genome.fa.s190.2.7.7.80.10.50.1000.30.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   52   53   54   55   56   57   58   59   60   61   62   

This is table  30  of  62  ( 7381 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)
7032920--7033041	40	3.0	40	98	0	235	33	27	16	22	1.95
7036503--7036587	26	3.3	26	81	1	109	35	28	12	23	1.92
7036503--7036604	26	3.9	26	79	5	82	32	28	13	25	1.94
7036787--7036830	22	2.0	23	86	4	63	43	13	4	38	1.65
7045045--7045124	34	2.4	32	80	8	88	50	12	15	22	1.77
7045069--7045157	34	2.6	34	82	1	99	46	12	14	26	1.80
7052530--7053632	551	2.0	550	93	1	1888	35	10	21	32	1.87
7053628--7053682	20	2.8	19	76	15	58	32	16	30	20	1.94
7054181--7054467	20	12.4	25	69	23	202	43	10	24	21	1.84
7054181--7054469	46	6.3	46	94	0	506	43	10	23	21	1.84
7054635--7054757	56	2.2	56	81	4	142	41	8	15	34	1.78
7054936--7055072	68	2.0	68	84	2	177	29	16	26	27	1.96
7055014--7055178	80	2.0	81	79	5	174	37	13	22	26	1.92
7055295--7056132	421	2.0	421	91	0	1372	41	10	18	29	1.84
7059991--7060044	2	27.0	2	100	0	108	50	0	0	50	1.00
7060748--7060788	20	2.0	20	86	9	57	68	2	7	21	1.26
7062353--7063608	479	2.6	480	85	2	1716	35	17	16	30	1.92
7062368--7063608	241	5.2	241	88	1	1668	36	17	15	30	1.91
7063608--7063769	58	2.8	55	82	7	173	38	19	9	32	1.84
7063778--7064158	55	6.9	55	85	0	438	43	14	9	32	1.79
7065776--7065802	2	13.5	2	100	0	54	51	0	0	48	1.00
7065864--7065938	35	2.1	35	90	0	114	34	29	26	9	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7066017--7066107	24	3.8	24	85	2	130	37	19	16	26	1.93
7066017--7066107	47	1.9	48	90	2	148	37	19	16	26	1.93
7068407--7068479	17	4.2	18	91	1	114	9	20	49	20	1.77
7068411--7068480	18	4.0	17	88	7	97	10	20	48	21	1.78
7070412--7070436	2	12.5	2	100	0	50	52	0	0	48	1.00
7070498--7070572	35	2.1	35	90	0	114	34	29	26	9	1.88
7070650--7070731	24	3.5	24	84	3	112	35	19	18	26	1.95
7073047--7073114	17	4.2	17	80	16	81	14	22	45	17	1.85
7073076--7073110	13	2.7	13	100	0	70	11	22	48	17	1.79
7074638--7074671	13	2.5	13	90	4	50	2	17	2	76	1.04
7074653--7074704	17	2.9	17	85	5	59	3	19	1	75	1.06
7074643--7074704	8	7.2	8	74	13	52	3	19	1	75	1.02
7080382--7080411	12	2.5	12	94	0	51	66	6	3	23	1.30
7080476--7080535	2	30.0	2	100	0	120	50	0	0	50	1.00
7080707--7080749	20	2.2	20	87	8	61	74	4	2	18	1.10
7081223--7081266	20	2.2	20	87	0	61	65	4	9	20	1.38
7085126--7085512	54	7.2	53	87	2	531	39	15	13	31	1.86
7087212--7087915	356	2.0	356	84	3	927	33	20	12	34	1.89
7091205--7091341	43	3.2	44	78	13	133	28	18	24	27	1.98
7091784--7091850	21	3.2	21	89	0	98	0	41	17	40	1.50
7091815--7091880	30	2.2	30	86	5	89	0	40	18	40	1.50
7091796--7091860	21	3.1	21	86	4	69	0	43	21	35	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7099569--7099663	41	2.3	43	81	7	115	28	26	15	29	1.96
7101426--7101551	47	2.8	45	85	8	166	30	22	7	39	1.81
7101656--7101777	40	3.0	40	98	0	235	33	27	16	22	1.95
7105231--7105315	26	3.3	26	81	1	109	35	28	12	23	1.92
7105231--7105332	26	3.9	26	79	5	82	32	28	13	25	1.94
7113710--7113820	34	3.5	29	76	20	98	48	11	17	22	1.79
7113734--7113819	31	2.7	33	85	7	115	46	11	16	25	1.80
7113734--7113819	34	2.7	31	89	7	120	46	11	16	25	1.80
7121840--7122211	187	2.0	186	97	2	701	36	12	20	30	1.90
7122215--7122269	20	2.8	19	76	15	58	32	16	30	20	1.94
7122768--7123055	46	6.3	46	95	0	515	43	10	24	21	1.84
7123218--7123340	56	2.2	55	81	4	140	41	8	15	34	1.78
7123519--7123655	68	2.0	68	84	2	177	29	16	26	27	1.96
7123594--7123742	80	1.9	81	84	4	203	36	14	23	26	1.93
7123891--7124702	418	1.9	418	90	1	1295	41	10	18	29	1.84
