genome.fa.s8087.2.7.7.80.10.50.1000.29.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  29  of  37  ( 4336 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)
6745429--6745541	48	2.4	48	86	0	154	30	7	30	30	1.86
6750831--6750870	20	2.0	20	90	4	64	37	0	7	55	1.29
6752517--6752569	14	3.5	15	80	12	56	66	1	28	3	1.20
6752523--6752563	9	4.7	9	77	17	50	73	2	24	0	0.96
6754291--6754330	20	2.0	20	90	4	64	37	0	7	55	1.29
6763256--6763329	20	3.7	20	72	3	76	41	17	21	18	1.90
6763259--6763348	41	2.2	41	95	0	162	42	16	23	17	1.89
6763256--6763348	21	4.5	21	72	4	82	40	17	23	18	1.90
6763275--6763409	41	3.3	41	80	6	114	38	20	20	20	1.94
6763337--6763471	20	6.7	20	83	5	128	28	26	19	25	1.98
6763338--6763471	40	3.3	40	82	3	144	28	26	19	25	1.99
6763659--6763702	22	2.0	22	95	0	79	22	43	13	20	1.87
6763966--6764004	20	2.0	20	89	0	60	17	15	17	48	1.81
6764140--6764194	25	2.2	24	81	15	67	21	9	16	52	1.71
6765323--6765367	18	2.5	18	88	0	72	26	44	15	13	1.83
6765857--6765901	20	2.2	20	92	0	72	40	17	22	20	1.92
6765888--6765983	19	5.6	18	67	25	66	46	22	18	11	1.81
6765904--6765961	14	3.9	14	77	16	62	50	25	15	8	1.73
6765888--6765978	32	2.8	33	93	3	157	48	23	17	10	1.79
6765995--6766052	14	3.9	14	79	16	71	8	17	25	48	1.75
6765990--6766068	32	2.4	33	95	2	142	10	18	24	46	1.80
6766053--6766108	20	2.8	19	86	7	76	16	25	23	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6767978--6768013	14	2.6	14	90	0	54	30	0	22	47	1.52
6768130--6768217	19	4.8	19	89	8	139	48	15	20	14	1.80
6768101--6768217	38	3.3	35	82	10	141	45	18	21	14	1.85
6768236--6768273	20	1.9	20	100	0	76	15	21	26	36	1.93
6769330--6769383	24	2.2	24	87	6	74	25	12	20	40	1.88
6771809--6771867	19	3.4	19	73	22	74	45	18	22	13	1.84
6771809--6771935	33	3.8	33	82	4	175	44	18	22	15	1.87
6771814--6771942	66	2.0	66	93	0	222	44	17	21	17	1.87
6772098--6772134	14	2.6	14	91	0	65	45	24	0	29	1.53
6773490--6773556	21	3.2	21	68	4	55	19	20	35	23	1.95
6773529--6773608	42	1.9	42	84	0	106	23	17	37	21	1.94
6775668--6775700	14	2.4	14	94	0	57	45	24	24	6	1.75
6775641--6775733	47	2.0	48	89	2	143	40	24	23	10	1.86
6775724--6775794	19	3.7	19	90	3	115	46	22	19	11	1.81
6775790--6775834	19	2.4	19	88	0	72	6	15	24	53	1.66
6776427--6776480	20	2.7	20	85	0	81	25	18	24	31	1.97
6776469--6776520	20	2.5	20	81	3	59	17	25	19	38	1.93
6776387--6776501	61	1.9	61	81	3	142	21	20	23	34	1.96
6776551--6776591	21	2.0	21	85	0	55	34	31	17	17	1.93
6776826--6777316	229	2.1	228	96	1	903	45	7	8	38	1.64
6777386--6777859	181	2.6	182	90	1	711	42	14	17	26	1.87
6777780--6777826	20	2.4	19	82	10	67	53	10	17	19	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6777789--6777831	20	2.3	19	88	11	63	51	11	16	20	1.75
6779388--6779689	149	2.0	149	98	0	577	35	19	17	27	1.94
6780210--6780237	2	14.0	2	100	0	56	50	0	0	50	1.00
6780563--6780597	18	1.9	18	88	11	54	22	17	5	54	1.64
6781178--6781222	21	2.1	21	87	0	63	15	24	28	31	1.96
6784492--6784536	23	2.0	23	86	0	63	26	28	24	20	1.99
6784515--6784818	149	2.0	149	98	0	590	34	20	17	27	1.95
6785353--6785416	2	32.0	2	100	0	128	50	0	0	50	1.00
6785741--6785775	18	1.9	18	88	11	54	22	17	5	54	1.64
6786356--6786400	21	2.1	21	87	0	63	15	24	28	31	1.96
6788458--6788501	21	2.1	21	91	0	70	40	11	31	15	1.83
6788535--6788600	33	2.0	33	90	0	105	28	0	48	22	1.51
6788800--6788842	14	3.1	13	75	18	50	53	0	41	4	1.21
6790392--6790440	19	2.6	19	93	0	80	30	2	10	57	1.43
6790559--6791526	198	4.9	198	97	0	1814	36	14	17	30	1.90
