genome.fa.s8209.2.7.7.80.10.50.1000.28.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  28  of  30  ( 3569 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)
6055186--6055225	21	1.9	21	84	0	53	35	12	2	50	1.54
6058507--6058574	33	2.1	33	83	10	86	20	8	10	60	1.56
6058724--6058750	14	1.9	14	100	0	54	29	18	7	44	1.77
6060868--6060926	20	2.7	22	85	15	70	30	20	22	27	1.98
6064357--6064403	18	2.6	18	93	0	76	23	19	25	31	1.98
6064498--6064543	20	2.3	20	80	0	56	32	15	23	28	1.95
6065741--6065797	30	1.9	30	92	0	96	8	31	24	35	1.86
6065771--6065817	20	2.3	20	88	0	67	8	25	25	40	1.84
6066326--6066380	20	2.8	20	88	8	85	38	16	10	34	1.84
6068925--6068974	20	2.5	20	83	6	66	42	2	12	44	1.53
6068925--6068961	11	3.5	11	82	14	51	43	0	13	43	1.44
6069049--6069114	19	3.4	19	78	15	71	37	10	10	40	1.74
6069049--6069114	20	3.3	21	78	17	70	37	10	10	40	1.74
6081539--6081571	2	16.5	2	100	0	66	51	0	48	0	1.00
6085206--6085268	2	32.0	2	96	3	119	50	0	0	49	1.00
6085327--6085374	2	24.0	2	100	0	96	50	0	0	50	1.00
6085425--6085461	2	18.5	2	100	0	74	48	0	0	51	1.00
6086683--6086789	32	3.4	31	90	3	169	11	11	39	38	1.77
6089396--6089431	15	2.4	15	100	0	72	36	11	0	52	1.37
6089869--6089895	11	2.5	11	100	0	54	14	0	7	77	0.97
6091111--6091183	21	3.5	21	81	1	67	24	24	17	32	1.97
6091153--6091265	20	5.7	20	82	10	142	36	21	20	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6091153--6091265	40	2.8	40	83	12	160	36	21	20	22	1.95
6091153--6091280	60	2.1	60	95	0	229	35	21	20	22	1.96
6091192--6091319	20	6.4	20	83	7	136	32	23	19	24	1.97
6091153--6091303	40	3.8	40	82	10	150	34	22	20	22	1.97
6092157--6092212	24	2.4	24	84	3	78	25	17	16	41	1.89
6092405--6092434	14	2.1	14	93	0	51	56	26	10	6	1.57
6094622--6094675	20	2.7	20	88	5	83	37	25	18	18	1.94
6094667--6094720	14	3.5	14	73	22	54	44	20	24	11	1.83
6094658--6094740	33	2.5	33	92	2	130	45	16	22	14	1.84
6094802--6094842	20	2.1	19	90	4	64	21	24	19	34	1.97
6096949--6097151	20	10.4	20	80	8	220	39	21	19	19	1.92
6096948--6097131	76	2.4	74	82	8	206	40	22	19	17	1.91
6097202--6097244	20	2.2	20	86	0	59	23	18	23	34	1.96
6097229--6097272	14	3.1	14	83	0	61	9	15	25	50	1.74
6099011--6099172	20	8.4	20	77	8	131	43	24	17	15	1.87
6099052--6099201	73	2.1	73	96	0	273	42	24	18	14	1.88
6099542--6099604	22	2.9	22	90	0	99	20	14	39	25	1.90
6099805--6099877	20	3.7	20	96	0	137	19	21	20	38	1.94
6099867--6099940	21	3.5	21	92	0	121	36	17	24	21	1.95
6101641--6101683	17	2.6	17	85	7	54	55	0	0	44	0.99
6110962--6111074	20	5.6	20	87	6	174	11	24	23	40	1.87
6110937--6111095	61	2.6	61	92	1	255	15	22	23	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6111066--6111128	33	1.9	33	100	0	126	17	19	28	34	1.94
6111229--6111253	6	4.2	6	100	0	50	36	48	16	0	1.46
6111262--6111376	21	5.6	21	68	4	99	35	26	18	20	1.95
6111251--6111380	41	3.2	41	94	0	224	36	23	19	20	1.95
6111405--6111468	20	3.2	20	64	4	58	25	23	23	28	2.00
6111412--6111475	20	3.2	20	64	4	58	28	21	23	26	1.99
6111464--6111536	20	3.6	20	74	3	74	39	26	21	12	1.89
6111413--6111561	41	3.7	40	88	3	210	34	23	21	20	1.97
6111411--6111578	41	4.2	40	73	14	125	33	22	21	22	1.97
6111936--6111982	20	2.3	20	85	0	67	29	23	14	31	1.95
6112330--6112392	21	3.0	21	85	0	81	28	12	25	33	1.92
6118984--6119029	24	1.9	24	82	8	58	41	2	0	56	1.11
6119396--6119491	40	2.4	39	74	6	102	33	15	11	39	1.83
6120351--6120533	60	3.1	59	84	4	224	41	5	21	31	1.76
6120423--6120510	31	3.0	30	69	18	76	43	4	19	32	1.71
