genome.fa.s1279.2.7.7.80.10.50.1000.26.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

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  26  of  29  ( 3433 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)
6065098--6065153	24	2.3	24	79	11	62	66	14	10	8	1.45
6065114--6065170	25	2.3	24	85	8	71	56	17	14	12	1.68
6070233--6070290	28	2.1	28	100	0	116	29	13	13	43	1.83
6083536--6083670	48	2.8	49	75	10	150	28	19	12	40	1.88
6086369--6086405	20	1.9	19	89	10	58	45	10	24	18	1.81
6089094--6089146	20	2.7	19	80	5	61	37	13	9	39	1.77
6092038--6092094	30	1.9	30	89	3	89	35	8	15	40	1.79
6093069--6093107	16	2.4	16	95	0	69	30	15	28	25	1.96
6093951--6094005	28	1.9	29	82	10	69	23	9	14	52	1.70
6098300--6098373	21	3.5	21	92	0	112	21	24	17	36	1.95
6098363--6098415	20	2.7	20	96	0	97	37	22	20	18	1.94
6098402--6098528	20	6.3	20	87	1	175	29	25	17	26	1.97
6099370--6099423	24	2.2	24	93	0	90	20	18	20	40	1.91
6101843--6101911	20	3.5	19	88	7	93	37	24	20	17	1.93
6101883--6101978	33	2.8	33	90	3	138	43	20	22	12	1.86
6102188--6102224	14	2.6	14	86	0	56	48	21	0	29	1.50
6103604--6103715	42	2.7	42	80	5	120	23	19	36	20	1.95
6104199--6104283	20	4.2	20	89	3	118	40	23	17	18	1.92
6104290--6104341	20	2.6	20	93	0	86	19	21	23	36	1.95
6106297--6106437	20	7.4	20	75	9	116	42	23	17	17	1.88
6106296--6106470	73	2.4	73	94	0	305	44	23	17	15	1.86
6106799--6106864	22	3.0	22	86	0	87	21	15	37	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6107062--6107122	20	3.0	20	90	0	95	21	18	21	39	1.93
6112057--6112119	23	2.8	22	82	2	72	20	22	31	25	1.98
6127483--6127555	37	2.0	37	91	0	119	23	21	17	36	1.94
6130085--6130188	46	2.3	46	83	6	124	33	17	20	28	1.95
6130195--6130252	20	2.6	22	89	10	84	31	20	22	25	1.98
6131018--6131069	18	2.9	18	94	0	95	17	21	32	28	1.96
6135106--6135546	109	4.0	110	88	3	640	30	9	18	42	1.81
6135150--6135546	217	1.8	220	90	2	649	28	8	19	43	1.81
6135614--6135719	41	2.6	41	77	4	106	24	23	19	32	1.98
6136146--6136235	22	4.3	22	73	21	95	51	38	6	3	1.45
6137735--6137776	15	2.9	15	89	10	61	16	0	4	78	0.91
6139265--6139301	18	2.0	20	84	10	51	37	5	0	56	1.22
6146538--6146584	22	2.1	23	88	4	69	40	25	10	23	1.87
6158833--6158878	20	2.3	20	100	0	92	26	19	26	28	1.99
6158833--6158892	20	2.9	20	90	5	75	26	20	25	28	1.99
6160338--6160377	20	2.0	20	85	0	53	35	32	15	17	1.91
6164102--6164131	14	2.1	14	100	0	60	60	0	0	40	0.97
6164322--6164484	83	2.0	83	87	0	236	34	17	9	38	1.83
6164815--6164856	19	2.4	18	81	14	52	54	2	2	40	1.26
6164856--6164905	2	25.0	2	100	0	100	50	0	0	50	1.00
6168009--6168130	41	3.0	40	70	17	97	34	15	18	31	1.92
6170385--6170421	19	2.0	18	89	5	56	35	35	0	29	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6171317--6171391	19	4.1	18	85	11	73	76	0	4	20	0.95
6171316--6171389	6	11.7	6	78	18	71	77	0	4	18	0.93
6171549--6171631	34	2.4	34	78	21	86	40	10	4	43	1.61
6175713--6175766	21	2.6	21	100	0	108	24	16	29	29	1.97
6175755--6175814	22	2.8	22	80	9	72	13	20	25	41	1.88
6176501--6176555	22	2.5	22	87	0	65	40	25	12	21	1.89
6176548--6176595	19	2.5	19	90	6	71	43	18	16	20	1.88
6177321--6177363	20	2.1	21	86	4	61	44	0	0	55	0.99
6179324--6179352	14	2.1	14	100	0	58	51	0	0	48	1.00
6185719--6185749	15	2.1	15	93	0	53	45	0	9	45	1.36
6186112--6186353	51	4.6	51	75	12	218	24	11	16	47	1.80
6186145--6186256	60	1.9	59	83	1	143	25	11	15	48	1.78
6188002--6188105	29	3.5	29	77	12	104	62	7	9	20	1.50
6188002--6188117	29	3.9	29	76	15	103	61	6	11	20	1.52
6189299--6189335	3	12.7	3	88	5	58	62	0	0	37	0.96
