genome.fa.s8356.2.7.7.80.10.50.1000.20.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  20  of  56  ( 6656 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)
4030361--4030421	32	1.9	32	93	0	104	32	14	16	36	1.89
4031350--4031394	22	2.1	22	88	12	67	46	0	0	53	1.00
4031356--4031406	21	2.5	20	78	9	57	50	0	0	49	1.00
4035659--4035757	45	2.2	45	98	0	189	33	14	21	31	1.93
4035659--4035771	45	2.5	45	91	2	147	32	13	23	30	1.93
4041481--4041516	18	2.0	18	89	10	56	33	2	0	63	1.08
4044918--4045055	13	11.0	12	70	12	55	76	2	14	7	1.10
4044925--4045060	43	3.1	42	79	13	134	75	2	15	6	1.10
4045016--4045057	6	7.0	6	81	10	50	80	0	14	4	0.86
4045947--4046645	134	5.2	134	84	2	830	31	23	15	29	1.95
4046825--4046869	3	14.7	3	90	4	72	31	0	0	68	0.89
4067029--4067063	13	2.5	13	90	9	52	34	0	0	65	0.93
4067023--4067075	15	3.8	14	82	9	63	33	0	0	66	0.92
4067029--4067072	14	3.1	15	80	12	56	34	0	0	65	0.93
4067063--4067103	20	2.1	20	90	4	66	41	0	2	56	1.13
4069447--4069527	10	8.4	9	75	10	63	18	28	25	27	1.98
4069447--4069527	19	4.2	19	84	12	94	18	28	25	27	1.98
4069536--4069599	5	12.0	5	77	12	65	18	51	21	7	1.71
4069554--4069606	27	2.0	27	92	0	88	18	47	22	11	1.81
4069536--4069594	22	2.7	22	89	0	91	18	50	22	8	1.73
4076795--4076864	10	7.3	9	73	10	59	12	28	30	28	1.93
4076794--4076869	19	3.9	19	77	8	82	14	27	28	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4078701--4078730	11	2.7	11	100	0	60	6	10	23	60	1.52
4080139--4080178	21	2.0	21	90	5	64	42	12	20	25	1.86
4082769--4082816	17	2.8	17	100	0	96	35	0	0	64	0.94
4083039--4083111	2	36.5	2	100	0	146	0	0	49	50	1.00
4084268--4084301	16	2.1	16	88	5	50	44	2	0	52	1.16
4085147--4085174	14	2.0	14	100	0	56	50	0	14	35	1.43
4086516--4086649	3	43.7	3	80	7	126	41	0	0	58	0.98
4088846--4088918	3	23.7	3	83	5	92	60	0	0	39	0.97
4088859--4088929	9	8.1	9	77	12	67	59	0	0	40	0.98
4089063--4089293	124	1.9	121	84	4	311	24	18	16	40	1.90
4090939--4091145	54	4.0	53	81	9	223	38	15	21	24	1.92
4091491--4091570	22	3.6	22	87	0	115	33	15	11	40	1.82
4091742--4092238	116	4.4	114	85	5	661	38	13	19	28	1.90
4091746--4092240	229	2.2	229	95	1	890	37	13	19	28	1.90
4092196--4092257	19	3.4	18	71	24	58	51	9	22	16	1.73
4092184--4092273	36	2.5	36	94	0	153	50	10	21	18	1.76
4092649--4092754	3	34.7	3	83	7	133	38	0	0	61	0.96
4098732--4098801	36	1.9	36	91	5	115	20	28	8	42	1.81
4099056--4099169	42	2.7	42	91	0	174	19	18	18	43	1.88
4099359--4099397	20	2.0	20	89	0	60	48	0	0	51	1.00
4099339--4099403	20	3.2	20	71	16	55	47	0	0	52	1.00
4099440--4099479	21	1.9	21	85	10	55	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4099433--4099515	28	3.0	28	77	13	82	51	0	0	48	1.00
4099369--4099515	54	2.7	52	78	14	136	52	0	0	46	1.10
4099443--4099514	18	3.9	18	75	16	67	55	0	0	44	0.99
4099509--4099553	23	2.0	23	86	0	63	53	2	2	42	1.25
4099884--4099922	20	2.0	20	84	0	51	33	17	7	41	1.79
4099920--4099962	21	2.0	21	90	0	68	27	18	9	44	1.80
4099896--4099941	15	3.1	15	75	6	58	30	17	8	43	1.79
4100284--4100356	31	2.4	31	86	4	105	46	9	15	28	1.77
4100284--4100373	31	3.0	29	81	10	101	46	7	15	30	1.74
4101356--4101416	31	2.0	31	83	3	79	31	8	22	37	1.84
4101347--4101416	31	2.3	30	80	2	77	32	7	21	38	1.81
4102224--4102264	21	1.9	22	85	14	59	39	4	4	51	1.45
4106233--4106461	97	2.4	96	80	2	244	32	12	15	40	1.84
4106788--4106867	41	1.9	42	82	2	99	47	7	11	33	1.67
4106833--4107066	73	3.2	72	78	10	237	35	14	7	42	1.73
4107085--4107116	17	1.9	17	93	6	57	34	9	0	56	1.32
