genome.fa.s9634.2.7.7.80.10.50.1000.27.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   

This is table  27  of  78  ( 9351 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)
5576753--5576794	9	4.9	9	82	11	61	28	0	23	47	1.52
5576967--5577040	31	2.3	32	90	2	114	27	18	20	33	1.96
5576967--5577052	31	2.7	30	85	8	109	26	19	19	33	1.96
5577782--5577845	23	2.8	22	80	4	74	26	25	26	21	2.00
5584609--5584672	23	2.8	22	85	4	83	26	26	26	20	1.99
5584688--5585008	103	3.1	103	96	0	597	37	23	12	25	1.91
5585490--5585527	20	1.9	20	88	0	58	10	31	34	23	1.89
5585555--5585597	21	2.0	21	90	0	68	16	23	27	32	1.96
5586467--5587363	6	152.5	6	94	3	1551	33	0	16	49	1.52
5587997--5588354	131	2.7	131	82	5	427	25	18	31	24	1.98
5588359--5588583	67	3.4	66	86	2	283	41	12	19	26	1.86
5588463--5588570	36	3.1	35	67	17	91	40	13	21	24	1.89
5588629--5588720	36	2.6	35	81	3	103	38	10	21	29	1.88
5589871--5589931	20	3.0	20	82	0	77	34	14	18	32	1.91
5589977--5590026	20	2.5	20	87	3	66	36	22	8	34	1.83
5593347--5593387	20	2.0	20	90	0	64	31	17	19	31	1.95
5593432--5593501	20	3.5	20	84	1	88	37	18	7	37	1.78
5594380--5594422	10	4.4	10	85	11	54	0	4	16	79	0.90
5597980--5598039	18	3.0	20	83	11	88	25	20	30	25	1.99
5598429--5598468	21	1.9	21	85	10	55	55	0	17	27	1.43
5601003--5601153	65	2.3	64	83	6	189	27	19	23	29	1.98
5601038--5601203	65	2.6	63	80	7	183	25	18	24	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5603810--5603906	44	2.2	44	85	7	126	24	20	27	26	1.99
5609691--5609851	65	2.5	65	84	3	200	28	18	22	29	1.98
5609864--5609919	20	2.8	20	97	0	103	17	16	35	30	1.92
5609692--5609900	65	3.2	63	78	13	178	27	18	23	30	1.97
5620535--5620574	3	13.3	3	100	0	80	65	0	0	35	0.93
5622170--5622224	15	4.0	15	73	22	57	9	18	65	7	1.44
5622605--5622965	197	1.8	198	87	3	548	22	22	21	32	1.98
5623025--5623257	126	1.8	126	97	0	439	22	20	24	32	1.98
5623458--5623514	19	3.1	19	70	14	55	59	8	0	31	1.28
5623814--5623882	28	2.5	28	88	2	95	50	1	7	40	1.39
5630552--5630683	60	2.2	58	81	9	142	35	16	14	33	1.89
5634634--5634900	123	2.1	127	87	4	409	2	40	10	47	1.50
5634886--5634957	27	2.7	27	78	2	83	2	43	2	51	1.30
5634910--5635445	54	9.7	53	83	12	373	2	45	6	45	1.41
5634961--5635344	201	1.9	200	87	4	569	1	46	7	44	1.41
5634910--5635445	111	4.8	106	80	13	427	2	45	6	45	1.41
5635192--5635290	33	3.2	32	66	25	88	2	48	6	43	1.39
5635359--5635445	24	3.4	24	67	22	68	2	44	6	45	1.43
5635125--5635483	54	6.5	54	88	8	483	1	44	6	47	1.40
5635125--5635468	111	3.0	111	91	2	535	1	44	7	46	1.41
5635125--5635468	57	6.1	56	88	8	484	1	44	7	46	1.41
5644709--5645265	139	4.0	134	82	8	527	35	18	15	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5644809--5645265	133	3.3	141	84	8	577	35	19	15	29	1.93
5645119--5645403	116	2.5	116	90	4	436	34	19	15	30	1.92
5646573--5646613	6	6.8	6	100	0	82	68	17	14	0	1.22
5650355--5650673	54	5.9	54	86	5	403	35	19	15	29	1.93
5650347--5650673	110	3.0	107	85	6	428	35	19	15	28	1.93
5659434--5659515	39	2.1	39	83	0	101	17	21	26	34	1.95
5660695--5660722	14	2.0	14	100	0	56	35	7	28	28	1.84
5662595--5662661	21	3.1	21	81	12	57	23	17	28	29	1.97
5662624--5662699	23	3.3	23	96	0	134	21	21	27	30	1.98
5665295--5665329	15	2.3	15	95	0	61	20	20	25	34	1.96
5666609--5666643	16	2.2	16	100	0	70	62	5	20	11	1.48
5668976--5669027	22	2.5	21	79	11	63	23	19	32	25	1.97
5669593--5669680	23	3.9	23	85	14	130	22	22	27	27	1.99
5670714--5670777	31	2.1	31	90	0	101	40	10	9	39	1.73
5671220--5671271	26	2.0	26	92	7	88	28	28	15	26	1.96