6189530--6190046	127	4.1	127	88	1	691	23	19	28	28	1.99
6190181--6190253	38	1.9	38	83	2	94	41	9	19	30	1.83
6190333--6190419	32	2.7	32	83	0	111	34	20	14	29	1.93
6191523--6191562	19	2.0	22	85	14	59	2	17	7	72	1.19
6193232--6193371	8	17.8	8	70	12	67	77	2	2	17	1.02
6193224--6193470	22	10.5	22	67	23	78	74	2	3	20	1.08
6193224--6193473	32	7.9	32	65	19	105	74	2	3	20	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6193239--6193379	39	3.5	38	74	11	95	76	2	2	17	1.03
6193225--6193371	7	19.1	7	73	18	84	77	2	2	17	1.00
6193229--6193403	47	3.6	49	75	15	125	74	2	4	18	1.08
6193345--6193472	28	4.6	27	67	23	70	71	0	3	24	1.08
6193355--6193460	56	1.9	54	83	11	135	67	0	4	26	1.16
6195275--6195595	85	3.8	84	85	2	394	25	17	20	35	1.95
6195724--6195966	64	3.8	65	86	3	327	26	14	21	37	1.92
6195939--6196173	126	1.9	126	92	5	404	27	14	22	35	1.93
6197833--6197916	17	4.8	16	73	16	60	3	13	2	80	0.93
6197844--6197916	6	11.8	6	75	16	53	2	12	2	82	0.89
6197844--6197908	12	5.6	11	75	15	60	3	10	3	83	0.88
6197845--6197904	25	2.3	26	82	5	68	3	11	3	81	0.93
6197832--6197915	42	2.0	42	81	9	100	3	14	2	79	0.96
6197886--6197916	8	3.9	8	95	0	53	0	12	0	87	0.55
6197870--6197921	27	1.9	27	84	7	70	0	13	3	82	0.80
6197858--6197916	10	5.5	10	80	15	57	1	13	1	83	0.81
6200870--6200899	13	2.3	13	94	0	51	70	0	0	30	0.88
6201114--6201247	12	9.8	12	71	23	56	72	0	4	22	1.07
6201132--6201186	23	2.4	23	85	11	69	69	0	5	25	1.10
6201135--6201238	53	1.9	55	81	13	126	69	0	4	25	1.08
6201288--6201314	4	6.8	4	100	0	54	77	0	0	22	0.76
6204296--6204367	37	1.9	37	100	0	144	30	19	19	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6214450--6214712	128	2.0	128	98	0	508	29	12	20	37	1.89
6221738--6221762	12	2.1	12	100	0	50	28	0	8	64	1.22
6224241--6224312	22	3.5	20	75	18	69	31	16	23	27	1.96
6224830--6224897	27	2.5	27	95	0	118	42	11	23	22	1.86
6224857--6225131	47	5.9	47	88	1	401	43	9	22	24	1.83
6224797--6225085	74	4.0	74	73	17	318	43	10	22	24	1.83
6224830--6225122	27	12.2	26	68	24	117	43	9	22	24	1.83
6224858--6225122	141	1.9	141	93	0	458	43	10	22	24	1.84
6224885--6225104	20	9.6	20	65	24	80	43	9	23	23	1.83
6231111--6231171	28	2.2	28	96	0	113	26	16	4	52	1.64
6237132--6237273	47	3.0	48	88	4	216	41	9	22	26	1.85
6237280--6237451	27	7.2	26	65	25	101	44	9	21	25	1.82
6237260--6237457	47	4.2	47	89	0	299	43	9	21	25	1.82
6237237--6237438	94	2.2	90	85	6	257	42	9	22	25	1.84
6237146--6237386	114	2.1	114	90	0	383	41	9	24	25	1.85
6237133--6237433	161	1.9	161	91	1	496	42	9	22	25	1.83
6240306--6240330	13	1.9	13	100	0	50	48	16	0	36	1.46
6242435--6242487	20	2.6	21	84	3	72	32	18	16	32	1.94
6248229--6248307	24	3.5	23	75	19	76	30	17	20	31	1.96
6248210--6248308	44	2.2	44	90	0	153	28	19	22	30	1.98
6248210--6248283	20	3.5	20	73	20	69	25	20	24	29	1.99
6262541--6262580	18	2.2	18	86	0	53	12	27	10	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6262690--6262873	60	3.1	60	79	1	199	27	39	14	19	1.90
6275127--6275170	21	2.0	22	86	4	63	22	31	22	22	1.98
6278393--6278438	24	1.9	24	100	0	92	30	26	23	19	1.98
6279660--6279704	2	23.0	2	82	13	58	46	4	0	48	1.22
6280953--6280996	22	2.0	22	83	12	56	43	20	13	22	1.87
6292539--6292584	16	2.9	16	86	0	65	26	19	21	32	1.97
6294567--6294632	31	2.1	32	88	2	98	24	16	27	31	1.96
6299427--6299476	23	2.2	23	92	0	82	26	26	28	20	1.99
6303626--6303655	2	15.0	2	100	0	60	50	0	0	50	1.00
6308315--6308355	19	2.2	19	100	0	82	39	7	0	53	1.29

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