genome.fa.s1129.2.7.7.80.10.50.1000.52.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  52  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)
11809740--11809793	15	3.4	16	80	19	69	44	0	20	35	1.52
11809753--11809799	15	3.2	14	81	18	60	46	0	17	36	1.48
11809740--11809799	30	1.9	32	93	6	106	46	0	18	35	1.49
11809961--11810005	21	2.1	21	87	0	63	55	6	6	31	1.52
11812900--11812928	10	2.9	10	100	0	58	31	0	0	68	0.89
11815042--11815107	33	2.0	33	100	0	132	33	24	18	24	1.97
11816948--11816979	17	1.9	17	93	6	57	46	3	12	37	1.57
11818125--11818498	193	2.0	185	94	4	658	31	24	7	36	1.84
11819565--11819660	48	2.0	47	82	11	115	36	10	9	43	1.71
11826514--11826558	2	22.5	2	100	0	90	48	0	0	51	1.00
11831233--11831298	25	2.6	25	97	0	123	45	13	22	18	1.84
11831870--11831923	24	2.2	24	83	6	65	37	18	16	27	1.93
11834159--11834198	21	1.9	21	94	0	71	30	15	7	47	1.72
11834193--11834284	32	2.9	32	95	3	159	32	6	16	44	1.73
11834520--11834576	21	2.7	21	91	0	96	19	26	26	28	1.99
11834746--11834792	15	3.1	15	82	8	60	27	12	14	44	1.82
11834843--11834914	16	4.9	14	74	16	56	25	13	12	48	1.78
11834887--11834919	16	2.1	16	94	0	57	36	12	12	39	1.80
11834750--11835006	130	2.0	133	96	3	477	27	20	16	35	1.94
11834843--11834914	30	2.4	31	79	6	85	25	13	12	48	1.78
11834887--11834919	17	2.0	16	94	5	57	36	12	12	39	1.80
11834768--11835034	130	2.0	129	86	6	369	30	20	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11835014--11835045	16	2.0	17	88	11	50	43	21	21	12	1.86
11839187--11839432	100	2.4	100	79	6	253	44	8	8	37	1.67
11839187--11839400	101	2.1	100	81	5	234	44	9	8	36	1.69
11839452--11839486	17	2.2	17	90	10	56	62	0	0	37	0.95
11839713--11839930	109	2.0	108	88	3	323	22	19	15	42	1.89
11844682--11844723	21	2.0	21	85	0	57	28	16	26	28	1.97
11846208--11846260	28	2.0	27	85	7	72	15	15	13	56	1.67
11846450--11846479	15	2.0	15	93	0	51	3	56	0	40	1.16
11847599--11847639	20	2.0	21	90	4	66	39	0	0	60	0.96
11848891--11849271	192	2.0	189	97	2	719	33	16	16	33	1.92
11850133--11850194	27	2.5	24	80	16	81	38	17	16	27	1.91
11850140--11850201	27	2.3	27	97	0	115	33	20	16	29	1.94
11851826--11852022	71	2.8	71	84	9	253	57	14	0	27	1.41
11851906--11851955	23	2.2	22	82	10	57	64	12	2	22	1.37
11855616--11855644	2	14.5	2	100	0	58	51	0	0	48	1.00
11856675--11856713	8	4.9	8	90	0	51	33	2	64	0	1.08
11856672--11856713	12	3.5	12	86	0	57	35	2	61	0	1.09
11861144--11861264	42	2.8	42	85	5	145	29	22	24	23	1.99
11861605--11861967	202	1.8	201	81	4	453	34	20	17	27	1.95
11862023--11862081	26	2.3	26	100	0	118	42	11	20	25	1.86
11870647--11870703	18	3.1	19	92	5	98	15	21	5	57	1.57
11870645--11870722	37	2.2	35	82	11	95	17	19	5	57	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11872287--11872324	19	2.0	20	89	5	60	44	2	5	47	1.39
11874466--11874635	64	2.6	67	78	9	170	41	6	6	45	1.55
11876018--11876121	52	2.0	52	94	0	181	40	16	25	18	1.90
11880542--11880641	52	1.9	52	91	0	164	41	13	26	20	1.88
11882204--11882308	29	3.2	33	70	19	87	47	2	3	45	1.35
11882252--11882347	34	2.9	32	72	17	95	48	5	3	42	1.41
11882189--11882350	63	2.5	63	83	8	184	47	4	3	44	1.40
11884007--11884054	3	16.0	3	100	0	96	66	0	0	33	0.92
11884684--11884729	6	7.7	6	100	0	92	17	0	34	47	1.48
11886096--11886180	31	2.7	32	94	1	145	12	12	12	61	1.58
11887443--11887820	40	9.2	40	75	8	296	32	18	15	34	1.92
11887531--11887807	81	3.4	82	82	6	282	31	18	15	34	1.93
11888348--11888394	21	2.2	22	85	11	62	72	2	0	25	0.96
11888371--11888397	14	1.9	14	100	0	54	74	0	0	25	0.83
11888346--11888397	22	2.3	22	80	9	61	73	1	0	25	0.94
