genome.fa.s1547.2.7.7.80.10.50.1000.34.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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  34  of  51  ( 6083 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)
6653569--6653746	64	2.8	64	81	3	205	25	16	26	30	1.97
6653584--6653795	65	3.3	64	81	7	225	26	16	25	31	1.97
6653963--6654002	20	2.0	21	85	14	57	45	7	5	42	1.54
6655472--6655498	13	2.1	13	100	0	54	18	22	14	44	1.86
6657653--6657810	21	7.8	20	70	7	77	37	24	17	19	1.93
6657778--6658167	20	19.5	20	83	5	448	35	25	18	20	1.95
6658844--6658890	24	2.0	24	87	8	69	25	14	21	38	1.92
6659065--6659089	12	2.1	12	100	0	50	72	0	28	0	0.86
6660057--6660453	19	22.4	19	79	15	476	46	18	21	13	1.83
6660085--6660434	52	6.6	52	88	6	494	46	17	22	14	1.83
6660124--6660475	71	5.0	70	85	10	388	46	17	21	14	1.84
6660089--6660475	52	7.3	52	87	9	424	46	17	21	14	1.84
6660482--6660564	20	4.6	19	81	15	113	14	24	18	43	1.87
6660671--6660707	14	2.6	14	91	0	65	45	21	0	32	1.52
6662660--6662716	14	3.7	14	77	20	60	45	22	21	10	1.82
6662641--6662733	33	2.8	33	95	0	168	47	21	20	10	1.80
6662604--6662738	19	7.6	19	76	16	128	45	23	19	11	1.82
6662734--6662862	19	7.3	19	75	17	125	8	17	28	45	1.77
6662734--6662825	33	2.8	33	93	3	150	7	18	28	45	1.76
6662906--6663376	92	5.1	92	99	0	915	46	18	12	22	1.83
6665081--6665170	14	5.7	14	74	23	81	42	23	25	8	1.83
6665073--6665187	33	3.5	33	95	0	212	45	20	24	9	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6665080--6665192	19	6.8	18	72	23	88	43	22	24	9	1.83
6665204--6665258	14	3.6	14	73	21	56	9	25	23	41	1.83
6665188--6665258	33	2.2	33	94	0	124	8	22	25	43	1.81
6665199--6665280	33	2.5	33	89	2	119	9	25	21	42	1.84
6665211--6665299	20	4.8	20	72	19	75	12	24	19	43	1.85
6665379--6665449	33	2.2	33	92	0	115	47	18	22	11	1.80
6665631--6665685	22	2.5	22	81	0	74	20	16	40	23	1.91
6665831--6666023	20	9.6	20	82	5	219	19	19	25	35	1.95
6665831--6666023	60	3.2	60	83	0	251	19	19	25	35	1.95
6667194--6667239	23	2.0	23	83	8	58	36	2	6	54	1.39
6667379--6667433	27	1.9	30	85	10	80	50	0	3	45	1.19
6671716--6671753	17	2.2	18	81	13	53	60	2	0	36	1.11
6671782--6671830	20	2.5	20	82	0	62	42	2	26	28	1.66
6672814--6673081	132	2.0	132	88	0	401	37	14	6	40	1.73
6681254--6681299	21	2.2	21	88	0	65	23	36	28	10	1.89
6689872--6689911	21	1.9	21	94	0	71	30	15	7	47	1.72
6689906--6690004	33	3.0	33	94	1	164	32	7	15	45	1.73
6690240--6690296	21	2.7	21	91	0	96	19	26	26	28	1.99
6690463--6690517	17	3.6	15	81	11	67	30	12	12	43	1.80
6690481--6690514	17	2.0	17	100	0	68	35	11	11	41	1.78
6690608--6690639	16	2.0	17	88	11	50	43	21	21	12	1.86
6696135--6696194	3	19.7	3	86	10	86	35	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6697871--6697900	2	15.0	2	100	0	60	50	0	0	50	1.00
6697978--6698003	2	13.0	2	100	0	52	50	0	0	50	1.00
6698775--6698814	15	2.6	16	84	7	57	32	5	2	60	1.32
6702715--6702967	42	6.0	42	76	10	221	49	5	20	24	1.71
6702730--6702967	126	1.9	128	81	5	295	50	5	19	23	1.68
6702780--6703101	43	7.5	41	69	17	113	51	5	17	25	1.67
6704793--6704908	32	3.6	32	77	4	99	26	26	29	17	1.97
6705994--6706067	27	2.7	29	81	12	93	20	12	18	48	1.80
6714520--6714546	2	13.5	2	100	0	54	48	0	0	51	1.00
6718172--6718202	2	15.5	2	93	0	53	48	3	0	48	1.17
6718302--6718344	20	2.2	20	83	8	52	34	2	4	58	1.32
6718474--6718534	25	2.5	24	77	15	63	11	9	6	72	1.29
6718494--6718606	56	2.0	60	83	13	148	14	9	7	69	1.37
6719415--6719645	28	8.4	27	80	9	218	37	2	14	46	1.57
6719520--6719563	23	1.9	23	100	0	88	36	0	20	43	1.52
