genome.fa.s8356.2.7.7.80.10.50.1000.28.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  28  of  56  ( 6656 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)
5801671--5801704	16	2.1	16	88	5	50	14	11	5	67	1.39
5804796--5804967	42	4.0	43	87	5	251	30	15	27	25	1.96
5804796--5804967	85	2.0	85	88	2	256	30	15	27	25	1.96
5805001--5805089	42	2.1	42	83	4	108	24	16	22	35	1.95
5805014--5805114	42	2.4	42	76	11	100	23	22	21	31	1.98
5805264--5805376	42	2.7	41	81	6	138	25	19	22	32	1.97
5805410--5805529	55	2.2	56	81	4	136	32	10	19	37	1.86
5806345--5806650	132	2.3	131	83	4	366	31	17	16	34	1.92
5807729--5808042	121	2.6	121	92	1	535	21	19	16	42	1.89
5808063--5808114	25	2.1	25	89	3	79	21	11	3	63	1.43
5810310--5810335	2	13.0	2	100	0	52	50	0	0	50	1.00
5813084--5813124	13	3.3	12	86	13	57	46	0	0	53	1.00
5813079--5813124	24	2.0	24	83	12	60	45	2	0	52	1.13
5813083--5813119	11	3.2	11	88	11	56	48	0	0	51	1.00
5817405--5817458	15	3.7	15	77	5	65	35	7	5	51	1.53
5820840--5820868	4	7.2	4	100	0	58	0	24	0	75	0.80
5821498--5821561	3	20.7	3	82	6	74	59	0	4	35	1.18
5821879--5821981	42	2.5	42	79	7	129	32	21	23	23	1.98
5822394--5822476	42	2.0	41	86	6	114	32	24	19	24	1.97
5821714--5822865	258	4.5	258	83	4	1429	34	16	15	33	1.91
5835166--5835204	17	2.4	17	87	8	55	61	0	0	38	0.96
5837252--5837286	15	2.3	15	85	0	52	48	11	11	28	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5839212--5839365	79	1.9	79	89	0	236	28	15	26	29	1.96
5839291--5839464	94	1.9	94	82	0	222	31	14	22	31	1.94
5839430--5839658	59	3.9	59	84	2	300	33	17	21	27	1.96
5839676--5840179	38	13.6	37	71	9	291	38	13	14	32	1.86
5839667--5840110	74	6.0	73	86	3	590	38	13	14	33	1.84
5839667--5840110	147	3.0	146	88	3	617	38	13	14	33	1.84
5850385--5850543	87	1.8	86	86	5	232	35	10	6	47	1.64
5850783--5850831	25	1.9	27	84	12	68	51	2	4	42	1.32
5857825--5857884	20	3.0	20	85	4	68	35	6	18	40	1.77
5876564--5876643	29	2.8	29	71	17	76	35	5	21	38	1.75
5876512--5876656	60	2.5	59	80	8	154	38	4	23	33	1.74
5876546--5876692	58	2.5	60	78	12	144	38	4	22	34	1.75
5879854--5879892	18	2.2	18	95	0	69	33	25	12	28	1.93
5883095--5883222	41	3.1	41	93	5	208	44	11	10	32	1.76
5886138--5886167	3	10.0	3	100	0	60	66	0	0	33	0.92
5892432--5892490	31	1.9	31	96	0	109	27	10	11	50	1.71
5897112--5897149	18	2.1	18	90	0	58	36	18	31	13	1.89
5897121--5897161	21	2.0	21	85	0	55	41	14	26	17	1.88
5901567--5901593	8	3.4	8	100	0	54	22	0	11	66	1.22
5902205--5902267	2	31.5	2	100	0	126	49	0	0	50	1.00
5903602--5903714	32	3.5	32	76	9	115	31	20	13	34	1.91
5907272--5907342	21	3.4	20	80	7	79	35	25	21	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5907252--5907342	42	2.2	42	88	4	130	35	26	18	19	1.95
5924698--5924761	3	21.7	3	87	9	96	65	0	1	32	1.02
5924748--5924793	23	2.0	22	84	12	58	71	2	10	15	1.23
5924692--5924831	12	10.8	12	70	19	61	71	0	5	22	1.10
5924790--5924839	24	2.1	24	81	7	57	76	4	6	14	1.13
5926418--5926950	106	5.0	106	86	0	717	22	18	25	34	1.96
5927251--5927589	123	2.8	120	79	10	364	34	12	20	33	1.89
5927528--5927702	37	5.0	37	70	17	138	38	13	18	29	1.89
5927489--5927788	102	2.9	102	95	0	519	37	12	18	31	1.88
5929147--5929196	20	2.5	20	81	18	68	2	14	8	76	1.10
5929147--5929192	13	3.4	14	82	8	60	2	13	8	76	1.11
5929156--5929202	13	3.7	13	77	11	53	2	10	10	76	1.10
5932226--5932274	3	16.7	3	83	12	66	65	0	2	32	1.04
5932255--5932336	27	3.2	27	72	18	84	71	1	6	20	1.14
5950797--5950826	15	2.0	15	100	0	60	40	13	6	40	1.71
