genome.fa.s9175.2.7.7.80.10.50.1000.31.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  31  of  51  ( 6037 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)
6275262--6275313	3	17.7	3	88	11	81	34	0	0	65	0.93
6277019--6277053	18	1.9	18	88	0	52	42	5	0	51	1.25
6280396--6280428	16	2.0	17	88	5	50	57	0	3	39	1.14
6281077--6281269	30	6.9	29	69	19	97	39	7	1	51	1.38
6281122--6281177	24	2.4	24	82	11	71	37	8	1	51	1.44
6281104--6281177	25	2.9	25	77	16	80	37	8	1	52	1.40
6281156--6281261	30	3.6	30	83	5	128	40	8	0	50	1.39
6281427--6281538	30	3.8	30	75	12	99	53	0	5	40	1.30
6281434--6281538	29	3.6	29	76	13	99	53	0	5	40	1.31
6286306--6286388	23	3.6	23	88	3	114	28	26	25	19	1.98
6293292--6293353	23	2.8	23	75	4	74	30	22	24	22	1.99
6294005--6294166	63	2.6	65	83	8	192	25	19	19	35	1.95
6295202--6295260	21	2.8	21	86	0	82	49	20	6	23	1.73
6298625--6298936	41	7.6	40	82	3	315	38	17	17	26	1.92
6298625--6298936	82	3.8	82	83	2	351	38	17	17	26	1.92
6298625--6298936	123	2.5	122	83	4	378	38	17	17	26	1.92
6299878--6299969	31	3.1	31	76	14	104	57	0	0	42	0.98
6299875--6299928	26	2.0	27	86	10	76	59	0	0	40	0.98
6299886--6299929	19	2.2	20	84	4	54	65	0	0	34	0.93
6300342--6300393	27	1.9	27	100	0	104	34	23	19	23	1.96
6304137--6304171	16	2.2	16	90	5	54	17	8	14	60	1.58
6311747--6311802	15	3.8	15	88	4	78	80	0	10	8	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6311770--6311809	8	5.1	8	84	6	55	85	0	12	2	0.71
6311749--6311788	21	1.9	21	85	10	55	77	0	10	12	0.99
6311746--6311802	29	2.0	29	85	0	78	78	0	12	8	0.95
6313702--6314154	233	1.9	233	90	1	721	30	16	17	34	1.93
6314248--6314538	110	2.6	110	83	3	352	31	23	16	29	1.96
6318687--6318771	3	29.0	3	81	9	95	29	3	2	64	1.22
6318789--6318824	18	1.9	19	88	5	56	30	33	22	13	1.93
6320105--6320178	37	2.0	37	94	0	130	32	18	12	36	1.88
6325484--6325538	21	2.5	22	97	2	103	14	23	43	18	1.87
6325878--6325939	21	2.8	22	85	11	74	27	29	0	43	1.55
6326181--6326245	33	2.0	31	82	11	78	53	24	0	21	1.46
6326497--6326523	12	2.2	12	100	0	54	0	44	29	25	1.54
6328151--6328190	21	1.9	21	89	0	62	10	25	40	25	1.86
6328173--6328233	20	2.9	21	85	7	70	16	26	32	24	1.96
6333921--6333959	20	2.0	20	94	0	69	12	25	41	20	1.88
6336523--6337598	538	2.0	537	98	0	2073	33	18	13	33	1.91
6340597--6340636	21	1.9	21	84	0	53	40	17	5	37	1.72
6341437--6341471	11	3.2	11	91	0	61	51	0	20	28	1.47
6344600--6344649	25	2.0	25	88	7	75	36	6	4	54	1.44
6345066--6345141	38	2.0	38	89	5	118	42	23	7	26	1.81
6345438--6345496	25	2.4	25	100	0	118	33	6	3	55	1.43
6347712--6347757	24	1.9	24	86	0	65	21	28	36	13	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6357464--6357522	3	19.7	3	82	6	75	37	0	1	61	1.07
6358925--6358976	2	26.5	2	96	3	97	50	0	0	50	1.00
6358925--6358993	12	5.1	14	84	11	74	49	0	0	50	1.00
6358929--6358995	18	4.0	17	90	7	77	47	0	0	52	1.00
6359248--6359283	17	2.1	18	89	5	56	55	0	0	44	0.99
6359223--6359273	25	2.0	27	92	7	88	60	1	0	37	1.08
6360848--6360898	23	2.2	23	89	6	77	31	11	45	11	1.77
6361133--6361204	3	24.0	3	85	5	101	62	0	1	36	1.04
6362910--6362968	17	3.4	17	70	25	59	22	23	8	45	1.79
6362827--6363106	120	2.3	121	88	1	400	25	17	16	41	1.90
6363121--6363274	73	2.1	73	91	0	245	36	10	18	35	1.85
6363145--6363271	36	3.5	36	77	2	146	38	11	18	32	1.85
6363788--6363817	12	2.5	12	100	0	60	30	16	16	36	1.91
6364382--6364490	54	2.0	54	91	3	175	29	23	9	37	1.86
6370181--6370241	21	2.8	21	95	5	104	19	27	26	26	1.99
6370202--6370278	38	2.0	38	87	0	109	23	25	23	27	2.00
