genome.fa.s9639.2.7.7.80.10.50.1000.31.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   

This is table  31  of  62  ( 7398 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)
6703048--6703182	41	3.3	41	84	4	148	37	21	20	20	1.94
6703110--6703203	20	4.7	20	80	7	91	32	25	17	24	1.96
6703391--6703434	22	2.0	22	95	0	79	20	45	15	18	1.85
6704956--6705000	18	2.5	18	85	0	63	26	46	15	11	1.79
6705527--6705584	14	3.9	14	79	16	71	48	25	17	8	1.75
6705511--6705601	32	2.8	33	94	3	166	47	23	18	10	1.80
6705473--6705606	19	7.6	19	72	18	92	42	23	20	12	1.87
6705618--6705675	14	3.9	14	77	16	62	10	17	24	48	1.78
6705613--6705691	32	2.4	33	93	2	133	11	18	22	46	1.81
6705664--6705722	19	3.1	19	82	4	73	16	25	20	37	1.93
6705675--6705726	20	2.7	19	85	5	77	15	25	23	36	1.93
6707705--6707865	19	8.7	19	87	6	233	45	16	22	15	1.85
6707896--6707953	20	2.9	20	94	0	98	17	22	22	37	1.93
6708976--6709029	24	2.2	24	90	0	81	24	16	20	38	1.92
6711387--6711517	19	7.7	19	65	23	85	41	19	23	14	1.88
6711387--6711513	33	3.8	33	87	4	193	41	19	23	14	1.89
6711388--6711520	66	2.0	66	95	0	239	40	19	23	16	1.91
6711513--6711555	20	2.2	20	87	4	61	16	18	23	41	1.89
6711697--6711733	14	2.6	14	91	0	65	45	24	0	29	1.53
6713090--6713156	21	3.2	21	68	4	55	19	20	35	23	1.95
6713090--6713212	42	2.9	41	80	7	113	22	17	36	22	1.95
6715212--6715362	39	4.1	38	77	10	168	45	22	20	11	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6715212--6715362	19	8.1	19	80	10	168	45	22	20	11	1.84
6715358--6715438	19	4.5	19	74	16	73	11	17	24	46	1.80
6715957--6716050	20	4.7	20	77	7	82	24	15	25	34	1.95
6716039--6716109	21	3.4	21	78	3	90	15	26	18	39	1.90
6715978--6716109	41	3.2	41	82	4	133	19	20	21	38	1.93
6718386--6718491	30	3.6	30	76	11	94	54	9	16	18	1.69
6719857--6719920	3	21.3	3	100	0	128	67	0	0	32	0.91
6720555--6720597	20	2.2	20	95	0	77	27	20	18	32	1.96
6724915--6725020	30	3.6	30	76	11	94	54	9	16	18	1.69
6726382--6726444	3	20.7	3	96	3	117	68	0	0	31	0.90
6731234--6731274	19	2.2	19	86	4	57	21	0	24	53	1.46
6731748--6731787	21	1.9	21	84	0	53	25	12	22	40	1.89
6733826--6733869	21	2.2	20	84	11	56	47	0	2	50	1.13
6734297--6734362	21	3.2	21	74	18	59	53	0	3	43	1.16
6743459--6743491	12	2.6	13	90	4	50	45	6	12	36	1.66
6759822--6759867	18	2.6	18	93	3	76	28	0	8	63	1.24
6760428--6760481	2	27.0	2	100	0	108	50	0	0	50	1.00
6762211--6762251	16	2.6	16	81	11	57	56	0	0	43	0.99
6763288--6763339	24	2.1	25	85	3	70	46	1	0	51	1.12
6763777--6763849	20	3.7	20	90	0	110	36	19	21	21	1.95
6764051--6764103	22	2.4	22	93	0	88	22	41	13	22	1.88
6764488--6764538	20	2.5	20	93	0	84	11	13	23	50	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6764502--6764545	20	2.2	20	91	0	70	11	13	20	54	1.69
6766433--6766589	20	8.5	20	72	19	108	42	20	17	19	1.89
6766456--6766610	34	4.4	34	71	15	118	43	20	18	18	1.88
6766617--6766688	20	3.6	20	90	0	108	25	20	20	33	1.97
6768735--6768830	33	2.8	33	90	3	138	43	20	22	12	1.86
6768768--6768835	20	3.8	19	72	21	74	47	19	22	11	1.81
6768845--6768920	33	2.3	34	93	2	127	13	23	19	43	1.86
6768912--6769000	20	4.4	20	88	2	135	16	22	24	35	1.95
6771410--6771463	24	2.2	24	93	0	90	40	20	18	20	1.91
6771410--6771477	24	2.8	24	84	0	64	38	20	17	23	1.93
6772305--6772398	20	4.7	20	95	0	170	26	19	25	28	1.98
6772398--6772510	20	5.7	20	95	0	199	20	18	21	39	1.92
6772304--6772491	60	3.1	60	79	11	156	23	18	23	34	1.96
6774467--6774505	19	2.2	19	90	9	64	51	0	5	43	1.24
6780437--6780574	63	2.2	63	84	0	177	31	16	24	27	1.97
