genome.fa.s9462.2.7.7.80.10.50.1000.48.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  48  of  91  ( 10815 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)
10150078--10150147	29	2.4	29	80	0	95	45	25	4	24	1.71
10150161--10150193	12	2.8	12	100	0	66	12	24	45	18	1.83
10150149--10150181	17	1.9	17	100	0	66	12	24	45	18	1.83
10153281--10153372	42	2.2	42	96	2	166	27	19	17	35	1.94
10156801--10156853	20	2.8	19	82	5	63	33	13	3	49	1.60
10157855--10157922	17	3.9	17	82	1	73	41	5	11	41	1.66
10157914--10157973	16	3.5	17	84	8	70	41	11	15	31	1.82
10158352--10158432	38	2.1	39	88	2	119	29	28	17	24	1.97
10165814--10165847	2	17.0	2	100	0	68	50	0	0	50	1.00
10180303--10180362	24	2.5	24	72	0	57	30	23	20	26	1.98
10193077--10193180	53	2.0	53	94	0	181	37	21	17	24	1.94
10200182--10200292	53	2.1	54	91	1	179	40	19	15	24	1.90
10207073--10207120	21	2.3	21	82	3	53	25	4	29	41	1.74
10211480--10211514	17	2.0	18	94	5	63	54	0	5	40	1.24
10213568--10213604	14	2.6	14	100	0	74	24	21	21	32	1.98
10224952--10225505	81	6.9	81	86	0	770	31	22	11	34	1.90
10230953--10232253	81	16.1	81	89	0	1929	31	23	10	34	1.89
10240389--10240449	30	2.0	30	96	0	113	31	26	18	24	1.97
10243240--10243281	18	2.3	18	95	0	75	21	30	11	35	1.90
10244612--10244672	3	20.3	3	89	0	95	1	62	0	36	1.05
10244621--10244685	15	4.3	15	88	3	51	4	55	0	40	1.21
10245897--10245945	26	1.9	25	83	4	62	38	4	20	36	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10248676--10248742	27	2.5	27	85	0	89	35	20	16	26	1.94
10249757--10249943	60	3.1	58	76	11	157	34	19	3	42	1.68
10249796--10249933	59	2.3	60	79	9	149	34	18	2	44	1.64
10250074--10250202	60	2.1	60	84	7	163	42	5	20	31	1.75
10261443--10261494	24	2.2	23	86	3	77	40	1	0	57	1.10
10261972--10262082	55	2.0	55	98	0	213	50	10	6	32	1.62
10264867--10264937	2	36.5	2	94	5	128	50	0	0	49	1.00
10265781--10265866	43	2.0	43	100	0	172	23	25	11	39	1.88
10270045--10270103	26	2.3	26	96	0	109	22	20	20	37	1.95
10270200--10270260	26	2.3	26	88	2	95	29	19	18	32	1.95
10272998--10273036	19	2.1	19	90	9	62	46	7	2	43	1.46
10273027--10273076	17	2.7	19	75	15	59	52	0	0	48	1.00
10277148--10277181	17	1.9	17	88	5	50	50	5	8	35	1.58
10277269--10277313	13	3.5	13	81	0	54	68	13	2	15	1.30
10277453--10277484	15	2.1	15	100	0	64	6	34	25	34	1.81
10280190--10280259	32	2.2	33	81	2	79	55	7	2	34	1.42
10283202--10283299	38	2.5	39	83	8	103	43	2	6	47	1.39
10283201--10283548	92	3.8	92	75	13	276	43	3	6	46	1.44
10283267--10283549	33	9.1	33	75	13	224	43	3	6	46	1.46
10283295--10283349	24	2.3	24	90	6	85	45	1	3	49	1.30
10283304--10283355	24	2.2	24	100	0	104	46	3	3	46	1.39
10283359--10283484	59	2.1	59	85	0	162	43	3	7	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10283391--10283449	26	2.3	26	84	0	82	49	3	5	42	1.41
10283402--10283517	59	2.0	59	81	6	137	43	4	8	43	1.54
10284289--10284354	9	6.9	9	81	11	69	19	25	22	31	1.98
10284289--10284336	21	2.5	20	86	10	64	18	25	22	33	1.97
10284290--10284378	9	9.3	9	74	11	52	17	25	24	31	1.97
10284289--10284355	29	2.3	30	87	5	93	19	26	22	31	1.98
10284375--10284435	17	3.5	19	91	6	78	19	50	22	6	1.70
10284375--10284445	5	13.8	5	78	14	65	19	50	23	5	1.69
10284388--10284435	17	2.8	17	100	0	96	18	50	22	8	1.74
10284386--10284452	22	3.0	22	77	16	84	17	49	23	8	1.75
10286012--10286040	14	2.0	15	93	6	51	51	6	0	41	1.28
10286208--10286262	21	2.6	21	94	0	92	30	27	21	20	1.98
10286223--10286303	21	4.0	20	75	18	69	29	22	22	25	1.99
10286271--10286379	41	2.6	42	80	9	109	23	22	22	31	1.99
10287153--10287289	21	6.6	21	77	9	138	30	24	21	23	1.99
10287125--10287265	62	2.3	62	84	10	189	32	22	21	23	1.98
