genome.fa.s9634.2.7.7.80.10.50.1000.21.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  21  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)
4562186--4562338	72	2.1	75	85	7	206	26	18	13	40	1.89
4562355--4562427	37	2.0	37	88	0	110	26	21	13	38	1.91
4562434--4562518	37	2.3	35	80	9	98	23	21	15	40	1.91
4562551--4562623	37	2.0	37	88	0	110	27	20	13	38	1.90
4562429--4563158	102	7.2	102	91	3	1157	30	19	12	36	1.90
4562639--4562802	37	4.7	37	70	20	138	29	19	12	39	1.88
4562755--4562919	37	4.7	36	68	18	107	30	19	13	36	1.90
4565072--4565106	16	2.2	16	89	0	52	11	11	0	77	1.00
4565065--4565134	27	2.6	27	76	17	72	15	8	1	74	1.13
4565268--4565313	6	7.8	6	76	13	51	15	0	2	82	0.76
4565267--4565316	19	2.7	18	82	11	57	16	0	2	82	0.77
4565269--4565316	25	1.9	25	87	8	71	16	0	2	81	0.79
4565270--4565311	10	4.3	10	77	17	52	16	0	2	80	0.81
4567417--4567510	31	3.0	31	100	0	188	28	3	39	28	1.72
4573098--4573136	20	2.0	20	90	10	62	51	12	15	20	1.76
4573731--4573762	16	1.9	17	93	6	57	34	0	0	65	0.93
4573730--4573781	27	2.0	26	84	3	68	40	0	1	57	1.10
4577336--4577377	3	14.3	3	95	5	77	33	0	0	66	0.92
4577339--4577373	17	2.1	17	100	0	70	34	0	0	65	0.93
4577336--4577380	20	2.3	20	96	3	83	33	0	0	66	0.92
4579943--4580008	22	3.0	22	84	6	89	30	33	4	31	1.78
4580251--4580284	14	2.4	14	90	0	50	38	0	5	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4580230--4580271	20	2.0	21	86	4	59	38	0	2	59	1.10
4580404--4580438	14	2.5	14	90	0	52	34	0	0	65	0.93
4580668--4580702	18	1.9	18	88	0	52	40	0	0	60	0.97
4583163--4583200	6	6.3	6	93	0	58	10	0	73	15	1.09
4583350--4583380	3	10.3	3	100	0	62	0	0	67	32	0.91
4584017--4584051	2	18.0	2	94	5	63	51	0	0	48	1.00
4585493--4585558	3	21.0	3	82	14	80	33	1	0	65	1.02
4585488--4585557	10	7.2	10	82	14	85	31	2	0	65	1.07
4585493--4585558	22	3.0	23	82	12	68	33	1	0	65	1.02
4588341--4588382	20	2.0	21	86	4	59	45	0	0	54	0.99
4590358--4590409	20	2.8	20	85	8	65	53	9	1	34	1.45
4592114--4592149	3	12.0	3	100	0	72	0	33	0	66	0.92
4593190--4593250	3	20.3	3	100	0	122	34	0	0	65	0.93
4595455--4595494	19	2.1	19	86	9	55	57	2	5	35	1.34
4606775--4606862	8	11.5	8	74	20	73	75	1	12	11	1.12
4606786--4606845	9	7.4	9	74	22	62	75	0	11	13	1.06
4606801--4606862	15	4.3	15	86	13	94	75	0	11	12	1.04
4606769--4606870	15	6.9	14	73	20	66	75	0	13	9	1.09
4608094--4608348	105	2.4	105	84	2	332	39	16	18	24	1.91
4608514--4608565	3	17.7	3	88	4	79	36	0	1	61	1.07
4610775--4610814	19	2.1	19	86	9	55	57	2	5	35	1.34
4613766--4613820	22	2.5	22	90	0	92	45	27	7	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4614166--4614215	23	2.2	23	100	0	100	46	18	4	32	1.67
4614877--4614901	2	12.5	2	100	0	50	48	0	0	52	1.00
4619597--4619656	21	2.9	21	97	0	111	40	21	18	20	1.92
4619586--4619682	21	4.6	21	85	5	108	41	20	21	16	1.90
4623571--4623824	126	2.0	125	86	2	357	33	16	24	24	1.96
4625000--4625197	36	5.5	36	84	2	229	36	23	18	20	1.95
4625000--4625197	108	1.8	107	83	4	263	36	23	18	20	1.95
4625579--4626134	51	10.8	51	84	7	644	33	19	25	22	1.97
4625579--4626134	257	2.2	257	87	7	817	33	19	25	22	1.97
4626079--4626403	55	6.0	56	87	5	352	30	14	26	28	1.95
4632128--4632154	14	1.9	14	100	0	54	44	0	3	51	1.19
4632278--4632552	8	34.4	8	94	0	361	50	30	1	17	1.56
4633309--4633424	59	2.0	58	80	8	128	42	18	6	31	1.77
4641121--4641314	97	2.0	97	86	2	273	18	27	15	38	1.91
4642121--4642158	6	6.3	6	85	11	51	21	2	15	60	1.47
4648029--4648072	21	2.2	20	83	4	52	20	6	22	50	1.72
