genome.fa.s1129.2.7.7.80.10.50.1000.75.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  75  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)
17860737--17860775	20	2.0	21	85	10	55	28	0	30	41	1.57
17862534--17862598	19	3.5	19	74	4	51	43	12	15	29	1.83
17862631--17862676	13	3.5	13	78	0	56	54	0	23	21	1.45
17863034--17863059	12	2.2	12	100	0	52	42	0	42	15	1.47
17864825--17864883	25	2.3	25	88	2	82	28	32	0	38	1.57
17868691--17868729	18	2.2	18	90	0	60	33	0	33	33	1.58
17869548--17869595	19	2.6	17	90	9	69	31	16	27	25	1.97
17869503--17869628	64	2.0	63	84	9	166	33	15	23	27	1.95
17872182--17872304	44	2.8	42	78	8	120	25	20	26	27	1.99
17878149--17878196	19	2.6	17	83	9	60	31	14	27	27	1.95
17878103--17878247	64	2.3	63	81	11	161	31	15	24	28	1.96
17888869--17888915	18	2.6	18	89	0	67	12	23	44	19	1.85
17889681--17889800	64	1.9	64	98	0	231	44	13	10	31	1.78
17889842--17890546	200	3.5	200	83	5	836	30	15	15	39	1.88
17892941--17892974	17	2.0	17	88	0	50	47	23	0	29	1.52
17893920--17893963	2	22.0	2	100	0	88	50	0	0	50	1.00
17894616--17897192	201	12.8	200	92	2	4161	31	16	14	36	1.89
17895843--17895881	19	2.1	19	100	0	78	28	10	25	35	1.89
17897448--17897494	19	2.5	19	96	0	85	55	10	2	31	1.46
17899055--17899095	21	2.0	21	95	0	73	2	43	0	53	1.13
17899343--17899378	15	2.3	15	90	4	54	13	36	2	47	1.58
17899392--17899456	21	3.1	21	90	0	103	13	30	10	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17899459--17899499	21	2.0	21	85	0	55	29	9	14	46	1.77
17901582--17902060	182	2.6	182	90	2	723	27	15	14	43	1.85
17911798--17911842	20	2.2	20	100	0	90	35	20	28	15	1.93
17916389--17916543	77	2.0	79	85	7	210	43	5	12	38	1.65
17919608--17919647	19	2.1	19	100	0	80	15	10	17	57	1.64
17920930--17920962	17	1.9	17	100	0	66	36	0	9	54	1.32
17921615--17921679	13	5.0	13	84	0	76	29	21	15	33	1.94
17921615--17921679	26	2.5	26	85	5	87	29	21	15	33	1.94
17921836--17921868	2	16.5	2	100	0	66	48	0	0	51	1.00
17925498--17925531	6	5.7	6	100	0	68	14	0	35	50	1.44
17925498--17925549	12	4.3	12	90	0	59	11	5	36	46	1.64
17925497--17925556	18	3.3	18	81	4	68	10	5	40	45	1.60
17925632--17925660	2	14.5	2	100	0	58	51	0	0	48	1.00
17932317--17932493	20	8.8	19	69	12	77	39	25	18	16	1.91
17932442--17932693	20	12.4	20	82	6	125	39	24	17	18	1.91
17932442--17932693	60	4.1	61	84	5	169	39	24	17	18	1.91
17932460--17932586	42	3.0	42	83	10	170	39	26	17	16	1.91
17932480--17932693	40	5.3	40	87	3	241	38	24	16	20	1.92
17932480--17932693	60	3.5	60	86	6	272	38	24	16	20	1.92
17933351--17933421	24	3.0	24	95	0	124	26	16	21	35	1.95
17933596--17933620	12	2.1	12	100	0	50	72	0	28	0	0.86
17935913--17936030	53	2.2	52	91	4	184	45	18	20	15	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17935913--17936030	19	6.7	19	75	20	130	45	18	20	15	1.85
17936020--17936097	33	2.4	33	95	0	138	14	23	17	44	1.85
17936039--17936097	19	3.4	19	68	22	65	15	20	16	47	1.83
17936204--17936237	14	2.4	14	95	0	59	44	20	0	35	1.52
17936291--17936324	14	2.4	14	90	0	59	44	20	0	35	1.52
17936544--17936580	18	2.1	18	89	0	56	32	5	10	51	1.60
17936536--17936588	24	2.2	24	86	0	70	35	3	13	47	1.61
17936838--17936924	39	2.2	39	97	0	165	47	20	14	17	1.83
17937115--17937267	20	8.1	20	87	10	223	45	15	24	15	1.84
17937115--17937262	53	2.6	57	89	7	223	46	15	23	14	1.82
17937239--17937354	53	2.2	52	81	3	133	20	23	18	37	1.94
17937297--17937388	33	2.8	33	94	0	166	14	22	18	44	1.86
17937277--17937388	19	6.4	19	70	20	100	15	23	16	44	1.86
17937495--17937531	14	2.6	14	91	0	65	45	21	0	32	1.52
17939443--17939544	19	5.3	19	83	1	114	48	25	16	9	1.77