6792995--6793087	12	7.2	12	72	13	60	36	8	33	21	1.84
6792992--6793087	18	5.0	18	67	18	59	37	8	33	20	1.83
6793004--6793087	15	5.6	15	78	5	80	36	8	33	21	1.83
6793016--6793083	6	11.3	6	82	0	55	36	8	33	20	1.84
6794281--6794314	16	2.1	16	88	0	50	47	8	20	23	1.78
6794676--6794748	23	3.2	23	84	0	92	34	4	20	41	1.72
6794676--6794773	46	2.1	45	81	7	108	33	6	17	42	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6795129--6795621	183	2.7	182	95	1	878	34	15	17	33	1.91
6798084--6798148	25	2.6	25	77	0	76	35	9	12	43	1.74
6798489--6798561	23	3.2	23	88	0	101	34	4	21	39	1.73
6798835--6798884	25	2.0	25	96	0	91	26	8	22	44	1.80
6799271--6799307	18	2.1	18	89	0	56	32	5	10	51	1.60
6799263--6799309	24	2.0	24	86	0	67	34	4	14	46	1.64
6799578--6799668	39	2.3	39	94	0	155	49	18	13	18	1.79
6800085--6800157	23	3.2	23	84	0	92	35	4	20	39	1.72
6800516--6800588	23	3.2	23	80	0	83	36	4	20	38	1.72
6800948--6801020	23	3.2	23	92	0	119	34	5	21	38	1.77
6801378--6801450	23	3.2	23	90	0	110	35	5	20	38	1.76
6799883--6801801	430	4.5	431	97	0	3583	41	7	11	38	1.71
6799883--6801801	862	2.2	855	96	1	3062	41	7	11	38	1.71
6807252--6807308	26	2.2	26	96	0	105	35	5	15	43	1.70
6812536--6812568	6	5.5	6	100	0	66	54	15	0	30	1.41
6818373--6818399	4	6.8	4	100	0	54	22	0	0	77	0.76
6822151--6822189	16	2.5	16	87	4	53	46	0	0	53	1.00
6833342--6833967	140	4.4	142	84	10	843	54	7	5	32	1.53
6833342--6833967	289	2.2	286	85	10	902	54	7	5	32	1.53
6837016--6837177	63	2.5	64	82	8	172	35	20	18	25	1.95
6837824--6837881	23	2.5	23	85	0	80	17	27	27	27	1.97
6844741--6844800	23	2.6	23	89	5	86	18	25	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6849705--6849790	29	3.0	29	98	0	163	13	33	31	20	1.92
6849870--6849925	29	1.9	29	96	0	103	12	37	30	19	1.89
6849929--6850013	33	2.6	33	88	3	118	8	38	27	25	1.84
6849995--6850027	14	2.4	14	94	0	57	6	30	39	24	1.79
6850070--6850127	29	2.0	29	89	0	89	22	27	36	13	1.92
6850741--6850874	36	3.7	37	91	3	220	44	5	5	44	1.51
6851713--6851739	12	2.2	12	100	0	54	55	7	0	37	1.28
6852013--6852052	20	2.0	20	95	0	71	37	20	22	20	1.94
6852126--6852194	20	3.5	19	75	11	68	30	24	10	34	1.89
6852116--6852192	40	1.9	40	91	0	127	31	22	9	37	1.85
6852332--6852370	16	2.5	15	84	8	51	28	5	0	66	1.12
6852961--6852994	12	2.8	12	90	0	50	55	29	0	14	1.40
6854154--6854189	18	2.0	18	94	0	63	55	25	2	16	1.55
6854753--6854816	31	2.1	31	100	0	128	46	15	6	31	1.71
6855966--6856063	21	4.7	21	85	8	128	24	19	34	21	1.96
6855966--6856063	42	2.3	42	89	6	146	24	19	34	21	1.96
6856393--6856513	63	1.9	63	80	6	138	32	31	12	23	1.92
6858207--6858261	20	2.8	19	81	8	65	18	16	20	45	1.86
6858582--6858628	22	2.1	22	88	0	67	21	21	42	14	1.88
6858776--6858821	20	2.3	20	88	0	65	17	13	23	45	1.83
6878273--6878321	19	2.5	19	83	3	53	32	30	14	22	1.93
6878291--6878433	40	3.5	40	74	8	103	31	23	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6878588--6878625	16	2.5	15	84	12	51	28	5	0	65	1.14
6879595--6879619	12	2.1	12	100	0	50	72	0	28	0	0.86
6881657--6881692	18	2.0	18	88	0	54	55	22	2	19	1.56
6881938--6882065	20	6.2	20	79	5	130	21	21	23	33	1.97
6882130--6882270	64	2.2	64	92	1	230	51	17	2	29	1.56
6883621--6883734	21	5.5	20	74	10	79	21	20	35	21	1.96
6883621--6883740	42	2.9	41	80	8	127	23	20	35	21	1.96
6883641--6883737	21	4.7	20	73	12	88	22	19	34	23	1.97
6883882--6883923	12	3.5	12	83	6	50	69	7	0	23	1.13
6884055--6884129	21	3.6	21	68	12	55	30	37	12	20	1.89

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