genome.fa.s9605.2.7.7.80.10.50.1000.32.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  32  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)
8222620--8222659	18	2.3	17	87	12	55	17	10	0	72	1.11
8232868--8232938	14	5.0	14	94	1	124	7	28	0	64	1.19
8235145--8235184	18	2.2	18	86	0	53	30	0	27	42	1.56
8235638--8235697	30	2.0	30	100	0	120	50	13	16	20	1.78
8237107--8237156	25	2.0	26	88	4	75	24	6	18	52	1.67
8239405--8239766	159	2.3	155	85	4	476	50	6	15	27	1.69
8239467--8239769	156	1.9	160	85	5	411	51	7	14	26	1.68
8240092--8240150	24	2.6	23	72	5	57	40	22	1	35	1.64
8240154--8240199	22	2.1	22	95	0	83	50	15	0	34	1.44
8240586--8241123	270	2.0	270	91	0	871	33	19	19	27	1.96
8241717--8241750	18	1.9	18	94	5	61	20	35	17	26	1.95
8242141--8242249	28	3.9	28	87	4	150	41	27	21	10	1.85
8242392--8242765	196	1.9	196	88	2	563	43	18	10	27	1.82
8243006--8243049	23	1.9	23	86	9	63	27	9	31	31	1.88
8244788--8244816	12	2.4	12	100	0	58	0	41	0	58	0.98
8245432--8245475	21	2.0	22	82	4	54	22	22	20	34	1.97
8248627--8248689	28	2.2	28	88	5	92	31	22	31	14	1.93
8248642--8248697	28	2.0	28	86	6	78	32	25	32	10	1.90
8250672--8250996	158	2.0	160	98	1	636	40	17	7	34	1.78
8261829--8262356	85	6.2	85	80	3	456	35	17	20	26	1.95
8261847--8262356	43	12.0	43	78	4	430	35	17	20	26	1.95
8264098--8264230	41	3.3	41	72	10	121	36	14	14	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8272629--8272670	21	2.0	21	90	0	66	21	2	30	45	1.65
8275883--8277588	851	2.0	851	99	0	3376	32	19	12	35	1.89
8281735--8281785	21	2.5	20	83	6	57	41	7	13	37	1.74
8283623--8283682	31	1.9	31	83	6	77	55	0	0	45	0.99
8285029--8285083	24	2.3	24	90	0	83	61	14	14	9	1.55
8285072--8285104	14	2.4	14	90	10	50	78	0	21	0	0.75
8291253--8291316	25	2.5	24	80	14	67	3	18	3	75	1.08
8308729--8308762	17	1.9	18	88	5	52	29	38	0	32	1.58
8309945--8310006	31	2.0	31	100	0	124	32	19	25	22	1.97
8310073--8310147	19	4.6	16	72	18	57	76	5	12	6	1.15
8319215--8319263	19	2.5	20	86	3	64	44	8	12	34	1.71
8321148--8321202	24	2.3	24	81	6	67	38	21	9	30	1.85
8324117--8324169	20	2.9	17	71	15	52	28	13	16	41	1.86
8324193--8324254	17	3.5	17	72	12	54	25	16	12	45	1.83
8324245--8324311	17	3.9	17	78	5	64	34	13	10	41	1.79
8327882--8327929	17	2.8	17	80	0	60	33	14	8	43	1.75
8330736--8330770	15	2.3	15	90	9	54	20	22	0	57	1.41
8330743--8330815	25	2.8	26	74	17	71	20	21	0	57	1.41
8335033--8335086	25	2.2	25	83	12	67	20	18	0	61	1.35
8337108--8337174	25	2.8	24	78	17	75	19	19	0	61	1.35
8339165--8339242	25	3.0	26	75	17	72	23	19	0	57	1.40
8341211--8341288	25	3.0	26	75	17	72	23	19	0	57	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8357038--8357189	49	3.1	49	64	19	136	38	14	20	26	1.91
8356995--8357140	48	3.0	48	63	19	122	36	15	20	28	1.93
8356995--8357191	97	2.0	97	100	0	394	38	14	20	26	1.91
8370607--8370818	106	2.0	106	100	0	424	27	18	16	36	1.93
8378722--8378754	17	1.9	17	93	0	57	39	0	33	27	1.57
8378807--8378843	16	2.3	16	90	0	56	62	0	18	18	1.34
8385475--8385526	23	2.3	22	77	9	59	25	28	17	28	1.97
8387827--8387868	19	2.2	19	100	0	84	26	40	19	14	1.89
8391533--8391572	15	2.7	15	85	11	55	60	0	25	15	1.35
8394996--8395081	14	6.1	14	91	0	145	22	38	0	39	1.54
8395480--8395515	14	2.5	15	86	4	56	83	0	13	2	0.76
8395539--8395569	11	2.9	11	95	4	55	80	0	19	0	0.71
8400364--8400402	9	4.2	9	84	15	53	0	5	7	87	0.68
8406893--8406949	14	4.1	14	86	2	80	26	36	0	36	1.57
8415665--8415715	17	2.9	17	82	2	57	43	0	27	29	1.55