11888346--11888415	23	3.1	22	78	11	63	70	4	1	24	1.14
11888401--11888447	20	2.3	20	85	3	58	63	2	0	34	1.06
11888792--11888902	59	1.9	58	80	14	131	36	0	2	60	1.11
11891749--11891811	31	2.0	31	87	0	90	26	15	19	38	1.92
11892526--11892593	12	6.0	12	71	13	63	19	20	20	39	1.92
11892532--11892594	22	2.9	22	87	0	99	19	19	19	42	1.89
11897605--11897664	31	1.9	31	86	0	84	35	18	13	33	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11898374--11898428	22	2.5	22	87	0	74	21	20	20	38	1.94
11898975--11899181	97	2.1	97	90	0	315	37	3	38	20	1.71
11899224--11899282	27	2.2	27	87	3	84	32	3	38	25	1.72
11899184--11899353	79	2.2	79	81	4	191	33	4	34	27	1.78
11900588--11900755	29	5.8	29	77	5	117	45	16	20	18	1.86
11900657--11900725	28	2.4	28	87	2	93	47	17	13	21	1.81
11900626--11900756	29	4.6	28	80	3	118	43	17	19	19	1.88
11907239--11907386	29	5.1	29	83	3	181	45	16	19	17	1.85
11907247--11907406	29	5.5	28	75	16	123	45	18	18	18	1.86
11907239--11907406	58	2.9	58	76	11	182	45	17	19	17	1.86
11907241--11907403	87	1.9	86	83	7	213	45	17	19	17	1.86
11912684--11912723	21	1.9	22	90	10	66	15	10	35	40	1.80
11912909--11912978	20	3.5	20	88	1	97	31	21	11	35	1.89
11913192--11913249	18	3.1	18	80	11	62	55	6	10	27	1.59
11917116--11917231	36	3.2	36	88	1	180	30	35	3	31	1.74
11917291--11917417	63	2.0	63	100	0	254	29	30	12	26	1.93
11921293--11921393	36	2.8	36	88	4	134	34	32	3	28	1.76
11922481--11922545	20	3.3	20	83	10	73	35	20	7	36	1.81
11923136--11923517	54	7.1	54	84	3	484	33	15	13	37	1.87
11927486--11927514	14	2.1	14	100	0	58	48	6	27	17	1.72
11929979--11930223	54	4.5	54	85	2	294	33	15	15	35	1.89
11935082--11935122	21	2.0	21	85	9	57	34	2	7	56	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11935178--11935318	29	4.9	29	85	0	167	21	24	17	36	1.94
11942549--11942609	17	3.6	17	73	2	52	37	18	3	40	1.67
11946968--11947012	18	2.4	19	85	3	56	64	2	2	31	1.18
11948746--11948786	22	1.9	21	90	5	64	24	0	4	70	1.06
11949550--11949613	27	2.4	27	97	0	119	59	14	0	26	1.35
11952462--11952531	23	2.9	23	78	19	79	40	1	8	50	1.42
11957510--11957594	44	1.9	44	95	0	152	36	20	11	31	1.88
11958902--11958957	10	5.6	10	83	12	62	21	0	7	71	1.09
11958904--11958956	5	10.4	5	76	11	54	20	0	5	73	1.03
11959244--11959287	3	14.7	3	100	0	88	65	0	0	34	0.93
11959286--11959330	3	15.3	3	95	4	83	35	0	0	64	0.94
11959288--11959328	20	2.0	20	100	0	82	34	0	0	65	0.93
11963344--11963392	22	2.2	22	96	0	89	30	14	20	34	1.92
11983269--11983321	17	2.9	18	83	8	63	0	7	11	81	0.88
11987285--11987313	12	2.4	12	100	0	58	27	13	10	48	1.75
11999424--11999483	28	2.2	28	85	5	79	25	15	0	60	1.35
12001365--12001409	23	2.0	23	82	8	56	15	0	15	68	1.21
12002307--12002343	13	2.8	13	91	4	56	64	8	2	24	1.34
12002491--12002550	29	2.0	30	84	12	79	45	8	1	45	1.43
12005162--12005241	22	3.6	22	72	0	70	25	18	22	33	1.97
12011364--12011409	24	2.0	24	86	4	67	26	15	8	50	1.73
12018717--12018760	17	2.5	17	81	7	52	77	0	2	20	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12019187--12019261	21	3.6	21	85	0	96	22	45	10	21	1.82
12020147--12020431	36	7.9	36	73	16	232	41	13	18	26	1.87
12020147--12020431	65	3.9	73	72	18	218	41	13	18	26	1.87
12024704--12024739	14	2.6	14	90	0	63	77	0	2	19	0.88
12025163--12025261	21	4.7	21	89	0	144	19	42	13	25	1.87
12026104--12026270	76	2.2	74	81	8	185	55	11	1	31	1.47
12037355--12037396	17	2.4	18	88	4	59	71	2	4	21	1.16
12039872--12039917	14	3.2	15	78	9	60	71	0	8	19	1.11
12039869--12039918	5	10.2	5	83	12	50	72	0	8	20	1.10
12042898--12042940	18	2.4	18	96	0	77	72	4	4	18	1.20

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