genome.fa.s1129.2.7.7.80.10.50.1000.67.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  67  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)
15846851--15846890	15	2.6	16	84	15	57	72	2	0	25	0.97
15847687--15847726	19	2.0	20	90	4	64	0	32	17	50	1.47
15848143--15848221	3	25.0	3	77	7	68	55	0	2	41	1.13
15853472--15853537	22	3.1	22	74	26	63	3	13	3	80	0.95
15853485--15853538	9	6.1	9	79	12	67	1	11	1	85	0.76
15853485--15853538	17	3.1	17	91	2	81	1	11	1	85	0.76
15858911--15858991	41	2.0	41	87	0	117	34	8	18	38	1.82
15858975--15859291	41	7.7	41	71	4	228	34	13	19	32	1.91
15858975--15859262	82	3.5	82	85	2	400	33	12	19	34	1.90
15874595--15874643	14	3.5	14	77	0	53	30	10	12	46	1.74
15876757--15876836	30	2.7	30	88	0	115	33	10	30	26	1.89
15904215--15904972	385	2.0	386	87	0	1097	31	15	21	32	1.94
15906374--15906461	42	2.1	42	95	0	158	46	17	12	23	1.82
15906756--15906822	28	2.4	29	82	12	95	29	16	23	29	1.96
15906900--15906975	31	2.7	29	77	15	79	46	2	17	34	1.62
15911756--15911805	24	2.1	24	96	0	91	52	20	6	22	1.68
15918301--15918346	20	2.2	20	84	3	56	28	10	17	43	1.82
15918309--15918346	20	1.9	20	88	0	58	28	13	18	39	1.88
15918843--15918875	12	2.8	12	95	0	57	54	24	6	15	1.63
15924899--15924942	21	2.0	22	82	4	54	29	0	18	52	1.46
15925963--15926008	5	9.2	5	97	0	74	41	15	19	23	1.89
15926009--15926127	5	23.8	5	100	0	238	20	0	40	39	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15927831--15927859	15	1.9	15	100	0	58	48	0	3	48	1.18
15930181--15930230	22	2.3	22	92	0	82	34	10	14	42	1.78
15939064--15939699	81	7.9	81	88	2	879	36	10	20	31	1.87
15939098--15939699	239	2.5	242	89	2	874	36	10	20	31	1.87
15942239--15942274	2	18.0	2	100	0	72	50	0	0	50	1.00
15942282--15942350	21	3.3	21	73	2	59	68	8	4	18	1.33
15942990--15943014	13	1.9	13	100	0	50	76	8	0	16	1.02
15949085--15949166	40	2.0	40	83	0	101	29	25	24	20	1.99
15950001--15950068	34	2.0	34	97	0	127	32	16	20	30	1.94
15968156--15968196	3	13.3	3	85	14	57	36	0	0	63	0.95
15968146--15968198	12	4.6	12	79	13	58	37	0	1	60	1.08
15968138--15968210	34	2.1	35	82	7	87	39	1	1	57	1.16
15976027--15976092	20	3.2	20	66	16	53	19	21	19	39	1.93
15976317--15976375	3	19.3	3	74	22	52	37	0	1	61	1.07
15976314--15976375	12	5.0	12	81	15	65	38	0	1	59	1.07
15977518--15977545	14	2.0	14	100	0	56	42	0	7	50	1.30
15978429--15978476	24	2.0	24	84	8	62	68	2	6	22	1.23
15978689--15978714	12	2.2	12	100	0	52	57	7	0	34	1.27
15980676--15980749	32	2.3	32	86	4	96	36	16	12	35	1.86
15987160--15987189	15	2.0	15	93	0	51	36	20	10	33	1.86
15988073--15988120	25	1.9	25	82	0	60	56	6	2	35	1.36
15997632--15997667	18	2.1	17	89	5	54	55	2	11	30	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15997656--15997712	27	2.0	29	86	6	82	68	0	12	19	1.20
16004172--16004205	17	1.9	18	88	5	52	26	5	11	55	1.58
16015039--16015081	20	2.2	20	95	0	77	37	0	18	44	1.50
16019383--16019428	21	2.2	21	84	0	56	43	23	4	28	1.73
16019583--16019631	19	2.5	20	86	3	64	40	26	6	26	1.79
16026041--16026077	16	2.3	16	90	0	56	48	0	16	35	1.46
16030148--16030260	13	9.1	12	70	17	70	80	4	13	1	0.94
16030149--16030250	10	9.5	10	72	22	57	80	4	12	1	0.96
16030148--16030259	23	4.7	23	73	16	88	80	4	13	1	0.95
16030150--16030261	33	3.4	34	75	17	96	79	4	13	2	0.99
16030148--16030250	11	9.5	10	74	15	80	80	4	12	1	0.95
16030171--16030265	11	8.0	11	73	21	59	77	3	15	3	1.02
16031864--16031954	30	3.1	30	78	7	80	45	6	15	32	1.72
16034030--16034072	7	6.0	7	88	2	50	13	4	25	55	1.58
16042541--16042603	30	2.1	30	100	0	126	34	22	14	28	1.93
16042883--16042932	18	2.6	19	81	6	66	28	20	22	30	1.98