5673412--5673441	16	1.9	15	93	6	51	13	0	3	83	0.77
5675462--5675495	16	2.1	16	100	0	68	20	5	38	35	1.77
5675982--5676096	60	1.9	60	89	3	178	31	25	4	39	1.75
5677049--5677308	87	3.0	87	97	0	484	33	16	16	34	1.91
5681111--5681168	29	2.0	29	83	10	73	56	15	1	25	1.49
5682449--5682494	24	1.9	24	86	0	65	2	13	6	78	1.04
5682971--5683378	55	7.6	54	85	8	428	28	26	16	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5682971--5683393	106	4.0	110	82	8	475	29	26	16	27	1.97
5684746--5684887	17	9.1	17	68	18	69	7	14	0	78	0.96
5684740--5684894	10	16.3	9	69	16	73	8	14	0	77	0.99
5684772--5684880	25	4.2	24	70	18	85	9	12	0	77	0.98
5684741--5684801	29	2.1	29	84	3	79	8	9	0	81	0.86
5704872--5704971	16	5.8	17	73	21	66	71	1	20	8	1.17
5704876--5704926	18	2.9	18	82	11	61	68	1	19	9	1.27
5704897--5704967	28	2.6	27	78	6	81	70	1	19	8	1.21
5704942--5704977	16	2.2	16	95	0	63	77	0	16	5	0.94
5706293--5706698	51	7.9	51	96	1	731	29	14	27	28	1.95
5712432--5712491	7	8.1	7	77	17	59	3	35	3	58	1.31
5712423--5712484	31	2.0	31	93	0	106	4	30	8	56	1.49
5716089--5716148	31	1.9	31	86	0	84	31	21	11	35	1.90
5716687--5716728	18	2.3	19	80	12	52	59	4	9	26	1.48
5717308--5717356	18	2.8	17	78	6	62	65	4	14	16	1.42
5722245--5722286	18	2.3	19	84	12	61	61	4	9	23	1.45
5727979--5728352	184	2.0	185	90	1	599	41	4	8	45	1.55
5730819--5730944	20	6.3	20	85	5	175	42	27	11	17	1.84
5730819--5730944	40	3.2	39	92	3	207	42	27	11	17	1.84
5731083--5731125	22	2.0	22	90	9	70	23	44	13	18	1.86
5731450--5731540	20	4.6	20	88	0	137	47	21	19	10	1.80
5731536--5731618	41	2.1	39	93	4	139	9	19	24	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5731536--5731618	20	4.2	20	88	10	125	9	19	24	46	1.79
5733747--5733845	21	4.7	21	83	5	137	21	33	21	24	1.97
5733747--5733865	42	2.8	42	81	0	121	20	34	21	23	1.97
5735423--5735478	20	2.8	20	77	0	67	30	21	23	25	1.99
5735770--5735805	18	2.0	18	94	0	63	16	2	25	55	1.55
5739033--5739131	40	2.5	40	80	9	112	33	11	20	35	1.88
5739033--5739134	21	5.0	21	84	8	124	33	10	20	35	1.87
5739142--5739182	20	2.0	21	85	4	57	19	21	19	39	1.93
5739179--5739219	21	2.0	21	100	0	82	36	19	24	19	1.95
5740478--5740523	21	2.2	21	92	3	76	39	0	23	36	1.55
5744967--5745002	18	2.1	18	89	5	56	44	2	2	50	1.31
5745678--5745714	18	2.1	18	90	10	58	56	0	0	43	0.99
5747108--5747158	25	2.1	25	92	3	86	70	5	3	19	1.24
5747523--5747893	201	1.8	201	83	1	492	35	23	15	26	1.94
5749063--5749915	426	2.0	426	98	0	1643	28	15	15	41	1.87
5749913--5749992	35	2.3	35	95	0	142	33	8	25	32	1.86
5759348--5759386	20	2.0	19	85	14	53	56	0	2	41	1.13
5765883--5766109	113	2.0	113	97	0	427	16	15	25	42	1.87
5770500--5770543	22	2.0	22	86	0	61	40	4	2	52	1.34
5772372--5772404	16	2.1	16	94	0	57	57	21	12	9	1.62
5775427--5775534	2	54.0	2	85	7	139	48	4	0	47	1.22
5775902--5776581	55	12.4	55	91	1	1017	29	26	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5777591--5777628	14	2.6	15	84	16	53	2	15	2	78	0.97
5777615--5777658	11	4.1	11	91	2	72	9	11	6	72	1.27
5777645--5777704	17	3.8	17	76	17	74	6	15	0	78	0.95
5777623--5777709	38	2.3	38	80	11	90	6	14	2	75	1.10
5777645--5777725	8	10.6	8	75	20	59	7	16	0	76	1.00
5777670--5777766	21	4.6	21	78	14	85	9	13	2	75	1.13
5777712--5777754	12	3.6	12	96	0	77	9	16	4	69	1.31
5777693--5777736	20	2.2	20	84	8	54	9	15	2	72	1.19
5777592--5777765	12	13.8	12	76	16	72	7	14	2	74	1.15
5779995--5780038	18	2.4	18	92	0	70	25	25	22	27	2.00

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