genome.fa.s1129.2.7.7.80.10.50.1000.82.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  82  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)
19621447--19621503	20	2.9	20	87	7	82	26	28	15	29	1.96
19637755--19637831	31	2.5	30	79	10	75	38	12	12	35	1.82
19654095--19654126	15	2.1	15	94	0	55	34	21	0	43	1.53
19658795--19658894	50	2.0	50	100	0	200	24	10	20	46	1.81
19662399--19662892	247	2.0	247	100	0	988	29	8	22	39	1.84
19665433--19665836	81	5.0	81	86	3	512	31	20	12	35	1.90
19666203--19666256	22	2.6	21	83	13	67	27	22	16	33	1.95
19670561--19670881	54	5.9	53	82	7	358	29	17	19	33	1.95
19670561--19670881	163	2.0	163	86	6	454	29	17	19	33	1.95
19670561--19670875	109	2.9	107	85	3	416	29	18	19	33	1.95
19671080--19671566	242	2.0	243	99	0	967	33	22	10	33	1.89
19677681--19677973	54	5.4	54	88	1	388	27	20	19	32	1.97
19677654--19677998	163	2.1	163	88	2	496	28	19	20	31	1.97
19677681--19677998	109	2.9	109	87	1	451	28	19	19	32	1.96
19685782--19685833	21	2.5	21	93	0	86	17	26	9	46	1.79
19691504--19691551	20	2.3	21	92	3	80	39	12	25	22	1.89
19693083--19693158	36	2.1	36	95	0	134	38	18	26	17	1.92
19705622--19705718	48	2.0	48	100	0	194	29	10	14	45	1.78
19720908--19721126	105	2.0	111	92	7	378	36	19	14	30	1.91
19721251--19721411	82	2.1	75	90	8	250	36	23	6	33	1.80
19722141--19722190	18	2.6	19	78	6	57	32	16	26	26	1.96
19727448--19727494	20	2.3	20	85	7	60	34	21	29	14	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19727485--19727566	35	2.3	35	95	0	146	45	14	12	28	1.81
19727554--19727594	19	2.2	19	86	0	55	36	14	19	29	1.92
19727960--19728104	55	2.6	55	82	9	154	37	11	17	34	1.85
19728012--19728124	54	2.1	55	81	5	131	37	12	17	32	1.87
19728326--19728899	68	8.4	68	89	0	842	32	16	23	28	1.96
19728900--19729162	81	3.2	81	87	1	384	36	10	21	32	1.87
19729135--19729191	29	2.0	29	89	0	87	42	8	22	26	1.83
19729054--19729257	110	1.9	110	81	2	248	39	10	22	27	1.86
19731267--19731305	21	1.9	20	84	5	51	35	20	15	28	1.93
19732678--19732876	102	2.0	102	93	0	344	52	22	8	16	1.70
19734245--19734295	22	2.2	23	80	16	61	54	7	0	37	1.29
19741033--19741394	183	2.0	184	98	1	701	30	19	13	36	1.90
19744438--19744584	77	1.9	79	87	2	217	40	10	5	43	1.61
19747691--19747808	61	1.9	61	85	0	164	27	22	18	32	1.97
19747978--19748019	2	21.0	2	100	0	84	50	0	0	50	1.00
19751648--19751709	30	2.0	30	87	3	88	37	35	3	24	1.72
19757205--19757245	21	2.0	20	86	9	57	29	29	19	21	1.98
19762783--19762839	23	2.6	23	83	5	73	22	26	15	35	1.94
19764631--19764679	19	2.5	20	78	21	59	67	0	8	24	1.18
19765092--19765142	21	2.5	21	90	6	79	47	5	11	35	1.65
19766031--19766090	30	2.0	31	86	3	86	53	10	8	28	1.63
19767263--19767422	74	2.2	74	90	2	250	31	25	20	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19769104--19769141	20	1.9	20	94	0	67	23	13	15	47	1.81
19773017--19773049	13	2.5	13	90	9	50	48	6	15	30	1.69
19773491--19773548	20	2.8	21	76	7	64	17	22	37	22	1.93
19781202--19781244	17	2.5	17	96	0	77	44	11	11	32	1.77
19785611--19785778	84	2.0	84	100	0	336	32	19	14	34	1.91
19804746--19804791	15	2.9	17	72	21	55	58	0	8	32	1.28
19810474--19810533	18	3.3	18	90	0	93	25	21	28	25	1.99
19817143--19817234	46	2.0	46	100	0	184	32	8	17	41	1.80
19821864--19822041	90	2.0	90	90	0	284	36	10	7	44	1.68
19833412--19833443	9	3.6	9	95	0	55	21	37	21	18	1.94
19835877--19835954	31	2.5	30	82	10	95	37	10	24	28	1.88
19837119--19837163	16	2.9	15	80	6	54	31	6	0	62	1.21
19837140--19837199	22	2.4	26	76	18	65	25	8	1	65	1.30
19845143--19845196	26	2.0	27	92	3	92	27	12	11	48	1.76
19847814--19847950	68	2.0	68	100	0	274	53	10	13	23	1.69
