3	39	90	1	936	29	17	17	35	1.93
11063230--11063307	20	3.8	20	73	15	70	24	24	21	29	1.99
11063250--11063325	22	3.6	21	71	16	68	26	19	22	31	1.98
11063227--11063337	42	2.7	41	83	12	145	27	22	21	28	1.99
11063990--11064271	133	2.1	133	91	0	465	30	21	19	28	1.97
11064220--11064321	50	2.0	50	98	0	195	30	17	25	26	1.97
11070673--11070705	15	2.2	15	94	0	57	9	69	15	6	1.34
11073844--11073889	18	2.5	18	89	3	65	0	30	23	45	1.53
11075451--11075491	21	2.0	21	90	0	64	17	29	31	21	1.96
11075475--11075518	23	1.9	23	95	0	79	22	27	25	25	2.00
11075473--11075524	23	2.3	23	86	0	77	21	23	34	21	1.97
11081757--11081803	22	2.2	22	88	3	69	40	2	12	44	1.54
11081778--11082167	37	10.1	36	72	16	232	42	3	10	44	1.55
11081914--11082167	75	3.3	76	76	11	166	42	3	9	44	1.53
11082131--11082192	32	1.9	32	83	6	81	40	6	8	45	1.59
11082206--11082246	18	2.2	19	83	12	50	19	0	2	78	0.87
11082201--11082248	13	3.8	12	78	13	51	22	0	2	75	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11086973--11087054	25	3.4	25	64	31	61	31	24	7	36	1.83
11086966--11087091	46	2.8	45	87	3	182	28	24	8	38	1.85
11087118--11087147	14	2.1	14	93	0	51	40	30	6	23	1.80
11098439--11098465	14	1.9	14	100	0	54	55	0	0	44	0.99
11098480--11098524	22	2.1	21	83	4	54	42	2	11	44	1.52
11098486--11098991	37	13.1	37	72	18	338	43	3	9	43	1.53
11098753--11098777	13	1.9	13	100	0	50	40	8	8	44	1.63
11098729--11098998	36	7.1	36	78	13	267	41	3	8	45	1.52
11099052--11099106	24	2.3	23	78	9	58	21	3	0	74	0.97
11107466--11107512	22	2.3	19	80	19	67	21	34	14	29	1.93
11107471--11107516	22	2.1	22	100	0	92	17	39	13	30	1.87
11107408--11107587	94	1.9	96	85	4	249	23	23	17	35	1.95
11113152--11113427	79	3.5	79	90	0	417	31	22	9	37	1.86
11113210--11113340	34	3.5	34	67	20	100	31	23	9	35	1.86
11113833--11113885	20	2.5	20	78	6	52	30	26	15	28	1.96
11113875--11114056	95	1.9	96	86	5	262	25	20	15	37	1.93
11113926--11113999	20	3.6	22	76	18	63	22	22	17	36	1.95
11116288--11116564	101	2.7	102	79	8	287	33	16	11	37	1.85
11123459--11123521	33	1.9	33	83	6	83	31	11	9	47	1.71
11123450--11123522	33	2.2	32	78	9	74	28	12	8	50	1.68
11123497--11123548	26	2.0	26	92	0	86	30	17	9	42	1.81
11126479--11126528	26	1.9	26	91	0	82	32	18	10	40	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11126812--11126885	6	11.3	6	73	18	51	74	2	6	16	1.15
11132351--11132798	118	3.8	116	82	4	519	25	20	14	39	1.91
11139947--11139989	18	2.4	18	88	7	61	23	6	2	67	1.27
11148105--11148380	79	3.5	79	89	3	403	30	22	9	37	1.86
11148163--11148372	34	5.5	34	65	22	105	30	23	9	36	1.87
11148828--11149009	95	1.9	96	86	5	262	24	20	18	36	1.94
11148879--11148951	20	3.5	22	76	18	61	23	21	17	36	1.94
11151349--11151710	188	1.9	186	85	6	500	33	17	9	38	1.83
11158430--11158481	26	2.0	26	92	0	86	32	17	9	40	1.82
11158790--11158868	6	12.3	6	74	10	59	73	3	6	16	1.19
11164253--11164351	41	2.4	41	83	8	114	23	22	20	34	1.97
11164333--11164797	118	4.0	116	86	2	565	26	20	14	38	1.91
11190052--11190133	41	2.0	41	100	0	164	26	4	24	43	1.74
11190308--11190347	21	1.9	21	89	0	62	25	40	25	10	1.86
11196380--11196433	26	2.1	26	92	0	90	48	5	11	35	1.62
11196627--11196655	14	2.1	14	100	0	58	31	6	41	20	1.79
11211491--11211519	2	14.5	2	100	0	58	48	0	0	51	1.00
11221387--11221422	18	2.1	18	94	5	65	38	0	0	61	0.96
11221376--11221424	25	1.9	25	83	4	62	38	0	0	61	0.96
11221612--11221659	16	3.1	16	79	8	55	35	0	0	64	0.94
