genome.fa.s8245.2.7.7.80.10.50.1000.30.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  30  of  33  ( 3922 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)
5922036--5922065	13	2.3	13	94	0	51	46	10	3	40	1.54
5922076--5922174	33	3.0	33	94	1	164	45	15	7	32	1.73
5922169--5922208	21	1.9	21	94	0	71	47	7	15	30	1.72
5924499--5924544	12	3.6	12	81	16	56	17	19	17	45	1.85
5924498--5924537	15	2.9	14	85	14	57	20	17	15	47	1.83
5924589--5924628	20	2.0	20	90	0	62	45	20	15	20	1.86
5928306--5928331	2	13.0	2	100	0	52	50	0	0	50	1.00
5929090--5929114	2	12.5	2	100	0	50	52	0	0	48	1.00
5932174--5932293	41	3.0	40	86	4	179	33	15	18	33	1.92
5932174--5932335	82	2.0	81	81	10	188	34	14	16	35	1.88
5940461--5940539	21	3.7	21	70	16	63	41	17	37	2	1.63
5940511--5940561	21	2.4	21	86	0	75	41	19	39	0	1.52
5940895--5941121	43	5.3	42	77	7	154	29	22	21	26	1.99
5941001--5941137	43	3.2	43	81	7	154	25	27	18	28	1.98
5949300--5949340	21	1.9	22	90	5	66	12	21	9	56	1.65
5949973--5950166	95	2.0	95	100	0	388	30	21	14	32	1.94
5954850--5955032	87	2.0	89	89	8	280	32	10	12	44	1.76
5955013--5955038	2	13.0	2	100	0	52	50	0	0	50	1.00
5955680--5955738	22	2.7	21	80	12	66	47	6	0	45	1.29
5955823--5955862	17	2.4	17	87	4	55	52	0	0	47	1.00
5959930--5960544	64	9.6	64	92	0	998	36	21	12	29	1.90
5960627--5961102	124	3.8	124	88	0	700	36	26	14	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5961166--5961327	85	1.9	84	88	1	243	31	20	21	26	1.98
5963582--5963714	65	2.0	65	100	0	266	30	27	19	22	1.98
5969351--5969425	26	2.9	26	93	0	123	41	18	12	28	1.86
5969570--5969677	49	2.2	49	83	3	128	16	29	29	24	1.97
5969815--5969855	20	2.1	19	90	4	64	31	26	0	41	1.56
5969817--5969856	10	4.0	10	84	12	55	32	27	0	40	1.57
5972089--5972153	18	3.4	18	84	12	85	30	23	35	10	1.89
5972086--5972146	21	2.9	21	92	0	104	27	22	37	11	1.89
5972364--5972446	35	2.4	34	81	18	100	25	9	9	55	1.62
5976051--5976154	51	2.0	50	81	7	120	26	28	26	17	1.97
5979561--5979610	25	2.0	25	84	0	64	34	10	4	52	1.54
5980273--5980313	19	2.3	18	91	8	66	46	4	0	48	1.23
5984122--5984486	184	2.0	178	88	4	543	41	2	9	46	1.50
5984492--5984525	9	3.7	9	96	4	59	23	8	17	50	1.74
5987594--5987642	3	16.3	3	100	0	98	67	32	0	0	0.91
5987641--5987678	3	12.7	3	100	0	76	68	0	0	31	0.90
5987715--5987766	26	2.0	26	88	0	77	13	15	17	53	1.72
5987717--5987772	26	2.2	26	83	0	67	14	17	16	51	1.76
5992314--5992398	24	3.5	24	85	0	107	25	12	17	43	1.85
5997154--5997224	24	3.0	24	87	0	97	25	15	18	40	1.89
5997155--5997239	24	3.5	24	80	3	91	24	12	18	43	1.86
5998437--5998561	55	2.2	58	91	5	202	19	11	9	60	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5998437--5998607	59	3.0	57	84	10	188	18	12	8	60	1.57
5998431--5998687	30	8.8	29	76	9	188	18	11	9	60	1.58
6002325--6002416	19	4.7	20	71	16	59	69	7	17	5	1.31
6002365--6002420	13	4.3	13	79	20	55	73	7	16	3	1.20
6003450--6003518	33	2.1	33	86	0	93	31	13	21	33	1.92
6003750--6003784	14	2.5	14	100	0	70	45	5	17	31	1.71
6003904--6004261	131	2.7	131	81	5	373	26	31	15	25	1.96
6004916--6004952	19	2.0	18	89	5	56	78	2	2	16	0.98
6006009--6006063	21	2.5	22	76	5	58	21	23	20	34	1.97
6006052--6006103	20	2.6	20	87	6	70	34	19	23	23	1.96
6006264--6006320	22	2.6	22	82	0	69	26	35	17	21	1.95
6008662--6008727	20	3.3	20	89	0	96	37	19	21	21	1.94
6009332--6009412	42	1.9	42	82	5	101	22	38	18	20	1.94
6010797--6010858	14	4.3	14	73	6	52	40	0	14	45	1.45
6010957--6011010	20	2.7	20	79	0	54	46	24	16	12	1.82
