genome.fa.s9587.2.7.7.80.10.50.1000.29.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  29  of  29  ( 3457 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)
6400363--6400543	62	2.9	61	83	3	218	37	22	12	28	1.90
6402153--6402178	12	2.2	12	100	0	52	65	0	0	34	0.93
6411061--6411187	40	3.2	38	68	19	89	45	4	5	44	1.48
6411239--6411275	13	2.7	14	84	15	51	43	10	0	45	1.39
6412417--6412459	22	2.0	21	86	8	61	25	0	0	74	0.82
6412946--6413160	2	110.5	2	66	21	93	42	4	4	48	1.43
6412947--6413186	20	11.2	20	67	23	91	42	3	5	48	1.45
6412946--6413118	70	2.5	70	80	11	185	42	4	5	47	1.46
6418769--6419142	156	2.4	158	81	6	424	28	16	4	49	1.66
6424780--6424805	13	2.0	13	100	0	52	7	0	7	84	0.77
6425260--6425296	17	2.2	17	95	0	65	29	29	16	24	1.96
6425654--6425740	26	3.3	26	91	1	138	54	26	19	0	1.45
6427369--6427462	21	4.5	21	81	5	109	45	30	0	23	1.53
6427369--6427472	7	14.9	7	68	11	61	45	32	0	22	1.53
6427369--6427483	35	3.1	35	72	18	97	45	31	0	23	1.53
6427383--6427472	28	3.2	27	75	12	83	44	32	0	23	1.54
6427369--6427475	42	2.5	42	82	5	119	44	31	0	23	1.53
6427738--6427778	14	3.1	14	76	20	52	41	0	4	53	1.22
6428391--6428525	60	2.2	60	88	0	189	31	24	5	37	1.79
6428696--6428839	60	2.4	59	83	2	162	41	4	22	31	1.73
6428739--6428864	60	2.1	60	86	2	173	42	4	19	34	1.72
6429904--6430286	174	2.2	173	86	1	516	25	12	16	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6432828--6432853	3	8.7	3	100	0	52	34	0	0	65	0.93
6438224--6438282	23	2.5	24	81	8	77	35	8	16	38	1.80
6438520--6438595	36	2.0	38	90	7	120	31	7	28	31	1.86
6442458--6442494	17	2.1	18	90	5	58	67	5	8	18	1.36
6449230--6449291	24	2.6	24	72	10	72	53	1	0	45	1.10
6451040--6451078	16	2.4	16	91	0	60	28	25	15	30	1.96
6451197--6451235	17	2.3	17	95	0	69	46	0	7	46	1.31
6451207--6451304	51	1.9	52	91	2	162	40	4	6	48	1.47
6452119--6452183	20	3.2	20	93	0	103	53	15	15	15	1.73
6452119--6452199	20	4.1	20	90	0	99	55	16	14	13	1.69
6454545--6454694	31	4.8	31	94	0	255	48	24	4	22	1.70
6454545--6454712	62	2.7	62	85	7	234	48	23	4	24	1.68
6455061--6455122	29	2.1	29	96	0	115	30	3	40	25	1.72
6455069--6455138	29	2.4	29	85	4	88	37	4	34	24	1.75
6455227--6455404	93	1.9	94	86	5	254	31	6	28	33	1.83
6455624--6455739	60	1.9	59	87	5	171	41	12	6	40	1.67
6455779--6455831	24	2.3	24	83	6	65	50	0	3	45	1.19
6455843--6456130	18	17.2	17	66	23	89	43	6	6	43	1.56
6455854--6455976	65	1.9	65	89	0	192	41	8	8	42	1.64
6455861--6455978	33	3.6	33	78	6	141	42	7	7	42	1.62
6455861--6455994	33	4.1	32	75	8	119	42	6	7	43	1.59
6456082--6456161	2	41.5	2	71	20	55	47	0	3	48	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6455971--6456102	37	3.6	35	70	17	90	44	7	5	42	1.55
6455935--6456096	79	2.1	79	86	6	233	44	8	5	41	1.57
6456089--6456156	14	4.9	14	72	17	61	45	0	4	50	1.22