16047279--16047314	17	2.1	17	89	0	54	61	0	2	36	1.11
16060845--16060980	68	2.0	68	100	0	272	14	23	19	42	1.88
16061182--16061256	24	3.3	23	78	10	82	21	20	20	38	1.93
16062892--16062957	21	3.2	21	86	4	107	18	16	0	65	1.28
16067359--16067433	11	6.9	11	69	23	52	77	1	14	6	1.04
16067350--16067421	37	2.0	36	88	2	108	77	1	15	5	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16067358--16067432	6	12.7	6	70	13	57	78	1	14	5	0.99
16067357--16067432	18	4.2	17	76	17	73	78	1	14	5	0.98
16068365--16068830	134	3.5	132	74	6	382	34	18	16	31	1.92
16069085--16069129	3	15.0	3	100	0	90	33	0	0	66	0.92
16072197--16072246	20	2.5	20	90	6	75	34	18	30	18	1.94
16072270--16072340	22	3.5	21	81	9	76	30	16	22	29	1.96
16072665--16073072	54	7.6	54	89	0	582	29	18	19	33	1.95
16073367--16073456	46	2.0	46	84	4	119	46	11	20	22	1.81
16079543--16079619	24	3.2	23	66	20	59	22	11	24	41	1.87
16079539--16079662	48	2.6	48	86	5	164	24	11	22	41	1.86
16084756--16084781	12	2.2	12	100	0	52	23	7	19	50	1.73
16090416--16090468	24	2.2	24	100	0	106	30	22	16	30	1.96
16097540--16097622	41	2.0	41	97	0	157	21	36	14	27	1.93
16098549--16098598	22	2.3	22	86	6	66	56	2	0	42	1.11
16098579--16098618	14	2.9	14	80	0	53	55	0	0	45	0.99
16100603--16100653	26	2.0	26	100	0	102	43	15	19	21	1.88
16105819--16105862	23	2.0	22	86	4	61	50	0	2	47	1.13
16105848--16105891	19	2.2	19	84	8	52	40	0	0	59	0.98
16105842--16105909	29	2.3	29	82	7	75	41	1	2	54	1.24
16105987--16106039	26	2.1	26	86	10	74	32	0	5	62	1.19
16105987--16106039	25	2.1	25	86	10	72	32	0	5	62	1.19
16107013--16107048	17	2.1	17	90	10	56	41	0	5	52	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16107607--16107709	42	2.5	41	82	3	116	26	33	17	22	1.96
16107688--16107757	21	3.3	21	77	0	68	24	31	24	20	1.98
16108940--16110382	137	10.4	138	83	5	1600	35	21	19	23	1.96
16108941--16110382	551	2.6	548	86	3	1924	35	21	19	23	1.96
16115437--16115508	23	2.9	23	81	10	72	44	5	1	48	1.34
16115460--16115546	27	3.3	25	78	12	77	42	4	1	51	1.29
16115683--16115742	30	2.0	31	90	3	95	56	11	8	23	1.61
16124225--16124411	38	4.9	38	82	8	220	42	3	8	46	1.49
16124225--16124411	76	2.5	75	86	6	252	42	3	8	46	1.49
16124376--16124436	25	2.4	25	88	5	86	40	1	11	45	1.50
16124507--16124563	18	3.2	17	78	9	60	14	1	5	78	0.99
16124514--16124561	14	3.5	14	80	11	55	14	2	6	77	1.06
16126310--16127365	526	2.0	527	90	1	1654	29	16	17	37	1.91
16133200--16133241	20	2.1	20	95	0	75	40	16	16	26	1.90
16133384--16133451	20	3.5	19	72	21	61	33	14	22	29	1.94
16139115--16139173	18	3.3	18	70	25	61	32	5	6	55	1.48
16139102--16139173	36	2.0	36	100	0	144	33	5	5	55	1.46
16143982--16144032	21	2.4	21	78	18	61	60	3	3	31	1.33
16147566--16147741	82	2.1	82	92	0	289	27	23	18	30	1.98
16155578--16155609	13	2.4	14	94	5	57	34	0	0	65	0.93
16155578--16155606	10	2.7	11	94	5	51	34	0	0	65	0.93
16157140--16157196	15	3.9	15	75	6	55	21	1	8	68	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16159597--16159659	14	4.5	15	73	25	57	14	20	14	50	1.77
16159597--16159668	28	2.6	28	84	8	85	15	19	12	52	1.74
16160736--16160813	2	39.0	2	97	0	147	48	0	1	50	1.09
16161083--16161117	9	3.8	9	92	3	52	80	0	20	0	0.72
16161116--16161156	3	13.7	3	100	0	82	68	0	31	0	0.90
16166455--16166486	15	2.1	15	94	0	55	21	6	9	62	1.47
16168870--16168927	31	1.9	31	89	3	91	34	22	10	32	1.88
16168870--16168938	31	2.3	31	84	2	86	33	21	8	36	1.84
16173368--16173397	13	2.3	13	94	0	51	30	20	6	43	1.77
16178821--16179009	65	2.9	63	83	7	202	30	20	17	31	1.96

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