genome.fa.s7984.2.7.7.80.10.50.1000.38.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  38  of  65  ( 7696 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)
7795000--7795048	15	3.3	14	81	13	53	2	14	2	81	0.87
7795359--7795384	2	13.0	2	100	0	52	50	0	0	50	1.00
7802112--7802167	19	3.5	16	73	23	55	53	1	0	44	1.11
7802126--7802170	19	2.4	19	81	7	56	53	2	0	44	1.13
7803612--7803689	32	2.5	31	73	8	86	35	8	10	44	1.70
7806979--7807033	23	2.4	23	100	0	110	43	0	3	52	1.18
7806973--7807043	23	2.7	27	75	20	78	45	0	2	52	1.15
7807038--7807071	14	2.6	13	90	9	52	50	2	0	47	1.16
7811049--7811092	22	2.0	22	100	0	88	13	50	9	27	1.72
7811744--7811831	43	2.0	43	95	0	158	21	28	18	31	1.97
7813148--7813215	30	2.3	30	86	0	91	32	23	7	36	1.83
7816526--7816568	22	2.0	22	86	4	61	18	11	27	41	1.85
7818964--7818998	14	2.6	14	86	4	54	80	0	0	20	0.72
7821555--7822933	84	16.7	84	80	5	1476	24	20	25	30	1.98
7821571--7822933	164	8.2	164	87	3	1865	24	20	25	30	1.98
7821571--7822933	497	2.8	496	92	1	2265	24	20	25	30	1.98
7828218--7828266	11	4.3	12	80	12	59	83	0	6	10	0.80
7828220--7828267	10	4.5	10	77	12	51	81	0	8	10	0.88
7828279--7828321	5	8.2	5	85	10	59	76	2	2	18	1.00
7828279--7828321	11	4.1	10	82	11	59	76	2	2	18	1.00
7828278--7828318	22	1.9	21	95	5	73	78	2	2	17	0.98
7828279--7828319	16	2.5	17	84	7	59	78	2	2	17	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7831090--7831118	9	3.2	9	100	0	58	34	13	0	51	1.42
7831418--7831479	28	2.2	28	88	0	88	30	9	20	38	1.85
7840687--7840742	21	2.7	22	81	10	64	30	17	23	28	1.97
7841909--7841976	20	3.4	20	95	0	118	30	25	19	25	1.98
7841914--7841967	12	5.2	12	68	32	52	31	25	18	24	1.97
7851391--7851433	21	2.0	21	86	0	59	30	27	25	16	1.97
7851979--7852196	103	2.1	103	99	0	427	24	12	24	37	1.91
7852213--7852275	23	2.7	23	87	4	92	20	26	26	25	1.99
7858326--7858368	21	2.0	21	86	0	59	30	27	25	16	1.97
7858395--7858432	20	1.9	20	88	0	58	23	34	31	10	1.89
7858913--7859130	103	2.1	103	98	0	418	25	12	24	37	1.91
7859147--7859204	22	2.6	22	82	15	75	18	27	29	24	1.98
7860671--7860771	23	4.6	22	80	8	109	22	25	23	27	2.00
7860652--7860770	44	2.7	43	83	10	152	25	25	22	26	2.00
7860737--7860793	20	2.8	20	94	0	96	19	29	21	29	1.97
7862676--7862714	17	2.3	17	90	0	60	17	2	20	58	1.50
7863407--7863549	65	2.2	64	83	3	171	30	22	18	27	1.97
7869570--7869599	15	1.9	16	93	6	53	0	36	3	60	1.14
7873179--7873243	24	2.8	23	81	9	69	23	9	10	56	1.61
7873532--7873561	15	2.1	14	93	6	51	40	0	0	60	0.97
7879546--7879636	21	4.3	21	78	0	74	37	20	15	26	1.93
7879494--7879636	42	3.4	42	76	8	119	34	23	17	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7879539--7879638	42	2.4	42	81	3	121	34	23	17	26	1.96
7881092--7881157	29	2.3	29	100	0	132	39	12	3	45	1.57
7881092--7881178	29	3.0	29	90	6	106	41	12	3	42	1.60
7889473--7889508	15	2.4	15	90	9	56	41	27	22	8	1.82
7889476--7889553	18	4.5	18	68	26	60	39	30	20	8	1.83
7889605--7889656	18	2.9	18	91	0	77	42	34	23	0	1.54
7889599--7889656	21	2.8	21	97	0	107	43	34	22	0	1.54
7889602--7889656	3	18.3	3	92	0	65	41	34	23	0	1.55
7895228--7895267	21	1.9	21	89	0	62	30	0	20	50	1.49
7896933--7897441	182	2.8	181	94	1	876	42	12	16	28	1.85
7897641--7897685	23	2.0	23	95	0	81	37	20	8	33	1.83
7898088--7898124	2	18.5	2	100	0	74	48	0	0	51	1.00
7901492--7901524	16	2.0	17	94	5	59	72	0	12	15	1.12
7911764--7911816	23	2.2	24	96	3	99	56	0	3	39	1.17
7914110--7914147	20	1.9	20	94	0	67	36	15	23	23	1.94