6784920--6785010	43	2.1	45	83	4	114	28	15	26	29	1.96
6785089--6785208	45	2.7	43	79	5	141	28	17	19	35	1.94
6785512--6785596	21	4.0	21	85	0	98	2	34	18	44	1.63
6785580--6785635	21	2.7	21	72	10	51	3	41	12	42	1.60
6789802--6790161	178	2.0	181	98	1	699	33	21	20	24	1.97
6791226--6791270	17	2.6	17	100	0	90	57	4	0	37	1.19
6791226--6791271	8	5.5	8	80	10	56	56	4	0	39	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6803710--6803770	20	3.1	19	81	11	77	27	34	24	13	1.93
6803710--6803771	21	3.0	20	84	9	72	27	35	24	12	1.92
6806545--6806595	20	2.5	20	90	0	84	19	33	19	27	1.96
6815855--6815894	5	8.2	5	86	2	55	2	17	2	77	0.99
6819913--6819947	5	7.2	5	90	3	54	0	20	2	77	0.90
6819913--6819954	15	2.9	14	83	16	50	0	19	4	76	0.96
6825830--6826028	94	2.1	95	86	6	271	38	11	23	26	1.89
6826388--6826670	45	6.3	45	87	2	372	45	12	21	20	1.83
6826388--6826670	135	2.1	135	90	3	435	45	12	21	20	1.83
6830470--6830698	112	2.1	111	84	2	298	30	16	18	34	1.93
6835135--6835497	55	6.7	55	90	3	490	34	14	16	34	1.89
6841035--6842025	55	18.1	55	91	1	1519	35	11	18	34	1.87
6841035--6842025	166	6.0	165	91	1	1519	35	11	18	34	1.87
6847303--6847351	21	2.3	21	92	0	89	22	22	24	30	1.99
6852837--6853026	26	8.0	26	70	19	155	22	21	10	46	1.80
6852849--6853036	46	4.1	46	92	0	304	23	21	10	44	1.82
6852875--6853000	20	5.7	20	70	20	81	23	22	9	45	1.81
6852849--6853160	92	3.4	93	84	5	311	25	22	10	41	1.86
6852859--6853458	45	13.3	45	88	1	665	28	23	10	38	1.87
6853275--6853390	22	5.2	22	66	12	83	28	26	10	34	1.89
6853891--6854046	75	2.1	74	85	5	208	26	23	12	37	1.90
6859063--6859123	32	1.9	32	86	0	86	39	13	18	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6861143--6861196	14	4.1	14	75	20	53	53	0	1	44	1.11
6861174--6861201	14	2.0	14	100	0	56	64	0	7	28	1.20
6861342--6861375	17	2.0	17	88	0	50	38	2	11	47	1.55
6864563--6864596	5	6.8	5	90	10	52	17	2	0	79	0.86
6864483--6864818	121	2.7	124	87	6	498	22	18	14	44	1.86
6864821--6864960	34	3.9	34	72	17	106	27	15	3	52	1.59
6864817--6864903	42	2.1	40	91	4	138	29	18	2	49	1.60
6865107--6865140	5	6.8	5	87	12	52	17	0	0	82	0.67
6865097--6865141	16	2.9	16	90	3	65	15	4	0	80	0.87
6865107--6865135	11	2.7	11	94	5	51	17	0	0	82	0.66
6865742--6865771	15	2.0	15	93	0	51	10	0	10	80	0.92
6865705--6865761	25	2.3	24	80	14	71	15	7	5	71	1.25
6865841--6866187	162	2.1	162	98	0	667	41	15	12	30	1.84
6873169--6873243	37	2.0	39	86	5	109	30	20	10	38	1.86
6873428--6873737	139	2.2	139	85	2	442	29	27	19	23	1.98
6873743--6873880	40	3.4	40	77	11	136	35	29	13	21	1.91
6873675--6874100	83	5.1	83	79	2	437	33	29	16	20	1.95
6873742--6873866	43	3.0	42	78	9	130	36	28	13	21	1.91
6873680--6874100	166	2.5	165	84	3	533	33	29	16	20	1.95
6873927--6874047	40	3.0	40	66	13	93	35	29	14	19	1.92
6874107--6874453	122	2.9	121	83	2	419	36	23	14	26	1.93
6875286--6875332	22	2.1	22	96	0	85	36	2	12	48	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6878681--6878705	13	1.9	13	100	0	50	72	8	0	20	1.10
6878677--6878764	34	2.6	34	83	0	122	63	12	4	19	1.45
6878783--6878816	13	2.6	13	90	0	50	67	11	2	17	1.34
6881073--6881106	11	2.9	12	86	8	52	67	5	0	26	1.13
6885451--6885532	21	3.9	21	96	0	146	15	25	18	40	1.90
6885446--6885539	42	2.2	41	88	1	143	18	25	19	37	1.94
6885529--6885602	20	3.7	20	81	3	103	37	20	21	20	1.94
6885529--6885620	41	2.3	40	90	1	139	35	21	21	20	1.96
6886191--6886239	20	2.5	20	82	0	62	34	22	20	22	1.97
6886283--6886332	20	2.5	20	86	0	73	14	14	22	50	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