genome.fa.s8242.2.7.7.80.10.50.1000.25.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  25  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)
5948308--5948350	23	1.9	21	81	13	50	32	18	13	34	1.90
5950531--5950575	21	2.1	21	95	0	81	15	11	4	68	1.34
5955474--5955513	20	2.1	19	85	4	53	30	17	10	42	1.82
5971028--5971073	22	2.0	22	83	12	56	52	13	2	32	1.52
5974689--5974742	10	5.3	10	85	12	65	0	1	16	81	0.78
5974696--5974742	10	4.6	10	86	5	67	0	0	14	85	0.61
5974689--5974743	20	2.7	21	86	8	78	0	1	18	80	0.81
5975097--5975138	15	2.6	16	85	7	59	69	0	11	19	1.19
5975592--5975637	22	2.0	22	83	12	56	52	13	2	32	1.52
5979009--5979038	15	2.0	15	93	0	51	0	16	6	76	0.99
5979029--5979074	18	2.4	19	82	10	58	10	10	17	60	1.57
5982395--5982449	23	2.4	22	85	11	67	63	0	16	20	1.31
5982484--5982517	17	1.9	18	88	5	52	32	0	38	29	1.58
5987570--5987635	6	11.2	6	75	15	57	3	15	1	80	0.91
5987573--5987635	23	2.7	23	85	14	85	3	14	1	80	0.90
5987570--5987636	18	3.8	17	76	23	75	2	14	1	80	0.90
5987570--5987637	35	2.0	34	85	8	93	2	14	1	80	0.89
5987948--5987981	17	1.9	18	88	5	52	32	0	38	29	1.58
5989005--5989078	35	2.1	35	87	5	105	35	4	35	25	1.75
5992283--5992316	17	2.0	17	94	0	59	35	0	32	32	1.58
5994854--5994960	50	2.1	50	78	11	112	20	20	22	36	1.95
5995424--5995468	8	5.9	8	84	5	58	88	6	4	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5997074--5997133	30	2.0	30	96	0	111	46	15	20	18	1.84
6007994--6008034	17	2.6	16	85	11	57	78	4	7	9	1.10
6010759--6010802	6	7.2	6	82	12	54	79	2	18	0	0.83
6025423--6025462	14	2.9	14	88	3	55	22	42	0	35	1.54
6025428--6025462	13	2.6	14	90	4	54	25	45	0	28	1.54
6025619--6025655	15	2.5	15	80	20	51	8	27	0	64	1.21
6039365--6039438	30	2.5	30	82	10	91	71	6	0	21	1.09
6039387--6039437	23	2.2	22	83	16	68	74	7	0	17	1.05
6039380--6039435	18	3.1	18	78	16	55	75	7	0	17	1.03
6045942--6046037	29	3.2	29	83	2	111	47	16	3	32	1.62
6045967--6046046	29	2.8	29	77	7	90	46	17	5	31	1.70
6045992--6046164	29	5.9	28	76	9	132	38	17	2	41	1.64
6052397--6052423	13	2.1	13	100	0	54	29	29	14	25	1.95
6061297--6061336	21	1.9	21	100	0	80	55	10	10	25	1.64
6061297--6061343	21	2.2	21	92	0	76	57	12	8	21	1.62
6061828--6061863	18	2.0	18	94	0	63	41	16	13	27	1.87
6068007--6068058	20	2.6	20	90	0	77	36	11	19	32	1.87
6077858--6077902	21	2.1	21	100	0	90	17	28	24	28	1.97
6078452--6078476	11	2.3	11	100	0	50	20	12	16	52	1.75
6090528--6090576	14	3.5	14	85	0	71	34	26	16	22	1.95
6092288--6092393	36	3.0	36	85	1	142	25	20	19	33	1.97
6092286--6092407	36	3.4	36	83	2	138	26	21	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6092307--6092424	35	3.3	35	81	5	132	27	21	16	33	1.95
6096094--6096142	11	4.5	11	79	2	55	57	2	0	40	1.10
6096389--6096428	11	3.5	11	86	10	53	72	5	0	22	1.04
6098301--6098357	2	28.5	2	100	0	114	50	0	0	49	1.00
6101137--6101180	14	3.1	14	80	0	52	34	22	15	27	1.95
6107371--6107410	11	3.5	11	86	10	53	72	5	0	22	1.04
6108785--6108819	13	2.7	13	95	0	61	37	11	8	42	1.72
6108790--6109023	85	2.8	84	84	5	269	30	18	15	35	1.93
6108985--6109009	13	1.9	13	100	0	50	32	16	12	40	1.84
6109082--6109114	2	16.5	2	100	0	66	48	0	0	51	1.00
6109561--6109652	29	3.2	29	86	6	132	32	22	6	38	1.80
6109652--6109692	17	2.3	18	91	4	66	7	19	51	21	1.71
6115833--6115908	31	2.4	30	78	6	80	28	31	25	14	1.95
6115776--6115909	63	2.1	63	80	12	150	27	28	27	16	1.97
6116795--6116928	29	4.6	29	80	0	160	36	23	6	33	1.81
6118258--6118667	55	7.5	55	83	3	508	37	17	8	36	1.81
