genome.fa.s1129.2.7.7.80.10.50.1000.79.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  79  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)
19008708--19008884	44	4.0	44	87	0	273	40	14	21	24	1.90
19017037--19017061	3	8.3	3	100	0	50	68	32	0	0	0.90
19021944--19022010	19	3.5	20	81	6	66	38	5	5	49	1.52
19023885--19023935	13	3.9	13	89	0	75	31	23	11	33	1.91
19023885--19023935	26	2.0	26	92	0	84	31	23	11	33	1.91
19023947--19024126	84	2.1	84	96	1	333	31	19	18	31	1.96
19025612--19025642	16	1.9	16	93	0	53	64	0	35	0	0.94
19026254--19026330	14	5.4	14	73	11	59	16	10	12	59	1.60
19026262--19026320	10	5.6	10	78	11	55	15	10	13	61	1.57
19026254--19026310	23	2.4	24	85	5	80	15	10	12	61	1.57
19048772--19048831	23	2.6	23	89	0	84	41	8	18	31	1.80
19048946--19048989	23	1.9	23	85	0	61	43	9	15	31	1.79
19048761--19049124	158	2.3	158	90	1	577	41	11	14	32	1.82
19049352--19050115	199	3.8	197	84	4	951	31	15	13	40	1.85
19049959--19050263	149	2.1	147	87	4	436	32	14	12	40	1.84
19050106--19050473	199	1.8	199	90	1	585	30	16	13	39	1.87
19052140--19052191	24	2.2	24	89	6	79	53	13	3	28	1.57
19055108--19056288	199	5.9	199	90	1	1736	32	14	13	38	1.86
19055108--19056286	598	2.0	597	89	1	1801	32	14	13	38	1.86
19059487--19059807	157	2.0	157	95	1	581	19	34	3	42	1.69
19061855--19062183	183	1.8	182	81	5	414	28	15	13	42	1.84
19063050--19063121	36	2.0	36	83	5	92	48	1	4	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19063267--19063304	20	1.9	20	88	0	58	21	26	10	42	1.85
19065855--19066118	105	2.7	94	79	13	321	42	9	5	42	1.60
19071897--19071937	8	5.2	8	82	5	57	34	0	29	36	1.58
19072014--19072380	128	2.9	128	95	0	646	23	25	20	30	1.99
19072781--19072880	34	3.0	34	82	2	130	38	3	4	55	1.34
19073400--19073493	21	4.5	21	92	5	129	20	26	35	18	1.95
19073497--19073544	21	2.3	21	85	0	60	22	12	39	25	1.89
19075218--19075336	18	7.1	18	64	20	51	61	4	0	34	1.15
19075227--19075304	32	2.4	33	79	14	99	62	1	0	35	1.03
19076705--19076744	20	2.0	20	95	0	71	32	10	12	45	1.75
19077247--19077296	20	2.5	20	93	0	82	44	24	20	12	1.85
19077207--19077353	77	1.9	77	94	0	258	43	21	17	17	1.88
19077545--19077669	57	2.2	57	86	2	171	21	14	20	43	1.87
19077638--19077686	20	2.5	20	86	0	62	14	18	20	46	1.83
19077602--19077746	77	1.9	77	88	2	220	17	16	20	45	1.86
19077960--19078220	77	3.4	77	86	3	321	28	14	19	37	1.91
19078120--19078162	20	2.2	20	91	0	68	34	16	18	30	1.93
19078310--19078423	57	2.0	57	91	0	183	35	19	14	29	1.92
19078403--19078444	20	2.1	20	90	0	66	42	19	11	26	1.85
19078346--19078597	77	3.3	77	89	2	389	38	17	14	30	1.89
19078557--19078620	20	3.2	20	93	0	110	42	17	14	26	1.87
19079912--19079941	14	2.1	15	93	6	53	46	6	6	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19079900--19079954	25	2.2	24	78	15	58	40	10	5	43	1.63
19079924--19079967	19	2.3	18	81	11	61	43	6	4	45	1.51
19080104--19080140	14	2.6	14	82	0	56	32	0	18	48	1.49
19080134--19080195	16	3.8	16	75	23	58	53	1	6	38	1.37
19080186--19080240	20	2.8	19	76	17	58	43	1	10	43	1.50
19080263--19080295	16	2.1	15	94	5	57	45	3	6	45	1.43
19080268--19080319	18	2.8	17	75	16	50	46	1	7	44	1.43
19080172--19080450	126	2.2	125	84	6	375	42	4	7	45	1.53
19080392--19080472	2	41.5	2	81	14	98	46	1	3	48	1.27
19082401--19082464	2	32.5	2	84	9	87	48	1	1	48	1.20
19082884--19082932	23	2.1	23	82	14	57	46	2	2	48	1.25
19082932--19082981	21	2.3	23	79	10	61	58	0	0	42	0.98
19082935--19082975	21	2.0	21	95	0	73	51	0	0	48	1.00
19083945--19084010	17	4.0	17	92	7	118	28	12	6	53	1.62
19083945--19084010	32	2.0	34	94	5	118	28	12	6	53	1.62
19086261--19086288	2	14.0	2	100	0	56	50	0	50	0	1.00