7916554--7916900	173	2.0	175	97	2	664	37	9	22	30	1.86
7923657--7923686	15	2.0	15	93	0	51	13	0	30	56	1.37
7925994--7926136	60	2.3	62	79	2	155	34	10	12	41	1.77
7927056--7927100	24	1.9	23	86	4	63	66	2	11	20	1.33
7927000--7927881	437	2.0	434	94	3	1550	44	7	5	42	1.57
7928243--7928302	2	30.0	2	100	0	120	50	0	0	50	1.00
7933802--7933860	9	6.9	9	79	9	70	64	3	0	32	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7933809--7933858	17	2.9	17	93	0	82	60	4	0	36	1.16
7936710--7936765	26	2.1	26	96	3	103	55	3	7	33	1.45
7937920--7937958	20	2.0	20	89	0	60	35	10	20	33	1.86
7941832--7941940	42	2.7	40	80	7	119	29	22	22	26	1.99
7942263--7942369	42	2.6	41	82	2	124	29	22	21	26	1.99
7942485--7942585	42	2.4	41	81	3	130	30	22	21	24	1.99
7941812--7942917	431	2.6	429	94	0	1926	31	20	15	32	1.93
7941812--7942917	216	5.1	215	95	0	1910	31	20	15	32	1.93
7942699--7942799	42	2.4	41	81	3	130	30	22	21	24	1.99
7945925--7945976	2	26.5	2	96	3	97	48	0	0	51	1.00
7948070--7948106	6	6.2	6	90	9	58	48	16	16	18	1.81
7948070--7948106	13	3.1	12	88	11	58	48	16	16	18	1.81
7948459--7948598	52	2.6	54	85	6	185	21	23	14	40	1.90
7955441--7955489	3	17.0	3	83	8	66	28	0	2	69	1.00
7956512--7956557	21	2.2	21	88	7	67	32	4	0	63	1.14
7957658--7957687	2	15.0	2	100	0	60	50	0	0	50	1.00
7960461--7960497	19	2.0	18	89	5	56	45	2	21	29	1.65
7961571--7961709	72	1.9	72	92	0	233	24	21	18	35	1.96
7961804--7961866	11	5.5	11	75	17	58	79	0	17	3	0.86
7964496--7964980	222	2.2	222	89	3	735	29	19	20	30	1.97
7964940--7964979	20	2.0	20	90	0	62	27	32	22	17	1.96
7965345--7965400	3	19.0	3	79	3	51	33	0	1	64	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7966513--7966556	21	2.1	21	87	8	63	31	4	0	63	1.14
7966702--7966997	155	1.9	154	84	8	395	38	6	5	49	1.50
7968734--7968786	18	2.8	19	77	2	63	47	1	0	50	1.12
7974772--7974835	21	3.3	21	62	20	57	26	10	21	40	1.86
7980626--7980666	21	1.9	22	95	5	75	26	19	14	39	1.90
7983454--7983487	18	1.9	18	94	5	61	23	17	14	44	1.86
7992984--7993025	17	2.4	18	92	4	68	71	0	4	23	1.05
7995571--7995677	5	21.4	5	70	14	69	71	3	6	18	1.24
7995571--7995677	11	10.7	10	71	12	69	71	3	6	18	1.24
8000724--8000778	3	18.7	3	78	10	60	67	0	1	30	1.01
8000713--8000763	22	2.2	22	89	10	75	72	0	0	27	0.85
8000727--8000762	14	2.6	14	86	0	54	72	0	0	27	0.85
8000707--8000781	11	6.7	11	74	16	57	66	0	1	32	1.00
8011620--8011658	19	2.1	19	100	0	78	48	20	20	10	1.78
8016114--8016149	2	18.0	2	100	0	72	50	0	0	50	1.00
8017661--8017703	21	2.0	21	90	0	68	27	13	0	58	1.37
8024216--8024275	24	2.5	24	91	0	93	21	25	18	35	1.96
8024264--8024314	20	2.5	20	83	0	66	19	15	19	45	1.86
8024951--8025022	27	2.6	28	84	6	94	15	20	22	41	1.89
8025004--8025149	29	5.0	30	75	7	104	22	26	15	36	1.93
8024947--8025149	87	2.4	86	77	6	198	19	24	17	38	1.93
8025727--8025780	24	2.4	22	81	6	54	48	1	12	37	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8029136--8029222	17	5.1	17	72	1	66	42	11	8	37	1.71
8029153--8029211	17	3.5	17	76	17	68	40	10	6	42	1.65
8031139--8031209	33	2.2	33	97	0	133	40	30	2	25	1.70
8031864--8031932	20	3.4	20	82	6	77	20	15	20	43	1.88
8032522--8032714	28	6.8	28	76	8	115	19	28	17	34	1.94
8032578--8032656	29	2.7	29	84	3	106	25	29	10	35	1.88
8032528--8032708	57	3.2	56	73	12	152	19	27	17	35	1.94
8034198--8034275	31	2.5	31	82	0	93	48	14	15	21	1.80
8040674--8040726	21	2.5	21	84	0	70	24	26	15	33	1.95
8040716--8040877	20	8.0	21	82	6	201	40	17	20	21	1.92

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