genome.fa.s8242.2.7.7.80.10.50.1000.29.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  29  of  73  ( 8740 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)
6871723--6871761	7	5.6	7	93	0	60	17	0	35	46	1.49
6871722--6871761	21	1.9	21	94	0	71	20	0	35	45	1.51
6871813--6872046	2	119.0	2	67	17	80	44	2	4	48	1.37
6871813--6871953	13	11.2	13	71	17	93	43	2	4	49	1.36
6871863--6871977	26	4.4	27	77	13	89	40	4	5	49	1.45
6872988--6873031	17	2.6	17	77	0	52	59	0	0	40	0.98
6874120--6874157	16	2.4	15	87	12	58	23	15	18	42	1.89
6874326--6874659	66	5.1	66	81	4	314	29	12	24	33	1.92
6874326--6874647	132	2.4	132	81	4	360	29	12	23	34	1.91
6878625--6878768	72	2.0	72	89	2	218	39	23	15	20	1.92
6879709--6880441	81	9.0	81	87	2	961	36	10	22	30	1.88
6885099--6885161	13	5.0	12	74	16	56	42	11	0	46	1.39
6886358--6886482	60	2.1	61	87	1	180	16	20	35	28	1.94
6886732--6886802	33	2.2	32	85	9	92	40	0	0	59	0.98
6886779--6886825	24	1.9	24	87	12	69	38	0	0	61	0.96
6888552--6888642	42	2.2	42	88	4	130	23	35	17	24	1.95
6888618--6888690	21	3.5	21	78	0	74	23	34	24	17	1.96
6889550--6890160	139	4.4	139	90	2	851	32	23	19	24	1.98
6897387--6897938	118	4.7	115	78	7	490	30	22	12	34	1.91
6897387--6897938	115	4.8	114	79	9	448	30	22	12	34	1.91
6913558--6913589	17	1.9	16	93	6	55	21	6	0	71	1.07
6915378--6915508	43	2.9	44	76	8	140	28	29	19	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6918107--6918172	30	2.2	30	82	12	75	28	16	6	48	1.70
6919453--6919509	26	2.2	26	100	0	114	35	14	28	22	1.93
6921505--6921541	19	1.9	19	94	0	65	43	8	13	35	1.74
6933967--6934004	18	2.1	18	100	0	76	34	15	15	34	1.90
6959073--6959335	44	6.0	44	80	4	271	42	10	20	26	1.84
6959073--6959333	132	2.0	133	86	2	364	42	10	19	26	1.84
6959073--6959338	88	3.0	88	85	4	315	42	11	19	26	1.85
6961896--6961986	43	2.1	43	97	2	175	37	16	9	36	1.82
6963511--6963558	21	2.2	22	78	10	55	54	12	2	31	1.49
6970220--6970287	35	1.9	35	85	5	93	33	20	19	26	1.96
6970436--6970473	21	1.9	21	89	10	62	55	15	0	28	1.41
6976124--6976186	26	2.3	28	79	15	71	7	15	4	71	1.27
6983415--6983491	36	2.1	36	85	4	102	35	15	14	35	1.88
6983434--6983565	36	3.8	35	72	6	106	37	18	11	32	1.86
6984557--6984840	51	5.6	51	81	4	286	43	21	4	31	1.71
6984557--6984840	153	1.9	153	83	3	374	43	21	4	31	1.71
6987708--6987888	51	3.5	51	85	0	209	43	23	4	28	1.75
6987767--6987889	25	4.8	26	66	3	79	44	24	3	27	1.69
6996437--6996488	19	2.7	18	85	14	61	28	13	5	51	1.64
6996841--6996882	18	2.3	18	87	0	57	30	14	21	33	1.93
7006888--7006922	2	17.5	2	100	0	70	48	0	0	51	1.00
7007028--7007083	29	1.9	29	82	7	69	37	3	10	48	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7012720--7012776	24	2.4	24	75	0	60	26	17	22	33	1.96
7012678--7012776	48	2.1	48	84	0	126	28	17	20	34	1.95
7022789--7022830	21	2.0	22	85	4	59	2	35	2	59	1.23
7023349--7023388	21	2.0	20	85	9	55	32	12	30	25	1.92
7036136--7036462	162	2.0	162	86	5	449	37	13	12	36	1.83
7036819--7036892	29	2.6	29	95	0	130	39	17	12	31	1.86
7038145--7038181	18	2.1	18	100	0	74	32	10	16	40	1.83
7045453--7045487	18	1.9	18	88	0	52	57	31	0	11	1.34
7047400--7047445	18	2.6	18	92	0	74	47	13	6	32	1.68
7047501--7047542	17	2.5	17	84	0	57	45	14	11	28	1.80
7048693--7048746	28	1.9	28	85	7	74	55	14	1	27	1.50
7050017--7050065	18	2.7	18	87	6	64	18	16	42	22	1.88
7050837--7050882	22	2.1	23	88	8	69	39	8	10	41	1.71
7052292--7052346	19	2.9	19	88	0	74	21	34	14	29	1.93
7054386--7054422	14	2.6	14	91	0	65	51	0	0	48	1.00