6120433--6120534	31	3.4	30	70	10	91	41	4	21	32	1.74
6120774--6120819	20	2.3	21	85	11	69	50	6	0	43	1.28
6123304--6123620	41	7.7	41	80	4	291	29	19	18	32	1.96
6123398--6123632	125	1.9	124	85	4	330	30	19	17	32	1.95
6124285--6124338	24	2.2	24	83	0	72	14	12	24	48	1.79
6124293--6124346	24	2.2	24	90	0	81	14	9	20	55	1.66
6125857--6125931	10	7.7	10	68	21	52	9	10	21	58	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6125863--6125927	16	4.1	16	91	0	112	7	10	23	58	1.57
6125997--6126028	16	2.0	16	93	0	55	9	12	21	56	1.64
6126213--6126296	43	1.9	44	92	2	143	8	8	20	63	1.48
6126213--6126282	21	3.2	21	72	18	63	10	7	17	65	1.44
6128241--6128293	21	2.5	21	87	6	72	30	3	9	56	1.49
6128386--6128740	85	4.2	85	81	5	369	26	19	20	32	1.97
6128386--6128734	128	2.7	128	82	6	370	27	20	20	32	1.97
6128386--6128740	43	8.3	43	81	3	355	26	19	20	32	1.97
6131521--6131641	60	2.0	61	98	1	235	31	18	21	28	1.97
6132555--6132599	21	2.1	21	87	0	63	44	24	0	31	1.54
6132863--6132912	26	2.0	26	84	11	68	48	12	0	40	1.40
6134164--6134201	20	1.9	20	88	0	58	26	15	5	52	1.64
6137261--6137299	20	2.0	20	100	0	78	56	0	5	38	1.22
6137439--6137463	12	2.1	12	100	0	50	68	0	0	32	0.90
6137779--6137868	32	2.8	32	80	9	87	41	26	10	22	1.85
6138927--6139006	30	2.6	30	84	7	99	57	8	13	20	1.62
6141132--6141164	16	2.1	16	88	5	50	54	0	0	45	0.99
6141150--6141204	24	2.3	24	84	6	76	54	1	0	43	1.10
6141160--6141201	21	2.0	20	86	9	57	50	2	0	47	1.14
6146335--6146368	16	2.1	17	88	5	52	44	17	2	35	1.64
6146984--6147056	23	3.3	23	86	3	105	35	27	20	16	1.94
6147126--6147175	21	2.3	21	82	3	55	40	20	14	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6147887--6147936	19	2.6	19	96	0	91	26	26	16	32	1.96
6147966--6148035	35	2.0	35	83	5	88	25	27	15	31	1.96
6150366--6150440	18	4.2	18	87	3	98	28	10	49	12	1.73
6150800--6150902	25	4.1	25	93	0	170	8	3	36	50	1.52
6150978--6151117	34	4.1	34	95	0	244	25	13	11	50	1.75
6151582--6151643	30	2.1	30	90	0	97	25	22	12	38	1.90
6154113--6154146	15	2.3	15	94	0	59	55	0	0	44	0.99
6154112--6154203	42	2.2	42	94	1	159	48	4	2	44	1.34
6158019--6158119	39	2.6	38	81	4	103	30	20	23	24	1.99
6158401--6158487	28	3.1	28	88	1	129	43	3	8	44	1.50
6158813--6158865	25	2.4	21	82	17	63	64	1	3	30	1.22
6158905--6158936	17	1.9	17	93	6	57	40	6	0	53	1.26
6159059--6159211	47	3.3	47	86	8	204	45	3	9	41	1.54
6163977--6164003	13	2.1	13	100	0	54	37	22	25	14	1.93
6166783--6166834	19	2.7	19	90	0	86	32	13	30	23	1.93
6170400--6170857	230	2.0	231	96	3	861	33	15	23	27	1.95
6173810--6173880	22	3.2	22	89	0	106	18	21	32	28	1.96
6173865--6173899	18	1.9	18	94	0	61	17	20	34	28	1.95
6178017--6178059	15	2.9	15	96	0	77	11	30	0	58	1.34
6183931--6183973	21	2.0	21	81	0	50	30	30	25	13	1.94
6184639--6184683	23	2.0	23	86	0	63	20	24	28	26	1.99
6185568--6185792	112	2.0	112	98	0	432	32	20	24	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6187705--6188188	243	2.0	239	98	1	932	26	17	23	32	1.97
6190955--6190997	21	2.0	21	81	0	50	30	30	25	13	1.94
6191669--6191712	22	2.0	22	86	0	61	20	25	27	27	1.99
6198314--6198398	29	2.9	29	92	5	145	16	34	34	15	1.90
6198447--6198555	16	6.7	16	77	4	110	21	8	55	15	1.66
6198437--6198541	33	3.2	33	93	0	174	20	9	53	16	1.70
6199016--6199059	21	2.1	21	86	0	61	31	0	15	52	1.44
6199036--6199090	25	2.2	25	96	0	101	30	0	12	56	1.37
6199062--6199153	47	2.0	45	87	8	132	42	1	8	47	1.41
6199583--6199627	21	2.2	21	84	4	56	35	0	8	55	1.31

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