10287298--10287516	21	10.6	21	80	11	229	23	22	22	31	1.99
10287298--10287516	41	5.3	42	86	6	245	23	22	22	31	1.99
10287662--10287814	22	7.3	22	70	19	112	45	1	5	47	1.36
10287662--10287812	42	3.7	42	76	11	145	44	1	5	48	1.36
10287873--10288195	2	153.0	2	68	19	160	44	6	3	45	1.46
10287931--10288076	27	5.5	27	70	16	117	41	7	4	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10287873--10288745	20	43.3	20	65	22	159	44	6	4	43	1.51
10288160--10288276	27	4.4	27	77	8	98	40	5	5	48	1.50
10288251--10288284	15	2.3	15	90	10	52	41	8	0	50	1.34
10288399--10288745	27	12.9	26	65	21	96	46	6	4	42	1.49
10288575--10288698	2	60.0	2	67	20	60	43	4	4	47	1.43
10288591--10288731	13	10.5	13	66	15	54	45	5	3	45	1.44
10288604--10288673	27	2.6	27	86	2	97	41	4	2	51	1.36
10288657--10288720	29	2.2	29	83	5	76	43	6	4	45	1.50
10290349--10290484	21	6.6	21	81	11	156	30	25	21	23	1.99
10290349--10290510	82	2.0	83	93	1	281	30	23	21	24	1.99
10290493--10290678	21	8.9	21	81	9	202	23	22	23	30	1.99
10290473--10290642	83	2.0	82	82	10	204	25	21	24	28	1.99
10290452--10290650	104	1.9	104	84	8	271	25	22	23	29	1.99
10290493--10290685	104	1.9	103	86	4	280	24	22	23	30	1.99
10291244--10291268	5	5.0	5	100	0	50	0	40	20	40	1.52
10291412--10291569	21	7.6	21	84	8	198	30	25	20	23	1.98
10291433--10291549	62	1.9	62	89	3	182	32	23	20	23	1.98
10291416--10291589	62	2.8	61	73	18	169	29	25	19	25	1.98
10291409--10291569	83	1.9	83	89	2	252	31	25	19	23	1.98
10291578--10291778	21	9.6	21	81	5	237	23	22	23	30	1.99
10291412--10291719	104	3.0	105	80	8	294	27	24	20	27	1.99
10291578--10291778	42	4.8	42	84	6	264	23	22	23	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10291551--10291781	104	2.2	105	89	5	353	23	22	22	31	1.98
10296492--10296538	16	2.9	16	100	0	94	44	19	12	23	1.85
10297497--10297575	41	1.9	41	89	0	122	30	8	18	41	1.81
10297551--10297801	41	6.1	41	84	3	290	34	10	20	34	1.87
10297563--10297816	123	2.1	123	84	3	332	33	11	19	35	1.88
10306464--10306558	32	3.0	31	74	11	95	35	16	9	37	1.82
10326378--10326421	20	2.1	21	84	12	56	38	0	29	31	1.58
10328661--10328701	22	1.9	21	85	5	55	46	2	7	43	1.44
10330127--10330220	32	2.9	32	77	0	98	30	20	12	36	1.90
10336337--10336377	18	2.2	19	86	4	57	43	2	14	39	1.59
10339233--10339359	44	3.2	44	67	28	136	25	1	13	59	1.43
10339230--10339444	76	2.9	75	90	2	308	27	1	13	57	1.44
10344913--10345028	58	2.0	60	96	3	218	26	1	12	59	1.42
10345710--10345743	17	2.0	17	88	0	50	23	0	2	73	0.97
10359271--10359308	12	3.2	12	88	7	60	47	0	0	52	1.00
10359271--10359301	11	2.7	11	95	5	53	48	0	0	51	1.00
10364432--10364506	12	6.2	12	75	10	55	33	1	13	52	1.49
10369708--10369776	22	3.1	22	66	17	54	46	1	1	50	1.19
10370035--10370091	4	14.0	4	82	10	71	22	0	1	75	0.90
10370035--10370083	19	2.7	19	90	6	66	20	0	2	77	0.87
10376496--10376592	50	1.9	50	85	4	133	34	24	22	18	1.96
10377935--10377977	20	2.1	21	86	4	61	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10383156--10383211	19	2.7	21	81	10	71	37	16	16	30	1.90
10389841--10390203	57	6.4	57	95	0	620	35	8	19	36	1.83
10395878--10395903	5	5.2	5	100	0	52	0	19	57	23	1.40
10396794--10396842	12	4.0	12	81	2	62	57	0	0	42	0.99
10398177--10398291	55	2.1	55	85	3	151	32	21	7	38	1.82
10406859--10406909	10	5.7	10	82	17	60	56	0	0	43	0.99
10406859--10406909	12	4.6	11	81	13	61	56	0	0	43	0.99
10408094--10408292	38	5.2	38	86	3	258	22	19	28	29	1.98
10410595--10410845	55	4.6	54	79	10	267	31	18	23	25	1.97
10410595--10410845	110	2.3	110	84	3	317	31	18	23	25	1.97

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   90   91