11221611--11221676	23	2.9	25	73	24	65	39	0	0	60	0.97
11221915--11221987	29	2.5	29	82	4	85	39	15	10	34	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11223916--11224151	120	2.0	120	90	8	378	40	6	30	23	1.79
11226781--11226858	39	2.0	39	87	5	113	42	29	17	10	1.83
11228943--11229027	40	2.1	40	86	0	116	30	15	12	41	1.85
11236534--11236586	15	3.5	15	82	7	72	26	3	0	69	1.05
11236534--11236583	20	2.5	19	84	9	73	26	4	0	70	1.05
11236534--11236586	5	10.6	5	79	0	61	26	3	0	69	1.05
11245291--11245343	3	17.7	3	80	0	61	32	1	7	58	1.37
11249332--11249362	16	1.9	16	93	0	53	32	6	0	61	1.21
11249484--11249609	67	1.9	67	85	3	173	38	15	19	26	1.92
11252222--11252261	2	19.5	2	94	5	71	47	0	2	50	1.14
11253598--11253631	16	2.1	16	88	0	50	26	23	20	29	1.99
11255631--11255678	23	2.1	23	100	0	96	20	25	37	16	1.93
11255688--11255770	31	2.6	31	82	1	85	13	20	31	34	1.91
11257738--11257833	48	2.0	48	89	0	147	25	7	17	50	1.72
11257854--11257962	53	2.1	53	87	0	155	26	19	18	35	1.95
11264907--11265008	53	1.9	52	86	5	143	31	15	14	38	1.88
11265166--11265219	26	2.0	27	82	3	65	29	1	9	59	1.39
11272754--11272786	15	2.1	17	88	11	52	18	33	0	48	1.48
11276731--11276783	24	2.2	24	93	0	88	3	11	20	64	1.42
11277217--11277266	20	2.4	21	87	9	68	36	12	22	30	1.90
11277866--11277943	24	3.2	24	67	13	70	20	6	17	55	1.64
11277845--11277945	48	2.1	48	92	0	166	22	7	18	50	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11277967--11278070	53	2.0	53	86	3	147	29	17	14	38	1.89
11280429--11280462	8	4.2	8	92	0	59	38	0	8	52	1.33
11284153--11284238	44	2.0	44	92	0	145	31	26	18	23	1.97
11284150--11284239	21	4.1	21	72	22	71	33	25	17	23	1.96
11284416--11284484	26	2.7	26	80	11	79	59	7	5	27	1.47
11294673--11301586	772	8.9	772	98	0	13261	30	15	20	34	1.93
11303634--11303662	7	4.1	7	100	0	58	68	0	17	13	1.20
11304894--11304930	13	2.8	13	91	0	56	24	21	18	35	1.96
11308337--11308393	2	28.5	2	96	0	105	47	0	1	50	1.11
11309544--11309582	9	4.1	10	90	9	64	51	20	28	0	1.48
11309543--11309582	19	2.2	18	95	4	71	50	20	30	0	1.49
11310300--11310331	16	2.0	16	100	0	64	37	0	0	62	0.95
11311100--11311139	20	2.0	20	90	0	62	52	5	2	40	1.37
11313904--11313944	21	2.0	21	85	0	55	51	2	2	43	1.28
11315239--11315310	35	2.0	37	83	8	94	55	16	5	22	1.62
11316287--11316331	20	2.5	18	80	19	58	46	11	20	22	1.81
11317306--11317366	30	2.0	30	93	0	104	24	21	27	26	1.99
11326495--11326521	2	13.5	2	100	0	54	51	0	48	0	1.00
11327249--11327373	60	2.1	60	88	5	182	34	11	13	40	1.80
11327951--11327976	6	4.3	6	100	0	52	50	0	19	30	1.48
11327951--11327985	18	1.9	18	88	0	52	48	0	14	37	1.44
11333975--11334068	20	4.7	20	74	2	80	41	14	15	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11334417--11334783	177	2.1	177	91	2	603	39	12	17	31	1.87
11334670--11335250	287	2.0	288	94	1	1013	40	13	17	29	1.87
11348067--11348357	46	6.4	45	88	2	395	28	21	8	41	1.82
11348067--11348357	91	3.2	91	88	1	415	28	21	8	41	1.82
11348067--11348357	137	2.1	135	86	2	395	28	21	8	41	1.82
11349445--11349515	29	2.4	29	75	11	72	36	22	4	36	1.74
11349966--11350017	21	2.4	21	93	6	86	48	9	3	38	1.54
11350551--11351063	199	2.6	199	88	2	798	41	11	12	34	1.79
11354613--11354641	15	1.9	15	100	0	58	17	20	6	55	1.65
11363482--11363523	21	2.0	22	95	4	77	42	9	9	38	1.70

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   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78