6011053--6011317	20	13.9	20	77	10	259	26	18	22	32	1.97
6011013--6011232	94	2.3	94	88	0	323	24	19	22	33	1.97
6011093--6011305	54	3.8	54	77	10	223	24	17	23	33	1.96
6011073--6011211	74	1.9	74	87	3	208	25	18	23	32	1.97
6011053--6011317	114	2.3	114	84	5	347	26	18	22	32	1.97
6011288--6011557	140	1.9	140	96	0	504	42	15	12	29	1.84
6014808--6014904	20	4.8	20	96	0	176	25	19	15	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6014893--6014945	22	2.5	21	81	6	63	28	20	28	22	1.99
6015265--6015332	3	22.7	3	94	5	120	66	0	0	33	0.92
6018232--6018283	20	2.6	21	74	17	56	28	15	26	28	1.96
6018487--6018739	126	2.0	126	100	0	506	36	11	27	24	1.89
6018918--6018949	2	15.5	2	93	6	55	46	0	3	50	1.17
6022342--6022384	21	2.0	21	90	0	68	39	13	23	23	1.90
6022373--6022487	20	5.7	20	81	6	124	33	26	17	21	1.96
6022370--6022507	41	3.4	41	83	2	188	36	25	16	21	1.94
6022674--6022717	22	2.0	22	95	0	79	22	43	13	20	1.87
6022996--6023038	20	2.2	20	91	0	68	9	18	20	51	1.74
6024359--6024406	18	2.7	18	93	0	87	27	45	12	14	1.81
6024947--6024992	20	2.3	20	84	0	56	36	23	21	17	1.94
6024958--6025012	20	2.8	19	78	10	58	40	20	21	18	1.92
6025056--6025233	20	9.7	19	79	13	115	14	21	22	42	1.88
6025082--6025138	14	3.7	14	75	20	60	10	15	22	50	1.74
6025061--6025154	33	2.8	33	100	0	188	12	19	21	46	1.82
6025127--6025253	20	6.4	20	86	0	148	17	21	24	37	1.94
6025601--6025689	42	2.1	42	87	0	124	23	42	14	19	1.88
6027099--6027137	14	2.8	14	84	0	51	35	0	17	46	1.49
6027300--6027347	20	2.4	20	96	0	87	14	20	29	35	1.93
6027579--6027747	20	8.4	20	86	6	209	26	19	27	27	1.99
6027635--6027769	41	3.3	42	83	5	127	23	20	25	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6027985--6028018	12	2.9	12	86	4	52	17	41	5	35	1.74
6028802--6028831	9	3.3	9	90	0	51	73	0	26	0	0.84
6029407--6029498	19	5.4	18	68	24	74	46	17	20	15	1.84
6029407--6029507	33	3.1	33	94	0	175	46	16	20	15	1.84
6030026--6030147	20	6.8	19	72	20	111	45	19	22	11	1.82
6030075--6030130	14	3.6	14	74	21	58	42	23	25	8	1.82
6030026--6030147	33	3.5	33	87	7	163	45	19	22	11	1.82
6030148--6030232	19	4.7	19	71	20	65	10	20	22	47	1.80
6030161--6030226	33	2.0	34	88	8	100	10	22	22	43	1.84
6030741--6030811	20	3.5	20	80	1	79	19	19	18	42	1.90
6030813--6030866	20	2.6	21	79	5	65	44	14	20	20	1.86
6030804--6030876	21	3.5	21	77	3	67	36	16	21	24	1.94
6030888--6030919	16	2.0	16	100	0	64	18	25	18	37	1.94
6030943--6030995	21	2.5	22	81	6	74	33	18	26	20	1.96
6031933--6031986	23	2.4	22	81	6	63	48	7	0	44	1.31
6032315--6032355	20	2.0	21	86	13	59	51	0	9	39	1.35
6034542--6034727	60	3.1	60	84	3	266	25	33	9	32	1.87
6036273--6036324	21	2.5	21	81	3	61	38	19	25	17	1.93
6036313--6036427	20	5.7	20	78	6	97	32	25	17	25	1.97
6036615--6036658	22	2.0	22	90	0	70	20	43	15	20	1.88
6037180--6037215	14	2.6	14	90	0	54	30	2	22	44	1.67
6037332--6037380	19	2.6	19	96	0	89	51	16	18	14	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6037419--6037456	20	1.9	20	94	0	67	15	18	26	39	1.91
6038513--6038566	24	2.2	24	90	0	81	24	16	20	38	1.92
6038741--6038765	12	2.1	12	100	0	50	72	0	28	0	0.86
6041058--6041155	19	5.7	19	69	22	90	43	19	24	12	1.85
6041058--6041151	33	2.8	33	98	0	179	43	19	24	12	1.85
6041151--6041193	20	2.2	20	87	4	61	16	18	23	41	1.89
6041179--6041212	14	2.4	14	85	0	50	8	23	20	47	1.78
6041334--6041370	14	2.6	14	91	0	65	45	24	0	29	1.53
6042766--6042845	42	1.9	42	84	0	106	22	17	38	21	1.93
6044879--6044976	33	2.9	33	86	1	133	39	25	22	12	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