genome.fa.s1129.2.7.7.80.10.50.1000.69.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  69  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)
16490255--16490586	165	2.0	166	94	0	576	43	16	9	30	1.80
16491510--16491547	18	2.2	17	90	4	58	44	7	0	47	1.32
16492493--16492556	19	3.1	22	74	19	66	51	1	0	46	1.10
16493266--16493314	20	2.5	20	82	0	53	32	14	22	30	1.93
16493187--16493491	119	2.6	119	88	1	443	34	16	16	33	1.91
16500611--16500648	18	2.2	17	90	4	58	44	7	0	47	1.32
16500783--16500822	21	1.9	21	84	0	53	57	10	10	22	1.61
16501882--16501926	17	2.4	19	85	10	58	51	2	2	44	1.26
16501874--16501926	8	5.9	9	78	12	56	52	1	1	43	1.23
16515505--16515573	28	2.5	28	90	0	102	28	13	14	43	1.83
16519332--16519371	21	1.9	21	89	0	62	30	10	10	50	1.69
16519617--16519671	20	2.8	20	97	0	101	29	27	23	20	1.99
16519691--16519737	20	2.3	20	88	0	67	14	27	23	34	1.94
16520100--16520169	34	2.1	32	81	5	77	32	12	25	28	1.93
16524576--16524604	12	2.4	12	100	0	58	75	6	6	10	1.17
16525305--16525378	20	3.7	20	92	0	121	25	31	14	28	1.95
16529172--16529216	21	2.1	21	87	0	63	44	6	4	44	1.50
16530723--16530753	3	10.3	3	100	0	62	64	0	0	35	0.94
16530912--16531490	82	7.1	82	83	2	666	21	18	20	40	1.92
16530913--16531490	245	2.4	245	85	3	761	21	18	20	40	1.92
16530912--16531491	163	3.5	162	84	3	732	21	18	20	40	1.92
16531647--16531757	56	2.0	56	85	3	152	34	16	17	32	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16535863--16536377	43	12.1	42	77	4	392	33	19	21	25	1.97
16535863--16536344	170	2.8	171	81	5	530	34	19	21	24	1.96
16535863--16536377	85	6.1	85	75	5	346	33	19	21	25	1.97
16535863--16536377	42	12.1	42	77	4	365	33	19	21	25	1.97
16536460--16536513	21	2.5	22	85	5	67	48	16	9	25	1.76
16542716--16542740	10	2.5	10	100	0	50	72	0	0	28	0.86
16543742--16543785	21	2.2	20	87	4	61	38	0	0	61	0.96
16543746--16543792	19	2.4	20	82	10	53	44	0	0	55	0.99
16549567--16549734	81	2.1	82	81	1	194	30	19	20	30	1.97
16549600--16549753	41	3.8	40	72	9	114	31	19	20	28	1.97
16555594--16555632	20	2.0	20	85	10	53	17	28	38	15	1.91
16560268--16560316	24	2.0	24	100	0	98	42	12	12	32	1.79
16565538--16565964	213	2.0	213	96	0	791	37	17	9	34	1.83
16568830--16568879	17	3.0	17	85	8	59	68	0	20	12	1.21
16571090--16571251	2	84.5	2	71	23	118	49	4	1	44	1.33
16571025--16571208	20	8.9	20	71	18	87	53	2	1	42	1.25
16571026--16571208	66	2.8	64	79	13	160	53	2	1	42	1.25
16571026--16571208	71	2.6	71	80	12	179	53	2	1	42	1.25
16571101--16571249	35	4.3	34	83	9	169	48	4	2	44	1.35
16571096--16571251	68	2.3	69	82	10	187	48	4	1	44	1.33
16571685--16572211	201	2.6	198	81	6	535	28	21	17	33	1.95
16579127--16579170	21	2.2	20	87	4	61	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16579131--16579177	19	2.4	20	82	10	53	44	0	0	55	0.99
16584094--16584173	38	2.1	39	95	2	144	20	12	22	45	1.84
16584102--16584233	60	2.2	60	98	0	255	18	11	22	46	1.81
16584162--16584247	38	2.2	39	97	2	165	17	12	23	46	1.82
16588140--16588195	2	28.0	2	100	0	112	0	0	50	50	1.00
16620483--16623146	897	2.9	900	84	4	3388	34	16	16	32	1.91
16627914--16627964	20	2.5	20	87	0	75	33	17	13	35	1.89
16633857--16633914	23	2.7	20	72	25	55	29	17	15	37	1.90
16636175--16636208	12	2.7	13	86	9	52	44	8	5	41	1.60
16639616--16640055	222	2.0	222	89	0	666	34	14	19	31	1.92
16652529--16652862	55	6.1	55	91	1	431	35	19	10	35	1.85
16652530--16652862	110	3.1	110	90	3	503	35	19	9	35	1.85
16652547--16652862	165	1.9	162	90	1	497	36	18	10	35	1.84
16658927--16659227	54	5.5	54	86	3	399	33	20	11	34	1.88
16658967--16659227	55	4.8	54	91	3	443	33	19	11	35	1.87