19854675--19854733	8	7.6	8	77	7	59	47	13	1	37	1.53
19854689--19854732	6	7.3	6	86	0	52	50	11	0	38	1.39
19854680--19854730	24	2.1	24	96	0	93	49	11	1	37	1.51
19854692--19854732	18	2.3	18	91	0	64	51	9	0	39	1.35
19854680--19854744	14	4.9	14	76	14	66	49	12	1	36	1.50
19863668--19863708	18	2.3	18	87	8	57	2	31	21	43	1.66
19863678--19863728	18	2.8	19	85	5	52	1	27	25	45	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19865185--19865245	22	2.8	22	92	0	104	14	22	36	26	1.93
19885650--19885741	20	4.4	20	79	5	76	19	18	19	42	1.90
19885700--19885731	13	2.4	14	94	5	57	18	15	21	43	1.87
19886252--19886330	28	2.9	28	88	1	115	13	30	22	32	1.93
19886356--19886449	30	3.1	30	74	8	93	18	30	15	35	1.92
19886342--19886458	60	2.0	60	86	3	164	19	26	17	35	1.94
19886446--19886528	30	2.8	30	90	0	130	26	19	15	38	1.91
19889586--19889619	17	2.0	17	94	0	59	23	41	20	14	1.89
19889614--19889659	20	2.3	20	85	7	58	21	21	21	34	1.97
19890134--19890231	28	3.5	27	76	5	79	15	23	19	41	1.89
19890211--19890295	29	2.9	29	78	3	71	18	29	14	37	1.90
19890303--19890379	30	2.5	31	83	6	95	28	25	12	32	1.93
19891403--19891459	27	2.1	27	96	0	105	29	17	15	36	1.91
19891414--19891477	27	2.4	27	83	0	74	31	20	14	34	1.92
19893825--19893874	24	2.1	24	81	7	57	54	4	0	42	1.19
19899052--19899076	11	2.3	11	100	0	50	40	16	0	44	1.47
19899151--19899183	17	2.0	16	94	5	57	66	0	0	33	0.92
19899307--19899365	3	19.7	3	100	0	118	66	0	0	33	0.92
19899787--19899900	5	22.8	5	90	0	183	22	20	0	56	1.48
19909650--19909692	21	2.0	21	100	0	86	32	0	27	39	1.57
19908910--19910403	750	2.0	749	96	0	2774	37	9	22	30	1.86
19910364--19910862	55	9.3	55	83	6	553	31	17	15	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19910646--19910836	101	1.9	101	86	2	276	31	16	15	36	1.90
19917243--19917434	49	3.9	49	86	3	278	26	18	15	39	1.90
19919632--19919744	54	2.1	54	94	0	199	33	15	15	35	1.89
19925766--19925811	10	4.6	10	92	7	76	34	30	21	13	1.91
19925766--19925812	21	2.3	20	92	7	78	34	29	21	14	1.93
19933825--19933998	60	2.9	59	83	5	215	37	23	17	21	1.94
19934287--19934333	24	2.0	24	87	8	69	51	8	17	23	1.72
19935612--19935656	23	2.0	23	86	8	65	20	4	0	75	0.97
19935585--19935655	16	4.2	16	73	25	58	21	2	2	73	1.09
19938449--19938540	22	4.4	21	70	20	68	52	5	0	42	1.24
19939509--19939826	159	2.0	159	99	0	627	28	25	13	32	1.94
19940993--19941032	20	2.0	20	85	9	55	47	2	12	37	1.55
19955578--19955663	37	2.4	37	94	2	156	34	4	20	39	1.74
19962850--19963032	99	1.8	99	89	2	287	34	16	16	32	1.92
19965003--19965109	37	2.9	37	97	0	196	39	16	21	22	1.92
19964818--19965228	193	2.2	186	88	4	601	33	20	20	25	1.97
19965077--19965343	119	2.2	119	88	1	401	29	21	22	25	1.99
19973292--19973410	61	2.0	61	86	3	168	26	17	27	27	1.98
19977980--19978032	21	2.4	22	81	6	63	54	1	9	33	1.43
19979072--19979123	21	2.4	22	87	6	70	38	11	0	50	1.39
19984857--19984882	3	8.7	3	100	0	52	69	0	0	30	0.89
19984948--19985176	24	9.9	25	68	22	105	41	9	1	47	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19984917--19985180	67	4.0	67	78	16	266	41	9	1	48	1.42
19984941--19985181	115	2.1	112	80	12	262	41	9	1	47	1.44
19984999--19985126	46	2.7	47	83	8	161	41	9	0	48	1.41
19984999--19985176	24	7.7	23	75	17	156	41	10	1	47	1.44
19985173--19985206	15	2.2	16	89	5	52	76	11	0	11	1.02
19988278--19988326	19	2.7	17	84	9	53	26	20	28	24	1.99
19988298--19988507	65	3.3	63	79	9	203	25	18	24	30	1.98
19996993--19997152	65	2.5	65	85	5	200	26	18	25	30	1.98
20001466--20001548	21	3.9	22	76	13	75	15	25	34	24	1.95
20014112--20014148	19	1.9	19	100	0	74	27	27	10	35	1.90

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