17939518--17939596	33	2.4	33	91	0	122	46	20	21	11	1.81
17939592--17939650	19	3.4	18	71	22	54	8	18	27	45	1.78
17939608--17939664	14	3.7	14	72	20	51	8	22	24	43	1.81
17939592--17939682	33	2.7	33	89	1	128	9	18	26	45	1.81
17941603--17941664	20	3.2	20	76	4	81	46	16	22	14	1.83
17941601--17941726	19	7.1	19	71	18	110	45	19	23	11	1.83
17941648--17941704	14	3.7	14	72	20	51	43	24	22	8	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17941601--17941721	33	3.5	33	92	6	179	46	19	22	11	1.82
17941738--17941794	14	3.7	14	75	20	60	8	24	22	43	1.81
17941722--17941802	33	2.5	33	95	0	144	8	22	22	46	1.78
17941893--17941963	33	2.2	33	97	0	133	47	18	23	9	1.78
17941915--17941963	14	2.8	19	65	28	54	46	20	24	8	1.77
17941897--17941953	14	3.7	14	70	20	51	45	21	24	8	1.80
17942343--17942417	20	3.7	20	86	10	98	14	18	29	37	1.91
17942343--17942397	22	2.6	22	94	5	96	16	20	29	34	1.94
17942342--17942436	20	4.7	20	77	14	86	14	17	27	40	1.89
17944102--17944137	18	2.0	18	88	0	54	44	0	22	33	1.53
17944227--17944285	26	2.3	26	96	0	109	40	15	13	30	1.86
17953677--17953914	44	5.3	45	90	3	365	39	6	21	31	1.80
17957480--17957551	36	1.9	38	88	5	112	47	9	16	26	1.78
17957439--17957653	103	2.1	102	83	5	263	41	12	14	31	1.83
17957646--17957679	17	2.0	17	88	0	50	44	8	20	26	1.81
17957795--17957953	71	2.2	72	81	5	187	40	8	18	32	1.82
17967146--17967536	55	7.1	55	86	2	511	34	17	18	29	1.94
17967159--17967536	164	2.3	164	88	1	542	34	16	18	29	1.94
17969561--17969608	22	2.2	22	81	3	62	70	0	2	27	0.98
17986194--17986234	21	2.0	21	95	0	73	34	26	9	29	1.88
17986378--17986608	55	4.2	55	91	0	354	36	19	16	27	1.93
17986897--17987203	55	5.6	55	87	2	422	37	17	16	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17990152--17990456	55	5.6	55	86	1	398	37	16	17	28	1.92
17990152--17990456	109	2.8	110	85	2	427	37	16	17	28	1.92
17994510--17994554	20	2.2	20	88	0	63	53	11	15	20	1.72
17996932--17996962	16	1.9	16	93	0	53	54	22	0	22	1.44
17998424--17998462	3	13.0	3	94	0	69	66	2	0	30	1.05
18000573--18000617	10	4.6	10	77	5	56	68	2	0	28	1.01
18009150--18009206	26	2.2	26	100	0	114	28	3	28	40	1.73
18010069--18010192	55	2.3	55	86	0	167	41	14	21	21	1.89
18013971--18014274	125	2.4	125	87	0	421	32	16	26	24	1.96
18015005--18015583	234	2.5	234	94	0	998	31	16	17	34	1.93
18015390--18015491	42	2.5	41	80	4	116	23	22	22	31	1.98
18024427--18024457	14	2.2	14	94	0	53	0	16	3	80	0.83
18030942--18031007	2	33.0	2	100	0	132	50	0	0	50	1.00
18033678--18033715	20	1.9	20	88	0	58	47	2	5	44	1.39
18035177--18035240	24	2.7	24	85	0	92	53	17	12	17	1.73
18045403--18045446	2	22.5	2	95	4	81	52	0	0	47	1.00
18057769--18057809	2	20.5	2	100	0	82	51	0	0	48	1.00
18062048--18062084	17	2.2	17	95	0	65	13	24	43	18	1.86
18069038--18069068	7	4.4	7	91	0	53	29	29	25	16	1.96
18073480--18073645	85	2.0	85	81	4	201	30	18	19	31	1.95
18073623--18073684	13	4.8	13	93	0	106	32	16	20	30	1.95
18077621--18077661	2	20.5	2	100	0	82	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18085384--18085455	3	24.0	3	94	0	126	63	1	1	33	1.11
18086533--18086964	180	2.5	174	79	9	443	38	9	8	43	1.67
18086708--18087030	176	1.8	180	82	7	419	37	10	8	43	1.68
18098377--18098427	19	2.6	20	93	3	86	47	7	11	33	1.69
18112092--18112133	22	1.9	22	85	0	57	59	11	0	28	1.33
18118650--18118713	30	2.1	30	97	0	119	25	14	28	32	1.94
18135990--18136024	2	17.5	2	100	0	70	51	0	0	48	1.00
18136166--18136217	13	4.0	13	84	0	68	32	17	21	28	1.96
18153460--18153556	26	4.0	26	76	17	118	20	20	14	44	1.86
18153472--18153588	46	2.6	46	93	1	200	21	21	12	44	1.85

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