6719458--6719619	80	2.0	80	91	2	263	35	1	16	46	1.58
6723865--6723991	55	2.3	57	86	6	172	36	1	14	47	1.55
6723866--6723997	28	4.8	26	81	14	149	36	2	14	46	1.57
6725682--6725755	36	2.1	36	100	0	148	25	10	2	60	1.43
6731374--6731412	14	2.9	14	92	3	62	25	0	5	69	1.09
6736859--6736905	24	1.9	25	86	4	69	38	14	21	25	1.92
6737280--6737332	21	2.5	21	78	6	63	22	24	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6737322--6737373	21	2.5	21	87	3	70	38	17	23	21	1.93
6737359--6737471	41	2.8	42	89	1	133	32	26	18	22	1.97
6737358--6737489	40	3.3	40	84	1	174	34	25	18	21	1.96
6737363--6737471	20	5.4	20	84	6	139	30	27	19	22	1.98
6737706--6737778	20	3.7	20	94	0	119	39	20	23	16	1.92
6737819--6737861	19	2.3	19	95	0	77	16	18	16	48	1.81
6739448--6739539	42	2.2	42	88	1	141	20	15	42	21	1.89
6739475--6739535	21	2.9	21	73	9	70	21	13	42	22	1.87
6739876--6739956	20	4.1	20	85	0	72	35	24	17	22	1.95
6739902--6739974	20	3.7	20	88	0	110	35	24	23	16	1.95
6739902--6739988	40	2.2	40	85	2	113	36	24	22	16	1.94
6740014--6740163	19	8.6	19	71	21	123	13	20	21	44	1.85
6740036--6740127	14	5.9	14	72	22	76	10	17	22	48	1.78
6740019--6740143	33	3.8	33	98	0	241	12	18	21	48	1.80
6740128--6740171	20	2.2	20	92	4	72	20	25	18	36	1.95
6740724--6740771	18	2.7	18	93	0	87	14	12	45	27	1.81
6742090--6742148	20	3.0	20	87	0	73	44	22	18	15	1.87
6742397--6742440	22	2.0	22	95	0	79	18	15	45	20	1.85
6742627--6742740	20	5.7	20	85	6	149	21	18	28	31	1.97
6742607--6742742	41	3.3	41	85	6	195	22	17	26	33	1.96
6742627--6742762	41	3.3	40	84	3	157	22	19	25	32	1.97
6742751--6742803	21	2.5	20	73	8	61	35	18	24	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6753162--6753290	39	3.3	39	85	0	168	18	28	21	31	1.97
6753780--6753832	25	2.1	25	96	0	97	28	18	33	18	1.95
6757198--6757290	21	4.5	21	81	4	109	39	17	24	18	1.91
6757279--6757373	20	4.7	20	77	2	82	35	24	16	23	1.95
6757198--6757290	41	2.3	41	98	0	177	39	17	24	18	1.91
6757276--6757353	41	1.9	41	83	0	102	41	21	15	21	1.90
6757198--6757326	20	6.3	20	70	11	66	41	17	21	19	1.91
6757561--6757602	22	1.9	22	95	0	75	21	45	16	16	1.86
6757869--6757906	20	1.9	20	88	0	58	13	15	21	50	1.78
6760070--6760153	33	2.5	33	92	1	132	38	26	23	11	1.90
6760021--6760263	19	13.1	19	81	10	254	43	21	22	12	1.86
6760270--6760326	20	2.8	20	81	7	80	10	17	22	49	1.77
6760842--6760894	20	2.7	20	90	0	79	28	18	28	24	1.98
6760925--6761017	20	4.5	21	78	4	100	17	24	18	39	1.91
6760925--6761017	41	2.3	41	100	0	168	17	24	18	39	1.91
6761048--6761088	21	2.0	21	85	0	55	34	31	17	17	1.93
6764261--6764292	13	2.5	13	94	0	55	50	6	34	9	1.60
6766135--6766165	15	2.1	15	93	0	53	45	0	0	54	0.99
6772060--6772087	3	9.3	3	100	0	56	67	0	0	32	0.91
6773601--6773646	2	23.0	2	100	0	92	50	0	0	50	1.00
6781801--6781861	3	19.7	3	80	12	70	37	0	0	62	0.96
6783844--6783880	16	2.3	16	90	9	58	24	2	0	72	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6788188--6788219	2	16.0	2	100	0	64	50	0	0	50	1.00
6788521--6788574	6	9.3	6	88	8	60	83	5	11	0	0.80
6790821--6791040	114	1.9	114	89	1	343	33	15	20	30	1.94
6793014--6793222	54	4.0	53	81	7	232	38	14	21	24	1.91
6793571--6793625	22	2.5	22	84	0	83	36	10	10	41	1.75
6794058--6794983	113	8.2	113	84	5	1162	38	13	19	29	1.90
6794058--6794983	229	4.1	226	88	3	1291	38	13	19	29	1.90
6794927--6795015	36	2.6	34	94	3	151	49	10	20	20	1.77
6794812--6795162	143	2.4	145	90	5	571	41	13	19	25	1.88
6795070--6795195	36	3.5	36	97	0	234	48	11	21	19	1.79

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