4107138--4107705	186	3.1	183	80	7	638	35	18	9	36	1.84
4110800--4110853	20	2.7	20	77	11	74	27	31	14	25	1.95
4110841--4110908	20	3.3	20	72	11	66	35	23	13	27	1.92
4110914--4110981	20	3.4	20	93	0	118	39	23	17	19	1.92
4110877--4110981	40	2.6	41	83	8	128	40	23	15	20	1.91
4111109--4111159	22	2.3	22	82	0	66	21	39	11	27	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4113402--4113447	4	11.5	4	80	0	56	28	0	4	67	1.10
4115267--4115339	20	3.7	20	84	0	110	39	20	20	19	1.92
4115267--4115342	40	1.9	40	94	0	134	39	21	21	18	1.93
4115549--4115635	39	2.2	39	89	0	138	17	13	19	49	1.79
4115945--4115981	18	2.1	18	89	0	56	51	10	5	32	1.60
4116364--4116413	25	2.0	25	92	0	82	44	22	6	28	1.76
4116479--4116531	20	2.7	20	78	0	70	33	26	16	22	1.96
4116833--4116868	18	2.0	18	94	0	63	19	2	22	55	1.56
4119146--4119197	24	2.2	24	82	6	61	36	19	17	26	1.94
4120063--4120114	19	2.7	19	78	0	68	28	7	21	42	1.80
4120106--4120180	21	3.6	21	92	0	114	40	18	21	20	1.92
4121147--4121188	17	2.5	17	96	0	75	4	28	0	66	1.12
4125284--4125349	31	2.2	30	91	2	105	24	24	13	37	1.91
4127224--4127317	31	3.1	31	93	1	154	35	15	26	22	1.94
4131605--4131662	31	1.9	31	86	6	84	17	18	8	55	1.67
4135577--4135822	55	4.4	57	82	12	271	30	9	19	40	1.84
4136007--4136136	59	2.2	59	84	5	181	29	26	12	31	1.93
4136169--4136274	42	2.5	42	78	4	117	27	22	20	29	1.99
4136382--4136427	19	2.4	19	85	3	56	32	23	15	28	1.95
4136084--4136543	227	2.0	227	87	0	652	28	24	16	30	1.97
4136396--4136518	42	3.0	42	77	4	115	27	23	19	29	1.98
4136156--4136592	227	1.9	226	86	1	615	27	23	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4138724--4138818	3	32.7	3	87	6	142	66	0	1	32	0.99
4138724--4138818	20	4.7	21	89	3	142	66	0	1	32	0.99
4138954--4139601	114	5.6	114	93	4	1018	28	19	14	36	1.92
4140236--4140442	52	4.0	52	98	0	387	36	23	14	24	1.93
4141583--4141637	16	3.5	15	77	18	58	3	12	0	83	0.77
4141588--4141667	40	2.0	41	82	7	101	2	17	0	80	0.83
4141583--4141655	29	2.6	29	80	6	87	2	16	0	80	0.82
4141601--4141668	12	5.7	12	78	16	61	1	20	0	77	0.84
4141583--4141668	15	5.9	14	82	15	70	2	18	0	79	0.85
4153850--4153888	20	1.9	21	84	5	53	0	12	12	74	1.08
4154376--4154485	3	36.7	3	87	3	159	66	0	0	32	0.98
4156764--4157056	50	5.9	51	81	4	301	47	15	12	24	1.80
4156766--4157046	101	2.8	98	81	6	309	48	15	11	24	1.79
4158837--4158872	12	3.1	12	96	4	65	66	0	0	33	0.92
4158836--4158881	20	2.2	21	88	11	69	67	0	0	32	0.91
4159328--4159387	14	4.4	14	85	6	52	68	18	3	10	1.32
4159287--4159374	24	3.6	24	87	1	122	65	13	6	13	1.44
4159343--4159387	14	3.3	14	87	3	56	66	20	4	8	1.36
4160603--4160633	15	2.1	15	100	0	62	51	0	0	48	1.00
4161124--4161175	27	1.9	27	88	0	77	44	0	7	48	1.31
4161950--4162114	29	5.6	30	82	3	176	33	20	29	16	1.95
4162705--4162742	13	2.9	14	85	14	55	36	23	23	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4168764--4168919	29	5.3	30	77	7	133	35	17	30	16	1.92
4168765--4168919	59	2.6	60	80	6	165	36	17	30	16	1.92
4176509--4176705	101	2.0	101	92	0	331	28	15	19	36	1.92
4184996--4185131	65	2.1	66	95	1	247	24	15	6	53	1.65
4185840--4185873	2	17.0	2	100	0	68	50	0	0	50	1.00
4188067--4188097	3	10.3	3	100	0	62	32	0	0	67	0.91
4204866--4204909	3	14.3	3	95	4	79	34	0	0	65	0.93
4207843--4207935	20	5.0	21	70	20	73	22	34	26	16	1.95
4207869--4207951	34	2.4	35	93	2	141	21	36	24	18	1.95
4207894--4207950	15	3.5	15	72	25	53	19	36	24	19	1.94

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