4651565--4651625	23	2.7	23	89	0	86	54	18	13	14	1.72
4651656--4651718	24	2.7	23	80	2	81	46	6	12	34	1.68
4654162--4654186	7	3.6	7	100	0	50	48	28	12	12	1.76
4666086--4666122	6	6.2	6	90	9	58	81	0	2	16	0.81
4666085--4666187	12	8.0	12	71	18	50	67	1	5	24	1.22
4667371--4667467	37	2.6	37	86	0	140	40	16	12	30	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4667870--4667927	19	2.9	19	80	12	55	32	0	3	63	1.11
4668178--4668268	25	3.6	25	74	14	69	32	4	0	62	1.15
4668052--4668244	6	32.8	6	68	21	63	30	4	2	62	1.27
4668149--4668272	21	5.8	20	69	21	67	30	4	0	64	1.17
4669200--4669243	20	2.2	20	95	0	79	29	34	36	0	1.58
4669322--4669367	21	2.2	21	100	0	92	30	21	8	39	1.84
4672671--4672742	34	2.1	34	84	5	92	81	6	9	1	0.92
4672670--4672721	14	3.6	14	87	10	70	84	5	9	0	0.77
4672672--4672743	28	2.6	25	71	18	54	81	6	9	1	0.92
4674340--4675615	106	12.0	106	93	0	2014	33	24	18	22	1.96
4676364--4676460	37	2.6	37	85	0	131	40	16	11	31	1.84
4676490--4676526	13	2.8	13	95	0	65	37	21	8	32	1.83
4677147--4677211	22	2.8	24	75	18	64	30	3	1	64	1.18
4677170--4677239	22	3.3	21	74	16	72	25	2	0	71	1.00
4677125--4677241	44	2.7	43	77	16	116	29	3	1	65	1.18
4677125--4677241	46	2.7	43	76	18	116	29	3	1	65	1.18
4677126--4677239	21	5.2	20	72	20	77	28	3	0	66	1.14
4678507--4678557	11	4.8	11	75	18	54	54	1	0	43	1.11
4678504--4678556	14	3.6	14	74	20	54	56	1	0	41	1.10
4678506--4678545	19	2.1	19	86	9	55	57	2	0	40	1.12
4678731--4678989	138	1.9	138	80	7	312	31	16	20	31	1.95
4678904--4679444	228	2.4	226	90	1	848	31	17	22	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4678904--4679450	113	4.8	113	88	1	797	31	16	23	28	1.96
4683914--4683943	11	2.7	11	89	0	51	36	10	26	26	1.88
4686272--4686349	41	1.9	40	82	10	95	65	2	6	25	1.29
4686824--4686890	32	2.1	32	81	10	75	32	2	1	62	1.19
4687547--4687921	197	1.9	199	98	1	736	30	26	11	31	1.91
4688464--4688528	3	22.7	3	80	9	64	58	1	0	40	1.07
4688464--4688528	11	5.7	11	87	3	76	58	1	0	40	1.07
4688466--4688529	31	2.1	31	88	5	94	57	1	0	40	1.08
4688478--4688517	19	2.1	19	86	9	55	57	2	0	40	1.12
4688555--4688678	60	2.1	60	84	3	160	33	13	13	38	1.85
4689640--4689796	21	7.8	20	70	6	84	38	24	17	19	1.93
4689764--4689987	20	11.2	20	80	5	220	36	25	18	20	1.94
4691159--4691390	33	6.7	32	70	17	126	46	16	21	15	1.83
4691187--4691375	71	2.7	71	90	6	282	46	15	22	14	1.83
4691159--4691399	19	13.7	19	76	18	254	45	17	21	15	1.85
4691406--4691503	19	5.4	19	82	13	134	15	21	18	44	1.86
4691389--4691503	52	2.2	52	93	4	198	14	22	19	43	1.87
4691608--4691643	13	2.6	14	82	8	56	44	22	0	33	1.53
4693604--4693675	14	4.6	14	74	20	54	44	22	22	11	1.84
4693585--4693669	33	2.6	33	94	0	152	45	21	22	10	1.82
4693548--4693669	19	6.9	19	73	18	102	45	23	19	10	1.81
4693676--4693782	33	3.3	33	93	1	171	7	18	27	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693676--4693766	14	5.4	18	71	23	81	7	17	28	46	1.76
4693724--4693780	14	3.7	14	72	20	51	8	22	24	43	1.81
4693687--4693797	33	3.4	32	88	2	150	9	18	27	45	1.80
4693895--4694300	185	2.2	184	96	1	742	45	18	13	22	1.84
4693895--4694300	92	4.4	93	97	0	755	45	18	13	22	1.84
4695965--4696071	19	5.7	20	77	15	104	46	18	23	11	1.81
4695963--4696027	21	3.1	21	82	4	96	47	15	26	10	1.78
4696087--4696139	14	3.4	14	72	22	52	7	26	22	43	1.80
4696082--4696164	33	2.4	35	90	4	125	12	22	21	43	1.86
4696131--4696183	21	2.5	20	81	6	61	16	20	18	43	1.88

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