genome.fa.s8242.2.7.7.80.10.50.1000.70.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  70  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)
16098964--16099011	22	2.2	22	88	0	69	43	2	8	45	1.45
16098896--16099029	14	11.1	11	70	25	69	46	2	6	44	1.45
16099360--16099399	20	2.0	21	90	5	64	42	0	15	42	1.46
16099564--16099657	7	14.0	7	70	14	56	37	2	1	59	1.16
16099558--16099590	15	2.3	15	89	5	50	27	3	0	69	1.03
16099581--16099644	20	3.6	19	70	27	59	39	3	1	56	1.25
16099605--16099661	20	2.9	19	71	7	51	38	1	0	59	1.08
16099574--16099664	33	2.8	32	93	5	155	39	2	1	57	1.18
16102604--16102629	2	13.0	2	100	0	52	50	0	0	50	1.00
16107971--16107999	2	14.5	2	100	0	58	48	0	0	51	1.00
16116214--16116248	17	2.1	17	88	0	52	57	25	8	8	1.57
16119903--16120001	36	2.7	36	92	4	155	49	13	5	32	1.63
16124508--16124542	17	2.0	18	88	5	54	57	8	2	31	1.44
16125740--16125851	56	2.0	56	94	0	197	38	22	10	28	1.87
16127521--16127798	141	2.0	141	87	1	405	29	18	25	26	1.98
16130044--16130103	30	2.0	30	100	0	120	33	23	20	23	1.97
16135286--16135325	21	1.9	21	84	0	53	40	2	10	47	1.50
16136122--16136174	27	1.9	28	92	3	90	47	24	0	28	1.52
16137860--16137889	14	2.1	14	100	0	60	20	13	20	46	1.83
16141137--16141204	3	22.0	3	85	5	91	61	0	0	38	0.96
16141333--16142274	76	12.4	76	96	0	1724	34	21	21	21	1.97
16142949--16143003	22	2.5	22	90	0	92	38	14	12	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16143363--16143528	54	3.1	54	96	0	296	22	23	15	38	1.92
16145621--16145937	114	2.8	114	93	0	519	33	21	14	30	1.93
16145840--16146398	93	6.0	93	95	0	969	36	21	13	28	1.91
16148235--16148307	6	12.8	6	76	11	73	1	12	2	83	0.82
16148233--16148343	17	6.6	17	73	12	95	1	14	2	81	0.89
16148233--16148343	23	5.0	22	72	13	86	1	14	2	81	0.89
16148233--16148343	35	3.3	34	73	12	104	1	14	2	81	0.89
16148240--16148343	39	2.7	38	83	10	113	1	15	2	79	0.93
16148236--16148336	27	3.6	29	76	11	86	1	14	2	80	0.93
16148266--16148346	27	3.0	26	82	12	94	2	17	2	77	0.98
16150904--16150942	14	2.8	14	85	11	53	58	7	17	15	1.59
16155181--16155248	12	5.4	13	87	7	88	60	0	0	39	0.97
16155188--16155273	3	28.0	3	81	4	100	59	0	0	40	0.97
16160362--16160488	67	1.9	67	83	0	164	24	18	18	37	1.94
16166829--16167054	36	6.3	36	86	2	303	34	22	24	18	1.96
16168138--16168196	29	2.0	29	96	0	109	49	11	13	25	1.76
16183995--16184045	26	1.9	27	84	4	68	62	5	3	27	1.36
16185922--16185955	17	2.0	17	88	0	50	70	8	0	20	1.13
16186558--16186748	76	2.6	75	86	6	255	54	14	1	29	1.46
16186558--16186782	76	3.0	74	79	7	224	54	12	1	31	1.46
16188421--16188468	5	9.6	5	77	8	53	75	0	2	22	0.91
16188420--16188468	20	2.5	20	83	6	64	75	0	2	22	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16201136--16201163	12	2.3	12	100	0	56	25	7	0	67	1.15
16202514--16202702	5	38.4	5	88	11	293	39	0	0	60	0.97
16203109--16203138	15	2.1	15	93	6	53	53	0	0	46	1.00
16210248--16210472	2	126.5	2	70	22	155	38	0	0	61	0.96
16210257--16210475	5	45.6	5	82	17	279	38	0	0	61	0.96
16210232--16210473	10	23.4	10	78	16	171	37	0	0	62	0.99
16210546--16210606	22	2.7	22	79	2	68	19	3	11	65	1.38
16218123--16218168	16	2.9	16	100	0	92	45	0	4	50	1.21
16218123--16218168	2	23.0	2	90	0	74	45	0	4	50	1.21
16218990--16219190	44	4.6	45	78	10	130	29	17	20	31	1.96
16218990--16219116	43	2.9	45	75	16	131	29	16	18	34	1.93
16219080--16219332	44	5.8	44	83	2	305	29	15	24	30	1.96
16219080--16219332	131	1.9	131	86	1	355	29	15	24	30	1.96
16228858--16228882	13	1.9	13	100	0	50	16	16	0	68	1.22
16233743--16233789	24	2.0	24	83	8	60	55	14	2	27	1.51
16233922--16233970	25	2.0	25	84	4	64	12	40	18	28	1.86