7067247--7067400	81	1.9	81	91	0	254	31	20	13	35	1.91
7067256--7067429	81	2.1	81	82	4	199	34	19	13	32	1.90
7071291--7071327	14	2.6	14	91	0	65	21	5	32	40	1.76
7071272--7071327	28	2.0	28	82	6	69	25	5	26	42	1.76
7073336--7073411	34	2.2	35	92	2	127	30	11	17	40	1.85
7076096--7076133	18	2.1	19	95	5	69	52	2	10	34	1.50
7082085--7082146	21	2.9	21	92	2	97	35	17	22	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7084675--7084759	29	2.9	29	92	5	136	32	16	8	42	1.78
7085118--7085155	16	2.3	17	86	4	51	34	0	2	63	1.09
7085600--7085650	18	2.6	19	78	9	59	43	5	0	50	1.26
7086834--7086869	2	18.5	2	94	5	65	50	0	0	50	1.00
7086950--7086998	21	2.3	21	100	0	98	30	38	10	20	1.86
7086945--7087005	21	2.6	24	75	20	65	31	39	11	18	1.86
7090032--7090087	20	2.8	20	83	2	78	62	0	1	35	1.06
7090009--7090100	48	1.9	48	90	0	148	58	2	4	34	1.30
7090052--7090107	28	2.0	28	85	0	76	58	1	1	37	1.19
7094168--7094213	25	1.9	23	86	8	65	41	4	2	52	1.33
7094402--7094448	2	23.5	2	100	0	94	48	0	0	51	1.00
7126533--7126572	19	2.1	19	95	0	71	25	7	30	37	1.83
7127354--7127390	4	9.2	4	93	0	56	75	0	18	5	0.99
7128717--7128755	21	1.9	20	84	5	51	41	2	0	56	1.13
7132591--7132782	66	2.9	67	78	4	208	38	11	16	33	1.84
7138353--7138403	15	3.3	15	83	5	66	47	11	1	39	1.52
7144550--7144606	29	1.9	30	89	3	89	33	22	19	24	1.97
7144893--7144923	2	15.5	2	100	0	62	51	48	0	0	1.00
7148178--7148234	30	1.9	30	85	7	80	33	17	19	29	1.95
7149023--7149052	15	2.0	15	93	0	51	23	20	23	33	1.97
7151139--7151182	21	2.1	21	95	0	79	36	20	4	38	1.73
7152333--7152362	14	2.1	14	93	0	51	10	6	23	60	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7152456--7152499	2	22.0	2	100	0	88	50	0	0	50	1.00
7153444--7153479	16	2.1	18	90	10	58	38	0	0	61	0.96
7153726--7153811	27	3.2	27	89	0	91	32	5	4	56	1.43
7154096--7154121	3	8.7	3	100	0	52	34	0	0	65	0.93
7156382--7156417	18	1.9	19	88	5	56	27	0	2	69	1.02
7156492--7156541	25	2.0	26	88	4	75	78	12	0	10	0.98
7157306--7157344	20	2.0	20	100	0	78	35	20	20	23	1.96
7158494--7158540	23	2.0	23	84	8	60	55	14	2	27	1.51
7162147--7162283	45	3.0	45	94	0	247	34	6	23	35	1.81
7165591--7166361	139	5.5	139	90	2	1217	24	21	18	35	1.95
7166282--7166552	91	3.0	91	92	0	461	24	21	17	36	1.94
7166843--7166988	65	2.2	65	80	8	154	40	10	21	26	1.87
7166873--7166996	65	1.9	65	83	5	160	39	12	20	26	1.89
7166938--7167129	36	5.2	36	80	5	206	37	11	22	28	1.90
7166928--7167129	37	5.5	36	81	5	192	37	11	21	28	1.89
7166938--7167129	74	2.6	72	84	3	242	37	11	22	28	1.90
7167098--7167146	22	2.3	22	89	3	73	34	14	20	30	1.92
7167455--7167663	90	2.3	89	88	4	305	33	21	19	26	1.97
7167754--7168092	43	7.9	43	89	1	475	28	32	12	25	1.93
7170078--7170165	7	11.7	7	76	15	63	2	14	3	79	0.96
7170119--7170165	15	3.1	15	93	6	85	0	14	0	85	0.61
7170119--7170165	7	6.1	8	83	16	64	0	14	0	85	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7170121--7170165	23	1.9	23	95	4	81	0	15	0	84	0.62
7170077--7170165	16	5.9	14	71	16	63	2	14	3	79	0.95
7173618--7173681	28	2.3	28	100	0	128	46	9	3	40	1.52
7177292--7177354	2	32.5	2	80	6	76	0	53	0	46	1.00
7177292--7177351	21	3.0	20	90	9	95	0	55	0	45	0.99
7178482--7178531	23	2.2	23	88	0	73	38	8	24	30	1.84
7178560--7178607	23	2.1	23	84	7	62	37	10	18	33	1.85
7178446--7178607	87	1.9	87	96	0	297	40	12	16	30	1.85
7178646--7178698	20	2.7	20	96	0	97	41	11	3	43	1.58
7182251--7183247	201	5.0	200	80	7	1105	31	14	16	37	1.89

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