6119019--6119225	96	2.2	96	79	3	227	28	20	12	38	1.89
6125346--6125765	55	7.6	55	88	2	594	36	17	10	35	1.85
6126208--6126253	19	2.4	19	96	0	83	17	28	10	43	1.82
6127165--6127459	62	4.8	60	79	7	315	32	14	24	28	1.94
6127162--6127459	124	2.4	124	85	2	384	32	14	24	28	1.94
6128508--6128660	80	1.9	80	83	4	200	32	23	10	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6135421--6135453	2	17.0	2	87	6	50	48	0	0	51	1.00
6135719--6135758	17	2.3	18	87	12	57	65	5	5	25	1.34
6138861--6138894	17	2.0	17	94	0	59	38	11	5	44	1.65
6138898--6138942	16	2.8	16	79	0	54	40	17	17	24	1.91
6141226--6141270	17	2.5	19	74	25	53	37	4	0	57	1.19
6141510--6141542	16	2.1	16	100	0	66	45	12	12	30	1.78
6143046--6143115	12	5.8	12	73	6	61	50	18	15	15	1.79
6143046--6143138	24	3.9	24	79	0	87	47	18	15	19	1.83
6143044--6143152	48	2.3	47	82	3	119	46	17	16	19	1.84
6143045--6143152	24	4.5	24	73	4	85	46	17	16	19	1.85
6144279--6144314	18	2.0	18	88	0	54	30	16	0	52	1.44
6144621--6144664	17	2.4	19	85	7	56	36	18	4	40	1.71
6145509--6145565	18	3.2	18	97	0	105	12	19	50	17	1.77
6147636--6147705	12	5.8	12	73	6	61	50	20	14	15	1.78
6147634--6147725	48	1.9	48	86	0	130	47	18	14	19	1.82
6147634--6147740	48	2.2	48	83	3	126	46	18	14	19	1.84
6147634--6147742	24	4.5	25	73	6	91	46	18	15	19	1.84
6148846--6148881	18	2.0	18	88	0	54	30	16	0	52	1.44
6150087--6150121	18	1.9	18	100	0	70	14	17	51	17	1.77
6152182--6152251	12	5.8	12	76	6	70	50	20	15	14	1.78
6152180--6152288	48	2.3	47	83	3	128	46	18	16	18	1.84
6152180--6152288	24	4.5	25	76	6	100	46	18	16	18	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6153409--6153444	18	2.0	18	88	0	54	30	16	0	52	1.44
6154642--6154694	18	2.9	18	100	0	106	15	16	50	16	1.78
6158280--6158355	27	2.9	27	98	2	145	36	14	10	38	1.81
6160318--6160363	22	2.1	21	84	11	58	58	13	8	19	1.60
6160313--6160367	22	2.6	21	71	23	53	60	10	7	21	1.55
6161515--6161540	13	2.0	13	100	0	52	61	0	23	15	1.33
6161728--6161769	2	21.5	2	95	4	77	50	0	0	50	1.00
6162393--6162443	6	8.5	6	91	0	84	21	0	11	66	1.23
6167473--6168075	305	2.0	302	96	3	1106	28	20	28	23	1.99
6171469--6171529	27	2.3	26	78	10	70	37	11	3	47	1.56
6171923--6171978	26	2.1	28	83	6	71	39	7	3	50	1.47
6174070--6174132	3	20.0	3	77	9	63	38	0	1	60	1.07
6174068--6174132	10	6.8	10	78	7	64	38	0	1	60	1.07
6186727--6186815	12	7.2	12	80	9	81	80	0	16	2	0.80
6186738--6186813	26	3.0	25	83	16	102	82	0	17	0	0.66
6186728--6186813	17	5.1	16	80	17	77	82	0	15	2	0.77
6187951--6188249	83	3.6	83	96	0	535	27	11	23	38	1.89
6188201--6188405	115	1.8	115	90	2	306	32	13	21	32	1.92
6188690--6188883	95	2.0	95	97	0	370	37	13	15	33	1.87
6189222--6190546	230	5.8	225	88	5	1696	38	14	18	28	1.90
6189219--6190546	342	3.9	340	89	5	1902	38	14	18	28	1.90
6189222--6190424	572	2.1	558	90	3	1912	37	14	18	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6189219--6190420	113	10.7	109	87	5	998	37	14	18	29	1.90
6190340--6190565	123	1.8	123	87	1	337	43	14	16	25	1.86
6190770--6190828	3	19.0	3	79	6	64	40	0	0	59	0.97
6196324--6196431	42	2.6	42	85	1	137	30	19	21	28	1.97
6196309--6197238	260	3.6	259	88	1	1358	32	17	18	32	1.94
6197796--6197827	16	2.0	17	88	11	50	37	9	3	50	1.51
6211779--6211852	34	2.2	34	92	0	121	40	0	0	59	0.97
6211785--6211855	10	6.7	10	71	16	54	40	0	0	59	0.98
6212306--6212341	18	2.0	19	89	10	58	16	11	66	5	1.40
6232031--6232225	88	2.2	91	84	7	254	23	25	24	27	2.00

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