7128515--7128574	2	30.0	2	100	0	120	50	0	0	50	1.00
7130849--7132100	241	5.2	241	88	1	1692	35	17	15	31	1.91
7131754--7131832	42	1.9	42	84	2	106	35	15	20	29	1.93
7130833--7132100	480	2.6	481	86	2	1724	35	17	15	31	1.91
7132257--7132638	55	7.0	55	86	3	482	41	15	9	32	1.80
7132271--7132638	164	2.2	165	88	1	524	42	15	9	33	1.79
7134449--7134523	25	2.9	25	78	9	73	5	21	0	73	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7134469--7134515	19	2.6	19	90	9	73	2	25	0	72	0.96
7140171--7140200	12	2.5	12	94	0	51	66	6	3	23	1.30
7140265--7140308	2	22.0	2	100	0	88	50	0	0	50	1.00
7142246--7142272	14	1.9	14	100	0	54	29	0	0	70	0.88
7157144--7157647	272	1.9	272	86	3	719	31	18	16	33	1.93
7158421--7158643	107	2.1	108	89	0	340	39	15	13	31	1.86
7158366--7158645	54	5.2	54	87	0	364	37	16	15	30	1.90
7160381--7161208	365	2.3	364	86	2	1097	31	20	12	34	1.91
7165129--7165165	14	2.7	14	91	4	58	48	21	0	29	1.50
7167356--7167426	22	3.3	22	67	21	69	30	12	26	29	1.93
7167357--7167473	42	2.8	42	90	0	180	35	11	22	29	1.90
7167895--7168127	44	5.2	44	91	1	367	43	13	23	19	1.86
7167895--7168127	89	2.6	89	91	0	360	43	13	23	19	1.86
7185459--7185538	41	1.9	42	84	2	108	27	16	20	36	1.93
7185464--7185559	41	2.3	42	81	1	104	30	16	20	32	1.95
7185058--7187427	517	4.6	514	81	6	2449	34	14	16	34	1.89
7185060--7187435	774	3.1	772	85	3	3005	34	14	16	34	1.89
7187437--7187574	8	15.8	8	68	22	66	78	0	14	7	0.96
7187439--7187499	21	3.0	20	76	11	61	80	0	14	4	0.87
7187437--7187497	13	4.8	12	78	20	54	80	0	14	4	0.87
7187449--7187574	35	3.5	34	75	15	92	76	0	15	7	0.98
7187508--7187574	28	2.4	28	85	5	91	82	0	10	7	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7187437--7187574	19	7.7	18	69	17	92	78	0	14	7	0.96
7189669--7189724	29	2.0	29	86	10	80	17	16	1	64	1.38
7191864--7191918	18	3.1	18	81	5	58	25	3	14	56	1.55
7196019--7196208	104	1.8	104	86	2	274	28	21	15	34	1.94
7196736--7196766	12	2.6	12	100	0	62	32	6	45	16	1.72
7200651--7200683	7	4.7	7	92	0	57	27	15	3	54	1.55
7200651--7200691	14	2.9	14	88	0	64	26	14	4	53	1.61
7201444--7201477	4	8.5	4	100	0	68	26	0	0	73	0.83
7205479--7205507	12	2.3	13	94	5	51	68	6	0	24	1.13
7207125--7207254	41	3.1	41	68	12	104	30	16	19	33	1.94
7206904--7207254	83	4.3	83	78	3	388	31	17	19	32	1.95
7208165--7208196	7	4.7	7	92	7	57	15	15	0	68	1.21
7208165--7208196	13	2.4	13	94	5	55	15	15	0	68	1.21
7211128--7211306	42	4.2	42	80	5	207	26	24	18	31	1.98
7211123--7211306	85	2.2	85	81	4	219	26	23	17	32	1.97
7216349--7216401	26	2.0	26	96	0	97	47	13	22	16	1.82
7216388--7216664	20	12.4	21	69	23	126	45	9	24	20	1.81
7216473--7216650	26	7.5	26	71	21	176	44	11	24	19	1.83
7216349--7216682	46	7.3	46	86	8	468	45	10	23	20	1.81
7216845--7216967	56	2.2	55	80	7	133	40	10	15	33	1.82
7217514--7217553	14	2.4	18	76	23	52	67	0	12	20	1.22
7217520--7217561	14	2.9	15	83	16	54	69	0	11	19	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7221531--7221578	20	2.3	20	89	3	69	66	6	6	20	1.36
7223088--7224081	241	4.2	240	86	3	1387	35	16	15	31	1.91
7223088--7224081	473	2.1	479	88	3	1441	35	16	15	31	1.91
7224081--7224242	58	2.8	56	84	5	182	38	18	9	33	1.83
7224247--7224632	166	2.3	166	87	1	535	42	14	9	33	1.78
7224249--7224632	55	7.0	55	87	1	509	42	14	9	33	1.78
7234870--7234925	21	2.7	21	91	0	85	26	33	10	28	1.90
7241532--7241574	20	2.1	20	82	4	50	39	6	4	48	1.51
7242722--7242761	21	1.9	21	84	0	53	50	5	5	40	1.46
7242731--7242795	33	1.9	34	87	3	96	43	1	4	50	1.32

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   52   53   54   55   56   57   58   59   60   61   62