5953026--5953082	20	2.7	21	86	8	71	29	19	29	21	1.97
5953095--5953147	20	2.6	21	82	11	65	32	16	15	35	1.90
5960964--5961095	39	3.6	38	70	12	112	46	9	7	36	1.64
5961038--5961135	39	2.5	40	81	1	99	45	10	7	36	1.65
5960960--5961112	72	2.1	72	78	9	177	48	9	7	34	1.64
5961224--5961352	58	2.2	56	81	8	143	41	10	9	38	1.72
5961545--5961666	45	2.7	45	86	5	165	38	13	10	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5961541--5961694	45	3.4	43	81	6	146	40	14	9	35	1.79
5964872--5964914	2	21.5	2	100	0	86	48	0	0	51	1.00
5989061--5989098	17	2.2	17	90	0	58	47	10	13	28	1.76
5998336--5998424	45	2.0	45	95	0	160	32	12	23	31	1.92
6000194--6000229	15	2.4	15	95	0	63	36	0	0	63	0.94
6000386--6000444	21	2.8	21	73	2	64	37	3	3	55	1.33
6000435--6000485	18	2.8	18	85	8	68	39	3	0	56	1.18
6000458--6000600	26	5.5	26	67	16	66	36	4	3	55	1.39
6002482--6002523	19	2.2	20	86	4	59	69	0	0	30	0.89
6002757--6002794	3	12.7	3	100	0	76	34	0	0	65	0.93
6004853--6005218	131	2.8	131	86	0	507	32	11	16	40	1.83
6014974--6015047	6	10.7	7	80	17	68	74	0	14	10	1.07
6014975--6015020	13	3.7	13	91	8	78	71	0	15	13	1.14
6014973--6015054	17	4.6	17	72	23	71	74	0	14	10	1.07
6014973--6015100	56	2.3	56	83	10	149	75	0	14	8	1.07
6015006--6015100	30	3.1	28	77	16	91	76	1	15	6	1.03
6016332--6017045	134	5.3	134	84	1	804	32	22	16	28	1.96
6028331--6028357	2	13.5	2	100	0	54	48	0	0	51	1.00
6032701--6032745	18	2.5	18	92	0	72	42	15	8	33	1.78
6036120--6036162	18	2.4	18	88	0	59	41	13	9	34	1.77
6039034--6039197	40	4.0	41	88	7	226	26	15	5	52	1.65
6039030--6039249	43	5.3	42	83	5	227	26	16	4	53	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6040788--6040821	13	2.5	13	85	4	50	23	0	5	70	1.09
6040944--6041120	96	1.8	96	84	2	239	32	3	11	52	1.54
6048279--6048336	21	2.9	20	74	23	59	50	1	1	46	1.22
6055950--6056088	36	3.9	36	90	0	224	25	17	15	41	1.88
6061252--6061434	64	2.9	62	81	8	212	32	13	14	39	1.85
6061396--6061465	30	2.4	29	81	13	81	35	14	14	35	1.86
6061532--6061861	127	2.6	126	77	6	331	25	29	15	29	1.96
6062061--6062292	123	1.9	123	82	5	290	34	24	13	27	1.93
6062139--6062721	220	2.7	221	81	7	643	32	25	14	28	1.94
6064267--6064321	28	2.0	28	89	7	85	18	14	5	61	1.51
6064267--6064328	29	2.1	29	85	11	83	19	12	4	62	1.47
6066005--6066042	20	2.0	20	94	5	69	18	15	15	50	1.79
6069887--6069913	14	1.9	14	100	0	54	14	25	37	22	1.93
6069895--6069963	19	3.6	19	92	0	120	17	27	34	20	1.95
6069887--6069939	14	3.4	14	75	22	52	16	26	33	22	1.96
6069928--6069982	24	2.3	24	84	6	67	18	30	36	14	1.91
6072406--6072500	24	4.0	24	76	5	93	21	15	16	46	1.84
6072668--6072702	2	17.5	2	100	0	70	48	0	0	51	1.00
6074620--6074706	19	4.6	19	95	0	156	17	28	36	17	1.92
6077245--6077346	24	4.2	24	75	9	91	20	14	16	48	1.82
6078593--6078618	13	2.0	13	100	0	52	38	7	30	23	1.83
6079350--6079428	31	2.5	31	85	0	113	36	18	11	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6079350--6079444	31	3.1	30	79	8	86	33	17	11	36	1.86
6082032--6082099	3	22.7	3	93	0	118	35	1	0	63	1.04
6083554--6083593	16	2.5	16	95	0	71	15	10	20	55	1.68
6087951--6088065	36	3.2	36	80	3	124	28	20	18	32	1.96
6088161--6088330	66	2.6	64	85	6	218	25	22	12	39	1.89
6090294--6090365	35	2.1	35	82	15	87	30	2	15	51	1.57
6091677--6091707	5	6.2	5	96	0	53	80	3	0	16	0.83
6091672--6091707	15	2.3	15	85	4	54	77	5	2	13	1.05
6091754--6091790	19	2.0	20	89	10	60	59	10	10	18	1.59
6096239--6096270	17	1.9	16	93	6	55	43	3	0	53	1.16

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