genome.fa.s9605.2.7.7.80.10.50.1000.26.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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   

This is table  26  of  35  ( 4090 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)
6135817--6135895	22	3.6	22	79	5	97	24	25	25	25	2.00
6135820--6135914	21	4.4	21	77	9	86	24	22	26	27	2.00
6141296--6141348	20	2.7	20	94	2	90	18	18	30	32	1.96
6141252--6141412	83	1.9	83	83	8	211	24	17	26	31	1.97
6143820--6143863	21	2.1	21	83	4	54	20	31	0	47	1.50
6163115--6163175	26	2.3	26	91	0	104	39	4	11	44	1.62
6163299--6163534	83	2.8	83	88	1	348	38	3	11	47	1.56
6164236--6164307	20	3.5	19	68	20	56	50	0	1	48	1.09
6164239--6164313	23	3.5	22	71	15	75	50	0	1	48	1.09
6164250--6164314	11	6.2	11	70	21	50	52	0	1	46	1.10
6164487--6164551	23	2.9	23	88	2	87	55	0	0	44	0.99
6164508--6164578	31	2.3	31	85	11	92	60	0	1	38	1.06
6167387--6167440	22	2.5	22	81	9	65	35	20	11	33	1.88
6172408--6172476	23	3.0	22	75	8	66	33	24	21	20	1.97
6174038--6174075	20	1.9	20	88	0	58	26	21	18	34	1.96
6177703--6177766	23	2.8	23	80	0	83	32	25	25	17	1.96
6178213--6178237	2	12.5	2	100	0	50	48	0	0	52	1.00
6179323--6179380	20	2.7	20	81	10	62	27	20	18	32	1.97
6179368--6179529	64	2.5	62	80	8	182	27	25	16	30	1.97
6179690--6179726	17	2.2	17	100	0	74	29	18	0	51	1.47
6182045--6182073	2	14.5	2	100	0	58	48	0	0	51	1.00
6184049--6184088	19	2.2	19	90	4	64	32	10	2	55	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6184532--6184567	16	2.2	17	90	5	56	55	16	0	27	1.42
6185043--6185075	14	2.3	15	89	5	50	24	36	3	36	1.71
6186359--6186406	16	2.9	15	81	12	51	58	4	0	37	1.18
6186444--6186499	3	18.7	3	92	0	85	60	0	3	35	1.14
6187476--6187563	29	3.1	27	73	9	77	50	0	3	46	1.18
6190662--6190735	37	2.0	37	100	0	148	40	10	18	29	1.85
6199162--6199216	13	4.2	13	83	0	74	27	20	16	36	1.93
6205157--6205237	21	3.8	21	80	15	85	45	24	7	22	1.77
6205153--6205241	44	2.0	44	86	4	126	43	25	6	23	1.78
6207931--6208000	28	2.4	28	72	13	70	21	12	8	57	1.62
6210865--6210939	13	5.5	14	68	15	50	21	14	12	52	1.74
6212295--6212369	1	75.0	1	72	0	60	86	1	10	1	0.69
6212295--6212367	9	7.9	9	82	13	87	86	1	10	1	0.70
6212295--6212381	28	3.1	27	82	12	90	83	1	13	1	0.75
6212295--6212369	17	4.6	16	79	15	75	86	1	10	1	0.69
6212295--6212369	22	3.4	21	83	12	80	86	1	10	1	0.69
6212295--6212369	14	5.4	14	80	3	89	86	1	10	1	0.69
6212317--6212381	10	5.8	12	78	14	50	84	1	13	0	0.69
6212295--6212390	22	4.3	22	79	10	79	83	1	12	3	0.82
6212293--6212390	45	2.2	46	81	5	119	82	1	12	4	0.85
6214092--6214144	2	26.5	2	92	0	88	50	45	0	3	1.19
6214238--6214265	2	14.0	2	100	0	56	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6214117--6214358	120	2.0	121	97	0	459	47	22	12	16	1.80
6214443--6214727	108	2.6	109	83	2	322	34	9	13	43	1.76
6214451--6214727	55	5.1	55	84	2	308	33	9	12	43	1.76
6214972--6215188	58	3.7	59	71	10	178	32	11	19	36	1.88
6214921--6215188	116	2.3	114	91	1	428	30	12	19	37	1.89
6216185--6216346	42	3.8	42	76	8	150	30	19	18	31	1.96
6216338--6217000	136	4.9	136	78	7	642	34	17	21	26	1.95
6216307--6217000	276	2.5	274	86	3	914	34	17	21	26	1.95
6216916--6217300	116	3.3	115	78	8	404	37	15	21	24	1.93
6222513--6222560	19	2.5	20	82	3	62	52	6	12	29	1.63
6223800--6223859	29	2.0	31	90	6	97	35	6	16	41	1.75
6224058--6224099	21	2.0	21	90	0	66	26	16	26	30	1.97
6227508--6227574	23	3.0	23	83	14	95	43	26	5	23	1.77
6234301--6234380	21	3.7	21	76	12	72	47	21	8	22	1.78
6234297--6234384	44	2.0	44	86	0	122	45	22	7	23	1.79
