genome.fa.s8087.2.7.7.80.10.50.1000.28.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  28  of  37  ( 4336 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)
6527769--6527803	18	1.9	18	100	0	70	28	34	22	14	1.93
6530671--6531108	55	8.1	54	84	6	437	30	23	16	28	1.96
6530671--6531095	165	2.6	163	82	7	495	30	23	16	29	1.97
6531402--6531436	17	2.1	17	89	10	54	28	25	2	42	1.69
6532447--6532591	58	2.4	61	76	19	142	7	22	0	69	1.18
6532523--6532583	24	2.6	22	77	12	59	8	22	0	68	1.15
6541251--6541369	45	2.6	45	95	0	220	34	24	11	29	1.91
6545653--6545695	7	6.1	7	97	0	77	46	0	53	0	1.00
6545653--6545705	14	3.8	14	92	0	70	50	0	49	0	1.00
6545656--6545703	21	2.3	21	88	0	69	50	0	50	0	1.00
6546951--6547065	33	3.5	33	100	0	230	52	3	5	39	1.41
6548109--6548190	42	2.0	42	92	0	137	21	21	19	36	1.95
6551345--6551631	43	6.7	43	68	10	147	25	17	23	33	1.96
6551619--6551763	43	3.4	43	89	4	197	28	21	21	28	1.98
6554935--6555016	22	3.7	22	95	0	146	28	31	25	14	1.95
6555010--6555044	18	1.9	18	88	0	52	31	31	14	22	1.94
6555596--6555757	65	2.5	63	82	12	172	26	19	20	33	1.97
6556438--6556479	2	21.0	2	100	0	84	50	0	0	50	1.00
6561820--6561890	18	3.7	18	89	10	106	26	32	25	15	1.95
6569943--6570045	21	4.9	21	96	0	179	32	27	26	14	1.95
6570849--6570906	20	2.9	20	92	5	91	24	22	20	32	1.98
6572313--6572459	41	3.6	41	73	7	120	31	16	19	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6572295--6572454	82	2.0	82	87	5	234	33	14	18	34	1.91
6573962--6574098	42	3.3	42	82	7	165	24	23	16	35	1.95
6573962--6574112	41	3.6	42	84	2	173	26	23	17	33	1.96
6574050--6574140	41	2.2	41	78	9	96	23	25	21	29	1.99
6581960--6582159	99	2.0	99	99	0	391	31	19	22	27	1.98
6584476--6584565	31	3.0	31	67	20	73	33	18	3	44	1.67
6584553--6584618	30	2.3	30	86	5	91	30	25	4	39	1.76
6589447--6589486	21	1.9	21	85	10	55	35	10	2	52	1.48
6592417--6592442	12	2.2	12	100	0	52	0	38	34	26	1.57
6594090--6594150	20	2.9	21	90	7	88	18	24	34	22	1.96
6599750--6599813	23	2.8	23	85	0	83	29	26	25	18	1.98
6599829--6600144	103	3.1	103	94	0	560	36	23	13	26	1.92
6604453--6604490	20	1.9	20	94	0	67	34	21	21	23	1.97
6604918--6604968	19	2.6	19	87	9	68	35	23	13	27	1.93
6604977--6605060	20	4.2	20	90	0	114	46	23	14	15	1.82
6604977--6605071	40	2.3	40	85	5	120	44	24	14	16	1.86
6604977--6605073	20	4.8	20	88	3	108	44	23	15	16	1.86
6606022--6606127	41	2.6	41	88	4	153	21	17	22	37	1.94
6606022--6606115	40	2.3	40	90	1	143	24	17	22	36	1.95
6606057--6606173	21	5.8	20	72	13	87	21	17	24	35	1.95
6606630--6606696	30	2.2	30	89	0	98	25	19	23	31	1.98
6610741--6610834	42	2.3	40	83	7	109	34	28	12	24	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6610870--6610977	20	5.4	20	98	0	207	24	30	25	19	1.98
6610993--6611042	20	2.5	20	90	0	73	34	28	10	28	1.89
6611233--6611306	20	3.7	20	74	3	60	29	24	17	28	1.97
6611262--6611372	47	2.4	47	85	0	141	30	23	15	30	1.95
6611282--6611373	27	3.7	27	70	19	81	31	22	15	30	1.95
6611320--6611358	20	2.0	20	89	0	60	35	23	7	33	1.83
6611550--6611594	20	2.2	20	88	0	63	28	11	28	31	1.91
6611597--6611641	20	2.2	20	92	0	72	33	15	22	28	1.95
6611665--6611703	20	1.9	21	94	5	71	33	10	20	35	1.86
6611671--6611726	20	2.8	20	86	0	67	30	8	28	32	1.88
6611935--6611980	20	2.3	20	96	0	83	43	23	15	17	1.87
6612519--6612581	20	3.2	20	84	2	74	15	17	20	46	1.85
6612529--6612585	20	2.8	20	86	0	78	15	17	17	49	1.81
6614527--6614564	4	9.5	4	88	0	58	26	0	2	71	1.00
6614708--6614805	21	4.6	22	77	15	100	22	32	18	26	1.97