19090310--19090341	13	2.5	13	89	0	55	78	0	18	3	0.89
19096471--19096503	16	2.1	16	94	0	57	51	21	0	27	1.48
19096924--19097019	36	2.7	35	80	6	111	28	19	13	38	1.90
19097203--19097388	67	2.8	68	78	14	215	30	16	12	40	1.86
19097431--19097971	137	3.9	137	82	4	626	29	28	16	25	1.96
19100244--19100296	21	2.5	21	75	0	52	22	24	16	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19100289--19100396	20	5.4	20	87	0	162	37	19	18	24	1.93
19100289--19100418	40	3.2	40	85	4	174	36	20	18	25	1.95
19100987--19101033	20	2.3	20	88	0	67	36	19	19	25	1.95
19101059--19101123	20	3.2	20	82	0	67	18	16	20	44	1.87
19101095--19101134	20	2.0	20	95	0	71	12	15	17	55	1.70
19101099--19101142	20	2.2	20	83	0	52	15	13	18	52	1.75
19102860--19102900	21	1.9	21	85	5	55	26	14	14	43	1.84
19103020--19103163	20	7.5	20	81	9	174	39	20	19	20	1.93
19103191--19103316	40	3.3	38	88	6	143	18	20	19	41	1.91
19103210--19103316	20	5.3	20	91	0	178	19	19	19	41	1.91
19103800--19103898	21	4.7	21	74	3	83	23	35	19	22	1.96
19105260--19105295	14	2.6	14	90	0	54	30	0	22	47	1.52
19105397--19105475	33	2.4	33	86	2	104	37	21	25	15	1.92
19105465--19105553	19	4.7	19	95	0	160	16	20	15	47	1.83
19105559--19105646	20	4.4	20	88	2	124	18	19	26	36	1.94
19105560--19105636	40	1.9	41	94	2	138	19	19	23	37	1.94
19108081--19108134	24	2.2	24	93	0	90	40	20	18	20	1.91
19108081--19108148	24	2.8	24	84	0	64	38	20	17	23	1.93
19108995--19109080	20	4.3	20	92	2	138	23	19	19	37	1.94
19109077--19109122	21	2.2	21	84	7	58	39	17	26	17	1.91
19110012--19110036	13	1.9	13	100	0	50	44	0	8	48	1.32
19110614--19110668	4	13.8	4	100	0	110	74	0	0	25	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19111561--19111727	73	2.3	71	83	5	201	59	8	12	19	1.58
19112530--19112574	20	2.2	20	92	0	72	44	24	2	28	1.66
19117187--19117231	20	2.2	20	84	0	63	44	26	2	26	1.66
19118300--19118327	12	2.3	12	100	0	56	35	7	0	57	1.26
19120753--19120825	20	3.6	20	81	3	83	26	15	21	36	1.93
19121811--19121895	20	4.2	20	89	3	118	45	12	15	25	1.82
19123094--19123142	20	2.5	20	83	3	55	32	10	6	51	1.61
19123513--19123543	9	3.4	9	95	0	53	35	9	16	38	1.81
19125774--19125890	38	3.0	39	78	5	92	27	19	27	25	1.99
19130787--19130902	59	2.0	59	92	0	196	27	25	16	30	1.97
19141407--19141447	11	3.6	11	90	3	64	36	24	9	29	1.87
19141830--19141939	47	2.4	45	82	7	123	33	24	3	38	1.73
19141936--19141978	20	2.2	20	86	0	59	58	18	4	18	1.56
19147053--19147102	26	1.9	26	91	0	82	24	16	26	34	1.95
19157094--19157206	59	1.9	59	90	0	181	30	22	15	31	1.95
19162817--19162945	44	2.9	44	88	0	195	41	10	20	27	1.85
19168667--19168751	29	2.9	29	68	23	70	60	1	10	28	1.38
19169865--19169912	3	16.0	3	81	16	55	62	0	0	37	0.95
19169865--19169911	13	3.4	14	80	14	53	61	0	0	38	0.96
19170168--19170257	36	2.5	36	90	0	144	22	23	17	36	1.95
19170327--19170376	20	2.5	20	87	6	75	32	18	16	34	1.92
19171140--19171202	31	2.0	31	100	0	126	39	22	3	34	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19173007--19173047	13	3.2	13	85	0	55	31	7	21	39	1.81
19175079--19175119	13	3.2	13	85	0	55	29	4	24	41	1.75
19181323--19181363	13	3.2	13	83	13	57	26	4	26	41	1.76
19187645--19187685	13	3.2	13	89	0	64	31	7	21	39	1.81
19192414--19192475	19	3.3	19	100	0	124	35	6	22	35	1.80
19200011--19200049	2	19.5	2	100	0	78	48	0	0	51	1.00
19207918--19208034	38	3.1	37	76	14	105	31	19	9	39	1.84
19215346--19215613	87	3.1	84	81	8	299	45	8	18	26	1.79
19215329--19215616	43	6.7	43	78	7	255	45	9	18	26	1.80
19215384--19215707	87	3.7	87	79	10	238	46	9	16	26	1.77

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