16239705--16240058	174	2.0	181	91	4	589	52	10	9	26	1.67
16243560--16243607	21	2.3	21	96	0	87	27	18	12	41	1.86
16248137--16248184	21	2.3	21	92	0	78	25	18	14	41	1.88
16250657--16250690	14	2.4	14	95	5	59	14	20	8	55	1.65
16251636--16251852	105	2.1	105	99	0	425	32	14	20	33	1.92
16252566--16252617	25	2.1	25	100	0	104	28	23	7	40	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16252818--16252847	3	10.3	3	92	7	53	36	0	0	63	0.95
16257652--16257843	67	2.8	68	78	3	217	28	17	12	41	1.86
16257801--16257916	37	3.2	37	82	2	153	30	15	13	40	1.86
16257982--16258317	104	3.3	104	79	6	373	36	16	11	36	1.85
16266340--16266388	22	2.2	22	88	0	71	22	4	16	57	1.56
16266742--16266800	21	2.8	21	76	0	64	22	33	27	16	1.95
16269130--16269173	8	5.5	8	83	0	61	40	0	29	29	1.57
16269519--16269598	21	3.9	21	76	3	90	20	37	27	15	1.92
16269948--16270017	34	2.1	32	84	5	86	31	17	30	21	1.96
16283868--16284004	64	2.2	63	80	6	143	24	24	17	34	1.96
16290761--16290799	3	13.0	3	88	0	60	33	5	28	33	1.79
16290798--16290870	3	24.3	3	100	0	146	34	0	0	65	0.93
16293775--16293812	3	13.0	3	94	5	69	34	0	0	65	0.93
16294791--16294900	50	2.2	50	95	0	193	34	21	18	25	1.96
16295202--16295264	24	2.6	24	79	13	67	31	7	1	58	1.36
16297289--16297592	73	4.5	67	75	9	253	28	19	13	39	1.89
16297429--16297544	37	3.2	37	90	2	189	28	18	15	37	1.91
16297289--16297665	205	1.8	203	81	7	458	28	18	12	39	1.88
16297612--16297945	104	3.3	104	82	7	391	35	15	11	36	1.84
16300000--16300087	31	2.9	30	75	6	79	38	13	5	42	1.68
16305853--16305934	5	16.4	5	97	0	155	39	0	0	60	0.96
16306007--16306055	22	2.2	22	88	0	71	20	6	16	57	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16306798--16306827	15	2.1	15	93	6	53	53	0	0	46	1.00
16313496--16313536	19	2.0	22	86	13	61	41	9	7	41	1.66
16327306--16327773	177	2.6	179	87	2	643	42	13	16	26	1.86
16329917--16329980	21	3.1	21	90	4	94	42	10	29	17	1.83
16330007--16330072	33	2.0	33	90	0	105	28	0	48	22	1.51
16331843--16331891	19	2.6	19	90	0	80	30	2	12	55	1.48
16332003--16333105	192	5.7	196	93	4	1858	36	14	19	29	1.92
16334462--16334803	166	2.0	169	96	3	629	32	14	19	33	1.92
16334768--16334855	6	14.7	6	82	0	77	37	7	32	21	1.83
16334785--16334856	3	24.0	3	76	0	72	36	6	33	23	1.82
16334768--16334849	36	2.3	36	95	0	146	37	8	32	20	1.83
16334768--16334855	12	7.3	12	88	0	113	37	7	32	21	1.83
16336067--16337548	183	8.1	182	94	1	2548	35	14	16	33	1.89
16338809--16338881	23	3.2	23	90	0	119	34	4	21	39	1.73
16338483--16340710	469	4.7	476	91	5	3503	41	7	10	40	1.69
16339278--16339350	23	3.2	23	90	0	110	35	5	20	38	1.76
16339762--16339836	21	3.5	22	85	7	100	34	5	21	38	1.76
16340224--16340298	23	3.4	22	87	5	64	42	4	18	34	1.69
16340236--16340308	23	3.2	23	92	0	119	36	5	19	38	1.75
16352346--16352630	67	4.2	66	77	10	277	27	17	13	41	1.87
16352502--16352617	37	3.2	37	88	2	180	28	18	14	38	1.90
16352683--16353018	104	3.3	104	80	6	357	35	15	12	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16361029--16361058	5	6.0	5	96	0	51	36	0	0	63	0.95
16361133--16361192	22	2.7	22	81	0	66	21	5	11	61	1.49
16361940--16361969	15	2.1	15	93	6	53	53	0	0	46	1.00
16369693--16369734	19	2.3	19	88	12	61	71	7	2	19	1.20
16377617--16377675	29	2.0	29	100	0	118	49	13	13	23	1.78
16382305--16382363	29	2.0	29	100	0	118	49	13	13	23	1.78
16385077--16385138	30	2.1	30	100	0	124	40	17	16	25	1.90
16389775--16389872	30	3.3	30	97	0	178	36	4	24	34	1.75
16398441--16398480	21	1.9	21	85	10	55	35	10	2	52	1.48
16409563--16409593	16	1.9	16	93	0	53	54	12	9	22	1.67

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