6616423--6616477	20	2.8	20	83	10	76	10	16	21	50	1.75
6616686--6616721	18	2.0	18	94	0	63	16	2	25	55	1.55
6619396--6619438	15	2.8	16	82	7	61	27	30	25	16	1.97
6619667--6619700	12	2.8	12	90	0	50	14	2	23	58	1.50
6620295--6620332	16	2.5	15	84	12	51	65	0	5	28	1.14
6620493--6620609	40	2.9	41	81	7	143	36	11	23	28	1.90
6620580--6620649	20	3.5	20	82	5	79	31	11	28	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6620573--6620696	61	2.0	61	80	9	137	32	10	27	29	1.90
6620757--6620838	40	2.0	40	93	4	139	26	14	14	43	1.84
6623076--6623153	34	2.3	33	100	0	138	50	10	16	23	1.76
6630477--6630506	2	15.0	2	100	0	60	50	0	0	50	1.00
6631534--6631571	2	19.0	2	94	0	67	47	0	2	50	1.15
6631653--6631704	25	2.0	28	85	11	74	46	5	3	44	1.45
6632140--6632169	2	15.0	2	100	0	60	0	50	0	50	1.00
6638702--6638744	15	2.9	15	100	0	86	62	0	37	0	0.95
6638894--6638922	10	3.0	10	95	5	51	48	0	0	51	1.00
6639024--6639101	33	2.3	33	82	2	93	42	0	7	50	1.31
6641573--6641640	18	3.9	17	76	16	77	25	19	32	23	1.97
6641862--6641901	21	1.9	21	85	10	55	52	7	10	30	1.62
6644892--6644929	20	1.9	20	88	0	58	28	23	31	15	1.96
6644953--6645036	19	4.6	19	77	15	88	23	20	33	22	1.97
6644948--6645015	34	2.0	34	88	5	102	23	20	33	22	1.97
6646356--6646414	17	3.3	17	80	13	73	52	6	0	40	1.28
6647349--6647453	28	3.7	28	93	3	167	15	27	39	18	1.90
6647701--6647741	19	2.2	19	100	0	82	39	0	4	56	1.21
6655462--6655615	60	2.5	60	85	9	215	31	22	4	41	1.74
6655468--6655561	29	3.2	29	67	24	70	36	19	2	42	1.63
6655736--6655853	60	2.0	60	84	3	157	38	3	27	31	1.73
6656493--6656529	19	1.9	19	89	10	58	59	5	0	35	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6664339--6664432	29	3.2	29	83	11	111	38	11	6	43	1.67
6664388--6664443	29	2.0	28	85	3	76	42	14	3	39	1.63
6666473--6666542	19	3.6	19	86	7	79	35	18	17	28	1.93
6667295--6667328	12	2.8	12	90	0	50	55	29	0	14	1.40
6667454--6667507	24	2.2	24	93	0	90	20	18	20	40	1.91
6669763--6669798	18	2.0	18	94	0	63	55	25	2	16	1.55
6670084--6670122	20	2.0	20	94	0	69	38	28	17	15	1.91
6670598--6670634	18	2.1	18	89	0	56	32	5	10	51	1.60
6670590--6670642	24	2.2	24	86	0	70	35	3	13	47	1.61
6670946--6671032	39	2.2	39	97	0	165	47	20	14	17	1.83
6671802--6671904	21	4.9	21	69	9	84	21	19	33	26	1.97
6671802--6671904	42	2.5	42	80	6	127	21	19	33	26	1.97
6672308--6672357	21	2.4	21	86	0	73	36	32	14	18	1.90
6674327--6674370	22	2.1	21	91	8	72	29	13	34	22	1.93
6674333--6674383	22	2.3	22	93	0	84	25	13	37	23	1.92
6674511--6674639	20	6.4	20	88	0	141	18	17	21	42	1.89
6674511--6674650	40	3.5	40	78	1	165	17	17	22	42	1.89
6674511--6674650	60	2.3	60	86	0	190	17	17	22	42	1.89
6687845--6687945	42	2.4	42	89	0	148	28	7	14	48	1.72
6690430--6690493	29	2.2	29	85	0	83	29	28	17	25	1.97
6690513--6690555	15	2.9	15	96	0	77	20	18	25	34	1.96
6702512--6702551	15	2.6	16	84	4	55	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6704138--6704176	20	2.0	20	94	0	69	41	5	0	53	1.23
6709156--6709220	20	3.2	20	86	0	94	32	6	26	35	1.81
6709502--6709589	43	2.0	43	97	0	167	25	17	12	45	1.83
6715927--6715960	17	2.0	17	88	0	50	44	2	0	52	1.16
6718313--6718339	12	2.2	12	100	0	54	44	0	7	48	1.31
6731913--6731955	2	22.5	2	90	9	72	46	0	0	53	1.00
6734778--6734823	5	9.4	5	79	13	51	45	34	17	2	1.61
6738694--6738743	7	7.1	7	100	0	100	42	30	28	0	1.56
6742587--6742621	18	1.9	18	88	0	52	25	34	20	20	1.96
6744490--6744530	21	2.0	21	90	9	66	24	14	14	46	1.82

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