6373706--6373773	20	3.3	20	70	11	57	60	10	11	17	1.58
6373852--6373935	43	1.9	44	85	2	116	33	23	10	32	1.89
6375279--6375315	2	18.5	2	94	0	65	48	0	0	51	1.00
6375453--6375477	11	2.3	11	100	0	50	72	0	0	28	0.86
6379835--6379917	40	2.1	40	82	4	98	39	12	16	31	1.85
6380724--6380761	3	13.0	3	88	5	51	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6383068--6383111	17	2.4	17	82	14	52	25	2	0	72	0.96
6383069--6383116	19	2.5	18	78	21	53	22	2	0	75	0.91
6384522--6384563	7	6.0	7	81	8	50	14	16	14	54	1.71
6384522--6384563	15	3.0	14	83	10	50	14	16	14	54	1.71
6384622--6384674	12	4.2	12	77	13	61	22	13	9	54	1.67
6384623--6384674	27	1.9	27	92	0	86	21	13	9	55	1.66
6387411--6387555	7	18.3	7	70	25	71	75	1	17	5	1.06
6387407--6387510	27	3.7	28	78	11	99	75	1	15	6	1.09
6387441--6387555	16	7.2	15	74	20	92	77	0	17	5	0.95
6387441--6387549	34	3.3	33	85	7	136	77	0	17	5	0.96
6387437--6387549	9	13.1	9	72	16	80	76	0	17	5	0.96
6387443--6387510	10	7.6	9	75	18	54	77	0	14	7	0.96
6389704--6389923	114	1.9	114	94	0	386	33	15	21	30	1.94
6390874--6390940	35	1.9	35	87	6	100	31	11	23	32	1.91
6392487--6392565	22	3.6	22	87	3	106	32	15	13	37	1.87
6392984--6394107	113	9.8	113	89	2	1391	38	14	18	28	1.90
6394308--6394345	3	13.0	3	88	5	51	39	0	0	60	0.97
6395637--6395707	15	4.6	15	69	19	56	26	5	1	66	1.22
6395672--6395747	11	6.5	11	70	20	50	28	3	3	63	1.30
6397520--6397608	2	45.0	2	97	2	171	49	0	0	50	1.00
6397944--6397978	13	2.7	13	86	0	52	48	25	2	22	1.64
6401634--6401771	68	2.0	68	100	0	276	25	18	13	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6408509--6408659	72	2.1	74	91	3	243	31	1	12	54	1.46
6415117--6415165	6	8.0	6	81	4	62	14	2	4	79	0.97
6415120--6415167	25	1.9	25	95	0	87	12	4	4	79	1.02
6415286--6415333	21	2.2	23	81	7	55	56	8	20	14	1.64
6421538--6421758	95	2.3	94	85	3	291	35	16	22	25	1.95
6422899--6422939	16	2.6	16	88	3	57	36	12	21	29	1.90
6423486--6423581	21	4.6	21	72	0	75	39	19	15	25	1.91
6425197--6425424	79	2.9	78	86	5	300	35	12	22	29	1.90
6425658--6425747	29	3.1	29	93	0	153	42	6	25	25	1.79
6425886--6425914	2	14.5	2	100	0	58	51	0	0	48	1.00
6430534--6430596	6	10.5	6	100	0	126	49	0	50	0	1.00
6432084--6432219	34	3.9	34	77	12	157	36	11	25	27	1.90
6432028--6432224	73	2.6	76	88	6	276	36	9	24	28	1.87
6432501--6432561	29	2.1	29	93	0	104	42	8	26	22	1.81
6432700--6432728	2	14.5	2	100	0	58	51	0	0	48	1.00
6439991--6440061	24	2.9	24	91	2	97	39	14	18	28	1.89
6440006--6440061	24	2.3	24	100	0	112	37	16	17	28	1.91
6440762--6440799	16	2.4	16	86	4	51	28	23	10	36	1.88
6443236--6443287	24	2.2	24	82	6	61	38	19	11	30	1.87
6443957--6443981	8	3.1	8	100	0	50	0	0	28	72	0.86
6455325--6455367	16	2.6	17	77	7	52	72	0	2	25	0.97
6455320--6455373	27	1.9	29	85	7	76	72	0	3	24	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6455319--6455358	21	2.0	21	90	5	64	75	0	5	20	0.99
6462620--6462714	36	2.7	36	80	6	113	28	21	13	36	1.91
6462730--6462884	66	2.4	65	79	7	163	23	20	14	41	1.89
6462890--6463150	131	2.0	131	84	1	344	27	32	16	24	1.96
6462910--6463245	131	2.5	131	81	2	332	27	32	15	25	1.96
6467944--6468303	82	4.4	82	86	3	474	35	14	15	33	1.89
6481714--6481945	55	4.2	54	83	4	288	34	23	13	28	1.93
6481714--6481945	110	2.1	110	88	3	342	34	23	13	28	1.93
6483276--6483350	6	12.2	6	71	20	57	2	20	0	77	0.89
6483307--6483336	11	2.7	11	100	0	60	0	23	0	76	0.78

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   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51