6456089--6456132	15	3.0	15	90	6	72	45	0	4	50	1.22
6456217--6456284	2	34.0	2	75	16	52	48	0	4	47	1.22
6456225--6456284	20	3.0	20	82	4	68	50	0	3	46	1.18
6456265--6456344	31	2.5	31	86	8	99	42	5	12	40	1.64
6456310--6456371	20	3.2	19	73	17	56	41	8	11	38	1.70
6456320--6456384	18	3.5	17	76	17	67	44	6	9	40	1.61
6456320--6456381	20	3.2	19	75	25	67	41	6	9	41	1.63
6456439--6456535	32	3.0	33	77	8	117	42	8	8	41	1.65
6456446--6456693	18	14.6	18	69	18	147	43	5	6	44	1.53
6456447--6456637	83	2.3	85	84	5	237	42	6	6	43	1.57
6456775--6456851	2	37.0	2	73	17	59	46	1	6	45	1.37
6456751--6456849	20	4.6	21	74	12	76	45	1	7	46	1.37
6457699--6457743	23	2.0	23	90	0	72	33	26	17	22	1.96
6457699--6457767	23	3.0	23	82	0	66	30	24	21	23	1.99
6457783--6458000	103	2.1	103	94	1	384	36	22	14	26	1.92
6458786--6458942	64	2.5	64	78	9	176	26	20	21	32	1.97
6463555--6463632	23	3.3	23	77	8	86	33	23	19	24	1.97
6463639--6463856	103	2.1	103	93	0	373	37	23	13	26	1.91
6465636--6465729	18	5.4	17	74	20	79	44	7	8	39	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6465655--6465773	38	3.2	38	79	13	124	42	7	9	41	1.65
6465665--6465727	20	3.3	19	77	16	67	44	6	7	41	1.59
6465705--6465751	24	2.0	24	83	8	60	46	8	4	40	1.54
6465629--6465810	91	2.0	91	82	12	221	43	6	8	41	1.62
6465794--6465883	16	5.6	15	69	20	58	41	5	7	45	1.56
6465827--6466041	18	12.4	18	72	13	146	43	2	6	46	1.43
6465860--6466162	2	148.0	2	63	25	57	43	2	6	46	1.45
6465777--6465987	33	6.3	33	78	10	221	43	4	7	45	1.51
6465921--6466002	9	9.4	9	69	26	52	41	1	6	51	1.34
6465795--6465987	104	1.9	100	89	4	296	43	4	6	46	1.49
6465795--6466010	69	3.2	71	81	6	216	42	3	6	46	1.48
6465649--6466012	18	20.8	17	68	17	167	42	4	8	44	1.56
6465827--6466041	104	2.1	103	84	3	270	43	2	6	46	1.43
6465827--6466002	51	3.4	50	76	9	167	43	3	6	47	1.45
6466097--6466160	9	6.7	9	71	25	51	48	1	6	43	1.37
6466070--6466138	34	2.0	36	85	5	97	43	2	7	46	1.46
6466105--6466162	20	3.0	18	81	18	64	50	1	5	43	1.35
6466070--6466286	29	7.6	28	70	22	102	43	5	8	41	1.59
6466087--6466244	49	3.2	51	83	8	191	46	5	7	40	1.56
6466202--6466306	35	3.1	33	80	12	99	40	6	8	43	1.61
6466197--6466316	33	3.5	33	82	7	116	41	5	9	43	1.60
6466312--6466389	29	2.6	30	84	9	90	47	0	6	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6466403--6466491	28	3.2	28	79	4	92	41	6	8	42	1.63
6466486--6466557	22	3.4	21	79	14	85	43	5	4	47	1.46
6466486--6466555	20	3.4	20	82	11	88	42	5	4	47	1.47
6466221--6466524	33	9.0	32	71	18	151	43	4	8	43	1.56
6466637--6467333	216	3.3	214	91	2	1100	28	12	8	50	1.68
6469080--6469117	2	19.0	2	100	0	76	50	0	0	50	1.00
6469120--6469144	13	1.9	13	100	0	50	56	0	0	44	0.99
6469079--6469173	6	15.8	6	74	12	52	56	0	0	43	0.99
6473224--6473284	32	1.9	32	96	0	113	39	24	14	21	1.91

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

The End!