6240993--6241033	21	2.0	21	95	0	73	43	21	9	24	1.83
6243259--6243379	59	2.1	59	88	0	179	22	15	23	38	1.93
6244912--6244957	19	2.3	20	88	3	67	34	15	6	43	1.72
6244912--6244960	20	2.5	19	90	3	71	32	14	6	46	1.69
6245481--6245528	18	2.7	18	84	15	64	16	14	0	68	1.21
6245491--6245526	9	4.0	9	89	10	56	13	19	0	66	1.24
6245491--6245524	13	2.5	14	85	9	52	14	20	0	64	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6250100--6250137	20	2.0	20	89	5	60	31	15	10	42	1.81
6251051--6251101	20	2.6	20	90	3	77	37	9	5	47	1.61
6257252--6257290	14	2.7	14	84	4	51	28	10	25	35	1.89
6259273--6259316	18	2.4	18	92	0	70	31	36	11	20	1.88
6265955--6265987	13	2.3	15	90	10	52	0	24	0	75	0.80
6265955--6265995	14	3.0	14	83	13	50	2	21	0	75	0.92
6265955--6265996	19	2.3	18	88	12	59	2	21	0	76	0.90
6265993--6266042	25	2.0	25	88	7	75	12	10	16	62	1.55
6274224--6274270	19	2.6	18	89	3	67	80	2	14	2	0.89
6274224--6274270	6	7.7	6	88	4	67	80	2	14	2	0.89
6278331--6278443	49	2.3	50	87	3	156	30	19	13	37	1.90
6284835--6284941	56	2.0	52	83	8	135	30	18	6	43	1.75
6288269--6288301	12	2.6	13	85	4	50	15	21	0	63	1.30
6310053--6310086	16	2.2	16	89	5	52	0	20	0	79	0.73
6313355--6313444	45	2.0	45	100	0	180	28	20	20	31	1.97
6314586--6314621	17	2.0	18	89	10	56	61	0	27	11	1.30
6314832--6314886	13	3.8	14	76	21	51	5	10	3	80	1.01
6317043--6317087	19	2.4	19	96	0	81	22	28	20	28	1.98
6326735--6326774	19	2.1	19	100	0	80	32	10	37	20	1.85
6332985--6333050	27	2.4	26	80	14	71	7	13	10	68	1.39
6332978--6333050	28	2.6	27	77	16	78	6	15	9	68	1.37
6347092--6347154	28	2.3	27	82	12	76	9	17	11	61	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6350659--6350699	14	3.0	14	89	3	57	36	0	41	21	1.54
6361847--6361899	24	2.3	24	83	6	65	9	16	13	60	1.58
6364520--6364585	5	13.0	5	73	20	57	16	22	0	60	1.35
6364520--6364576	9	5.9	9	82	10	60	15	24	0	59	1.36
6364531--6364597	21	3.0	22	78	12	75	19	19	0	61	1.35
6366960--6367028	33	2.1	33	83	5	86	31	1	36	30	1.67
6371004--6371041	14	2.8	13	88	7	58	0	18	2	78	0.86
6371075--6371106	16	2.0	16	100	0	64	37	37	6	18	1.76
6371410--6371478	33	2.1	33	83	5	86	31	1	36	30	1.67
6375452--6375489	14	2.8	13	88	7	58	0	18	2	78	0.86
6375523--6375554	16	2.0	16	100	0	64	37	37	6	18	1.76
6375861--6375929	33	2.1	33	83	5	86	31	1	36	30	1.67
6378215--6378419	102	2.0	102	99	0	401	29	12	16	41	1.84
6380515--6380585	17	4.1	17	89	7	99	42	8	9	39	1.69
6383595--6383645	17	3.0	17	82	5	59	39	7	13	39	1.74
6387280--6387330	17	3.0	17	82	5	59	39	7	13	39	1.74
6390120--6390181	17	3.6	16	79	12	70	40	11	12	35	1.80
6390114--6390181	34	2.0	35	85	8	95	41	10	11	36	1.76
6390114--6390194	35	2.4	34	81	10	85	41	8	13	35	1.75
6393679--6393718	20	2.0	20	90	0	62	37	22	20	20	1.94
6400013--6400129	62	1.9	61	81	8	139	19	19	19	41	1.91
6402539--6402579	17	2.4	17	91	0	64	41	14	14	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6403718--6403799	40	2.0	40	95	0	146	34	25	15	24	1.95
6404495--6404558	29	2.2	30	82	5	85	32	23	6	37	1.80
6404708--6404752	11	4.1	11	82	5	56	71	4	11	13	1.29
6404708--6404749	22	1.9	22	90	9	68	69	4	11	14	1.34
6409263--6409307	11	4.1	11	82	5	56	71	4	11	13	1.29
6409263--6409304	22	1.9	22	90	9	68	69	4	11	14	1.34
6417535--6417598	29	2.2	29	80	5	76	37	6	20	35	1.78
6418289--6418370	40	2.0	40	95	0	146	24	15	25	34	1.95
6420645--6420696	17	3.1	17	100	0	104	40	17	13	28	1.87
6426054--6426121	20	3.3	20	71	18	68	29	4	10	55	1.52

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