genome.fa.s1129.2.7.7.80.10.50.1000.20.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  20  of  89  ( 10573 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)
4163750--4163789	21	1.9	21	85	10	55	52	5	7	35	1.51
4167588--4167630	21	2.0	22	86	4	61	20	23	20	34	1.96
4168130--4168169	13	2.9	14	88	7	55	35	12	7	45	1.70
4171624--4171779	31	4.6	36	68	19	118	29	23	23	23	1.99
4171624--4171792	68	2.5	68	89	0	266	29	23	23	23	1.99
4172526--4172600	31	2.5	29	91	8	132	28	21	21	29	1.98
4172735--4172783	2	24.5	2	100	0	98	51	0	0	48	1.00
4173616--4173672	29	2.0	29	86	6	80	33	21	7	38	1.80
4179738--4179791	25	2.2	25	89	0	81	29	22	20	27	1.98
4179920--4179945	2	13.0	2	100	0	52	50	0	0	50	1.00
4180054--4180100	23	2.0	23	100	0	94	48	12	8	29	1.71
4180061--4180111	23	2.2	23	89	0	75	52	9	7	29	1.62
4196329--4196378	23	2.2	23	92	0	82	38	8	22	32	1.83
4196380--4197070	198	3.5	197	81	8	704	30	14	14	40	1.86
4199455--4199495	21	2.0	21	90	0	64	26	12	17	43	1.84
4199355--4200233	199	4.3	200	82	9	1047	28	14	15	42	1.85
4199784--4199835	21	2.5	21	100	0	104	28	17	13	40	1.87
4199585--4200034	220	2.0	220	89	3	683	28	15	15	41	1.87
4199384--4200239	419	2.0	421	90	1	1344	28	14	14	41	1.86
4200885--4201467	182	3.3	179	80	9	640	26	15	13	44	1.84
4201415--4201453	20	1.9	21	89	5	62	15	15	23	46	1.83
4210201--4210238	20	1.9	20	88	0	58	21	15	31	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4210068--4210240	91	1.9	91	84	7	235	30	17	24	28	1.97
4219534--4220132	227	2.6	227	83	3	737	35	17	20	26	1.95
4220028--4220140	41	2.7	40	73	9	111	32	20	15	30	1.94
4220188--4220590	58	7.1	58	85	5	491	42	18	10	28	1.84
4220135--4220590	116	4.0	114	83	5	520	41	18	9	29	1.83
4220188--4220590	174	2.4	168	86	5	551	42	18	10	28	1.84
4222526--4222565	14	2.6	15	85	14	55	2	22	0	75	0.93
4222836--4222882	2	23.5	2	82	0	58	51	40	0	8	1.33
4222836--4222884	6	8.2	6	93	0	71	51	38	0	10	1.36
4222836--4222884	18	2.7	18	90	0	80	51	38	0	10	1.36
4223945--4223981	13	2.6	15	79	16	51	45	10	29	13	1.77
4228941--4228994	20	2.7	20	97	0	99	20	31	16	31	1.95
4233709--4233757	21	2.3	21	100	0	98	40	36	4	18	1.70
4240672--4240711	21	1.9	21	89	0	62	25	40	25	10	1.86
4242636--4242773	69	2.0	69	100	0	276	39	7	17	36	1.77
4244721--4244897	83	2.1	83	94	0	309	32	14	19	34	1.91
4260533--4260600	17	3.9	17	74	1	55	41	11	7	39	1.70
4264579--4264640	17	3.6	17	69	16	56	27	12	11	48	1.76
4264561--4264640	34	2.4	34	79	12	101	27	12	15	45	1.82
4264629--4264700	17	4.2	17	78	5	65	38	13	6	40	1.72
4275142--4275219	37	2.1	37	92	0	129	33	26	0	39	1.57
4278206--4278262	25	2.2	25	81	9	62	59	1	1	36	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4278305--4278372	11	6.6	10	74	11	57	52	2	1	42	1.25
4279004--4279034	15	2.1	15	93	0	53	51	0	25	22	1.48
4282005--4282040	17	2.1	17	89	0	54	61	5	22	11	1.50
4282005--4282052	17	2.8	16	81	15	51	62	6	18	12	1.50
4282077--4282104	14	2.0	14	100	0	56	28	0	14	57	1.38
4289491--4289515	2	12.5	2	100	0	50	52	0	0	48	1.00
4292637--4292677	20	2.0	20	95	0	73	19	36	4	39	1.73
4296145--4296210	32	2.1	33	85	5	91	34	10	0	54	1.35
4302465--4302508	21	2.1	21	83	8	54	36	4	11	47	1.60
4303287--4303318	2	16.0	2	93	0	55	46	3	50	0	1.17
4303832--4303890	7	8.0	7	79	9	64	18	5	0	76	0.97
4303832--4303907	23	3.5	21	74	13	64	19	5	2	72	1.16
4303925--4303958	16	2.2	16	94	5	61	35	2	0	61	1.11
4304904--4304952	25	1.9	26	83	4	64	67	4	6	22	1.30
4308759--4309142	192	2.0	192	97	0	732	28	15	15	40	1.87
4310482--4310563	41	2.0	41	100	0	164	21	14	19	43	1.87