8415990--8416029	6	6.5	6	88	5	62	2	15	0	82	0.77
8415990--8416029	19	2.2	18	90	4	62	2	15	0	82	0.77
8423434--8423511	24	3.2	24	79	0	84	30	25	20	23	1.98
8424191--8424260	20	3.5	20	100	0	140	34	28	11	25	1.91
8431622--8431667	15	2.9	15	87	6	65	8	32	0	58	1.28
8436492--8436536	16	2.8	16	96	0	81	60	0	15	24	1.36
8438535--8438569	13	2.7	13	100	0	70	22	14	25	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8439938--8439981	11	4.0	11	78	0	52	75	4	15	4	1.14
8445805--8445838	17	2.0	17	88	0	50	29	5	0	64	1.17
8445939--8445972	17	2.0	17	88	0	50	35	2	0	61	1.11
8446276--8446302	14	1.9	14	100	0	54	44	7	18	29	1.77
8446460--8446490	2	15.5	2	100	0	62	48	0	0	51	1.00
8446959--8447011	24	2.2	24	86	0	70	22	7	7	62	1.47
8446965--8447018	14	3.9	14	82	4	56	22	7	7	62	1.46
8446977--8447019	14	3.1	14	82	0	59	20	4	9	65	1.40
8446977--8447025	14	3.5	14	82	0	53	20	4	10	65	1.39
8447216--8447276	10	5.7	10	72	14	50	6	18	21	54	1.66
8447206--8447267	24	2.6	24	86	0	79	6	14	19	59	1.56
8447215--8447283	34	2.0	34	88	0	102	7	17	20	55	1.65
8450432--8450465	16	2.1	17	88	5	52	38	2	17	41	1.65
8459194--8459227	16	2.1	17	88	5	52	38	2	17	41	1.65
8461840--8461882	23	2.0	22	86	9	61	39	13	23	23	1.90
8462791--8462859	32	2.3	31	78	11	74	44	0	0	55	0.99
8463858--8463891	16	2.1	17	88	5	52	38	2	17	41	1.65
8469840--8469879	21	2.0	19	85	9	53	22	10	32	35	1.87
8476829--8476886	21	2.6	22	83	5	73	15	22	25	36	1.94
8476832--8476887	23	2.6	21	82	5	67	14	23	28	33	1.94
8477553--8477586	16	2.1	17	88	5	52	38	2	17	41	1.65
8479895--8480003	41	2.7	41	85	0	146	33	18	18	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8479910--8480071	41	4.0	38	73	11	108	32	16	20	31	1.94
8480761--8480812	25	2.1	25	82	13	63	63	3	5	26	1.34
8481178--8481202	2	12.5	2	100	0	50	52	0	0	48	1.00
8484244--8484579	37	9.6	37	77	15	288	45	4	7	41	1.53
8484313--8484585	137	2.0	139	89	5	428	45	4	6	43	1.51
8484457--8484592	38	3.6	39	79	6	145	45	5	8	41	1.56
8484597--8484637	7	5.9	7	81	18	50	26	2	0	70	0.99
8484597--8484636	11	3.8	10	83	9	53	25	2	0	72	0.97
8489453--8489489	19	1.9	19	88	0	56	37	10	5	45	1.62
8492126--8492150	10	2.5	10	100	0	50	28	20	40	12	1.87
8499685--8499736	12	4.5	11	81	11	59	84	1	13	0	0.70
8499685--8499714	14	2.1	14	100	0	60	86	0	13	0	0.57
8499695--8499736	10	4.4	9	82	14	50	85	2	11	0	0.68
8499687--8499738	17	3.1	17	83	8	61	82	1	15	0	0.75
8499690--8499736	19	2.3	22	82	17	66	85	2	12	0	0.70
8499684--8499726	14	2.9	15	78	21	54	83	4	11	0	0.78
8511682--8512024	71	4.7	72	80	10	337	45	4	8	40	1.56
8511638--8512024	37	10.8	37	78	12	355	45	5	8	40	1.57
8512043--8512086	3	14.7	3	82	17	56	29	0	0	70	0.88
8513139--8513173	17	2.0	18	88	5	54	31	17	0	51	1.45
8519448--8519477	15	2.0	15	93	0	51	16	43	26	13	1.85
8529799--8529849	26	2.0	24	85	7	66	21	13	9	54	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8532043--8532084	20	2.1	20	86	0	57	42	7	19	30	1.78
8534993--8535045	20	2.5	21	82	14	65	32	26	18	22	1.97
8536609--8536664	18	3.2	18	85	5	80	33	1	17	46	1.59
8536969--8536998	15	2.0	15	93	0	51	63	0	20	16	1.31
8539623--8539718	32	3.0	32	95	0	174	22	17	8	51	1.72
8542194--8542223	15	2.0	15	93	0	51	63	0	20	16	1.31
8543821--8543900	42	1.9	42	92	0	133	31	18	17	32	1.94
8548906--8548960	18	3.2	17	76	19	60	36	5	18	40	1.74
8549628--8549679	24	2.2	24	92	0	86	30	9	11	48	1.72
8549636--8549691	24	2.3	24	96	0	103	26	10	14	48	1.76

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