16658967--16659227	109	2.4	109	92	2	461	33	19	11	35	1.87
16662825--16662849	12	2.1	12	100	0	50	36	8	0	56	1.29
16673094--16673226	60	2.2	59	86	1	176	42	4	20	33	1.72
16679211--16679236	13	2.0	13	100	0	52	53	15	0	30	1.42
16685671--16685777	24	4.5	24	70	2	81	45	15	14	23	1.84
16685670--16685779	48	2.3	49	78	9	127	45	15	15	23	1.84
16687635--16687707	36	2.0	36	97	0	137	28	20	8	42	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16688340--16688397	18	3.2	18	82	0	80	13	20	44	20	1.85
16690698--16690743	19	2.4	19	100	0	92	36	15	32	15	1.88
16691768--16691795	14	2.0	14	100	0	56	42	0	7	50	1.30
16692376--16692413	5	7.6	5	100	0	76	0	0	42	57	0.98
16692759--16693066	150	2.0	154	88	6	455	37	13	17	31	1.88
16693162--16693338	95	1.9	95	86	0	255	27	17	15	38	1.90
16695002--16695034	13	2.5	13	95	0	57	63	6	6	24	1.40
16710205--16710397	95	2.0	95	97	0	368	29	12	11	45	1.78
16714499--16714559	30	2.0	30	96	0	113	34	3	32	29	1.74
16716048--16716111	30	2.1	30	100	0	128	34	15	6	43	1.72
16717641--16717693	23	2.3	23	81	9	65	58	5	1	33	1.32
16717620--16717702	24	3.6	23	75	15	73	53	4	1	40	1.30
16717862--16717920	23	2.6	22	84	7	82	55	5	0	38	1.22
16717924--16717976	23	2.3	23	81	9	65	56	5	3	33	1.41
16717630--16718200	283	2.0	284	98	0	1108	47	6	3	42	1.45
16718112--16718193	23	4.3	19	70	22	55	56	6	1	36	1.32
16718145--16718224	23	3.6	22	80	14	85	57	5	1	36	1.28
16718187--16718231	19	2.2	22	85	14	62	64	2	2	31	1.18
16718189--16718284	23	4.2	23	71	19	60	56	2	2	39	1.23
16718330--16718396	23	2.9	23	88	4	82	47	0	8	43	1.34
16718359--16718403	23	2.1	21	84	15	58	44	0	11	44	1.39
16720577--16720633	17	3.1	19	78	14	57	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16720576--16720626	17	3.1	17	94	2	86	47	0	0	52	1.00
16720807--16720869	19	3.0	21	81	15	76	63	1	0	34	1.04
16723784--16723823	20	2.0	21	95	5	73	37	22	15	25	1.93
16725671--16725707	19	1.9	19	88	0	56	40	8	16	35	1.78
16726849--16726874	12	2.2	12	100	0	52	15	0	61	23	1.33
16727402--16727472	2	36.5	2	94	5	128	50	0	0	49	1.00
16727880--16727962	40	2.1	40	100	0	166	36	16	12	34	1.86
16728033--16728176	3	47.0	3	73	14	100	38	2	1	56	1.22
16728707--16728741	2	17.5	2	100	0	70	48	0	0	51	1.00
16728753--16728834	3	26.7	3	78	9	76	36	4	0	58	1.20
16733898--16734004	3	35.3	3	75	12	94	37	2	0	58	1.19
16755130--16755228	45	2.2	44	87	7	146	38	9	17	35	1.81
16755134--16755247	45	2.7	41	82	9	133	34	9	16	39	1.82
16755397--16755720	58	5.6	57	79	8	239	37	6	11	44	1.68
16755679--16755793	43	2.6	43	90	2	167	40	3	12	44	1.59
16755806--16755924	39	3.1	39	86	4	170	36	7	10	45	1.68
16755850--16756099	98	2.6	98	80	4	272	41	6	11	40	1.67
16756046--16756265	39	5.8	39	76	11	226	37	6	13	42	1.70
16764675--16764723	12	4.0	11	78	21	53	69	0	0	30	0.89
16764677--16764728	20	2.7	20	77	19	56	69	0	0	30	0.89
16765086--16765204	25	4.8	25	89	3	188	36	24	18	20	1.94
16765087--16765204	49	2.4	50	91	2	186	37	24	17	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16767681--16767757	30	2.6	29	81	6	82	33	19	6	40	1.77
16769878--16769941	32	2.0	33	84	9	87	64	1	0	34	1.03
16770313--16770505	25	7.8	25	89	2	284	37	22	18	21	1.94
16770313--16770505	49	3.9	50	89	2	284	37	22	18	21	1.94
16770321--16770513	74	2.6	74	90	6	302	38	21	17	22	1.93
16774273--16774354	23	3.6	23	71	17	73	25	23	25	25	2.00
16779498--16779543	19	2.4	18	83	16	58	13	23	10	52	1.71
16780388--16780416	6	5.0	6	95	4	51	86	0	0	13	0.58
16786876--16787031	65	2.4	64	86	5	217	31	19	21	28	1.97
16789235--16789308	30	2.4	29	78	8	76	35	17	6	40	1.76

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