4317810--4317906	37	2.6	37	88	0	149	43	14	9	32	1.77
4318504--4318554	8	6.3	9	80	17	51	29	1	0	68	1.00
4318511--4318557	8	6.0	8	78	12	53	31	0	0	68	0.90
4318511--4318555	15	2.9	15	90	3	63	31	0	0	68	0.89
4320329--4320363	17	2.1	17	89	10	54	8	22	0	68	1.16
4323789--4323840	16	3.2	18	76	17	60	84	3	11	0	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4323784--4323853	32	2.2	31	80	14	79	82	5	10	1	0.88
4323790--4323853	14	4.4	14	81	15	60	82	4	10	1	0.88
4325317--4326586	106	12.0	106	90	2	1932	34	25	17	22	1.96
4327318--4327421	37	2.8	37	89	0	154	40	12	16	30	1.85
4327361--4327434	37	2.0	37	81	0	85	40	16	14	28	1.88
4328031--4328083	25	2.1	25	83	13	65	30	0	1	67	1.01
4328098--4328136	11	3.5	11	86	6	51	25	2	5	66	1.25
4328620--4328783	4	40.0	4	73	20	58	26	3	1	68	1.14
4328693--4328783	34	2.6	34	76	15	87	21	3	0	74	0.96
4328693--4328784	15	5.9	15	72	15	64	21	3	0	75	0.95
4331182--4331230	18	2.7	18	96	0	89	40	16	20	22	1.91
4334852--4335064	92	2.3	92	78	7	227	29	15	31	23	1.96
4336655--4337330	342	2.0	342	94	0	1201	27	18	26	27	1.98
4346891--4346950	31	1.9	31	86	10	86	21	15	20	43	1.88
4353022--4353070	21	2.3	21	85	3	62	16	16	26	40	1.89
4354256--4354362	23	4.8	23	82	5	114	15	25	25	33	1.95
4354256--4354346	44	2.0	44	85	4	119	16	25	24	34	1.95
4359179--4359232	25	2.2	24	83	9	65	44	1	18	35	1.61
4359660--4359755	31	3.1	31	82	5	97	25	16	21	36	1.94
4360006--4360048	2	21.5	2	100	0	86	51	0	0	48	1.00
4362858--4362945	31	2.8	31	81	3	97	26	20	17	36	1.94
4363192--4363231	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4364733--4364782	21	2.4	21	93	0	82	68	10	16	6	1.38
4366418--4366765	55	6.3	55	88	1	493	27	18	19	34	1.95
4368667--4368732	33	2.0	33	96	0	123	27	28	9	34	1.87
4373245--4373693	55	8.2	55	85	1	571	27	18	17	36	1.94
4373262--4373693	164	2.6	164	88	4	613	28	18	17	36	1.93
4373245--4373693	219	2.1	219	85	3	600	27	18	17	36	1.94
4380782--4380955	89	2.0	88	94	2	303	44	6	11	37	1.66
4387564--4387740	90	2.0	89	90	1	282	44	7	10	37	1.67
4401639--4401677	17	2.4	16	84	16	53	64	2	0	33	1.08
4402099--4402785	225	3.0	226	88	1	1047	39	13	16	30	1.87
4403138--4403271	69	1.9	70	90	1	216	35	13	17	33	1.89
4405028--4405079	21	2.5	21	96	0	95	23	9	21	46	1.80
4405568--4405632	20	3.2	20	76	10	71	29	13	12	44	1.81
4407502--4407614	57	2.0	57	96	0	208	31	23	12	32	1.91
4407806--4407836	6	5.2	6	92	0	53	48	12	3	35	1.58
4407806--4407840	12	2.9	12	91	0	61	51	11	5	31	1.61
4408159--4408188	15	2.0	15	93	0	51	50	13	6	30	1.67
4409189--4409217	3	9.7	3	100	0	58	31	34	0	34	1.58
4409585--4409625	20	2.1	20	86	4	57	21	24	4	48	1.69
4410689--4411057	175	2.1	177	90	3	573	32	14	12	39	1.84
4411369--4411408	21	2.0	21	85	9	57	30	10	15	45	1.78
4411433--4411481	21	2.4	20	83	6	62	48	16	10	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410866--4411874	199	5.1	201	85	3	1270	34	14	12	37	1.84
4410869--4411824	399	2.4	400	86	2	1350	34	14	12	38	1.84
4414646--4414696	18	2.8	18	90	0	84	43	19	0	37	1.51
4418148--4418600	228	2.0	228	91	1	730	36	21	7	34	1.82
4418858--4419226	197	1.9	194	83	6	485	31	14	13	40	1.85
4419196--4419247	21	2.5	21	96	0	95	30	11	25	32	1.91
4419384--4419432	20	2.5	20	89	0	71	22	14	14	48	1.79
4419364--4419477	41	2.8	41	76	4	106	27	13	12	47	1.78
4420174--4420348	20	8.6	20	83	4	217	34	26	19	19	1.96
4420728--4420798	33	2.2	33	89	0	106	11	21	18	49	1.78

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   79   80   
          81   82   83   84   85   86   87   88   89