genome.fa.s7923.2.7.7.80.10.50.1000.20.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: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8415618

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   

This is table  20  of  40  ( 4704 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)
4062446--4062494	21	2.3	21	79	6	55	22	20	32	24	1.98
4062458--4062498	21	2.0	21	90	0	64	24	19	31	24	1.98
4062590--4062659	21	3.3	21	89	0	95	21	8	44	25	1.80
4063270--4063323	21	2.5	22	82	8	67	51	5	1	40	1.36
4064057--4064118	18	3.5	18	71	10	56	64	4	0	30	1.14
4065160--4065208	20	2.5	20	86	0	71	48	22	12	16	1.79
4065741--4065841	20	5.1	20	88	5	143	10	16	20	51	1.75
4066575--4066674	45	2.3	43	81	10	112	37	17	18	28	1.92
4066685--4066741	20	2.6	21	83	13	71	31	19	22	26	1.98
4068396--4068455	23	2.6	23	84	5	77	18	26	26	28	1.98
4071995--4072054	20	2.7	22	85	10	79	35	20	20	25	1.96
4077491--4077618	23	5.9	22	77	11	129	25	28	25	20	1.99
4077497--4077595	45	2.2	45	88	0	144	26	30	23	20	1.98
4077579--4077621	19	2.3	19	84	8	52	20	27	32	18	1.96
4078998--4079039	20	2.1	20	90	0	66	23	38	23	14	1.92
4080313--4080380	23	3.0	23	86	0	100	17	26	26	29	1.98
4082619--4082715	42	2.3	42	87	0	131	28	35	17	18	1.94
4084695--4084730	16	2.2	16	90	0	54	19	0	13	66	1.24
4084787--4084924	29	5.1	29	78	16	136	26	16	23	34	1.95
4084842--4084888	20	2.3	20	100	0	94	27	19	23	29	1.98
4084813--4084913	49	2.1	49	92	3	168	25	15	23	34	1.95
4085158--4085193	18	2.0	18	94	0	63	16	2	25	55	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4087257--4087287	3	10.3	3	92	0	53	0	32	0	67	0.91
4087462--4087515	24	2.2	24	90	0	81	38	20	20	20	1.93
4087641--4087674	12	2.8	12	90	0	50	14	0	29	55	1.40
4089100--4089223	56	2.2	56	86	1	169	48	29	7	14	1.71
4089100--4089199	28	3.6	28	94	0	173	46	32	8	14	1.73
4089205--4089265	30	2.0	30	84	6	79	34	21	8	36	1.83
4089284--4089349	33	2.0	33	88	5	98	42	33	9	15	1.78
4092676--4092745	34	2.1	34	97	0	131	30	0	18	51	1.47
4093490--4093528	19	2.1	19	100	0	78	58	0	20	20	1.39
4093534--4093623	4	20.5	4	78	17	65	71	3	5	20	1.21
4093534--4093620	24	3.7	24	80	6	72	71	3	5	19	1.21
4094136--4094206	20	3.5	20	90	0	115	39	21	21	18	1.93
4094193--4094239	20	2.3	20	92	0	76	31	27	19	21	1.97
4095314--4095358	23	2.0	23	90	0	72	24	26	26	22	2.00
4095326--4095640	149	2.1	149	94	1	542	34	21	16	27	1.95
4097099--4097143	21	2.1	21	87	0	63	15	24	28	31	1.96
4098290--4098343	24	2.2	24	93	0	90	20	18	20	40	1.91
4100773--4100824	20	2.6	19	82	8	68	36	25	23	15	1.93
4100821--4100912	33	2.7	34	83	3	114	13	22	20	43	1.86
4101018--4101055	14	2.7	15	84	12	53	47	18	0	34	1.49
4103029--4103073	20	2.2	20	96	0	81	42	26	17	13	1.86
4103112--4103179	20	3.4	20	89	0	100	45	23	13	17	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4103223--4103381	20	8.6	20	86	8	155	17	22	20	39	1.92
4103304--4103338	14	2.5	14	100	0	70	8	25	22	42	1.82
4105346--4105411	22	3.0	22	84	0	87	19	13	39	27	1.89
4105609--4105742	20	6.7	20	84	1	178	22	19	19	38	1.93
4106935--4106984	24	2.0	26	84	7	68	66	0	6	28	1.15
4107152--4107281	37	3.5	37	83	10	165	45	6	5	43	1.52
4107152--4107338	37	5.3	35	78	18	151	45	5	3	44	1.45
4107241--4107295	27	2.0	27	86	6	76	45	5	7	41	1.55
4107204--4107344	63	2.2	64	85	6	180	48	4	4	41	1.46
4107241--4107306	27	2.5	27	80	4	64	46	4	6	42	1.48
4107404--4107452	2	26.0	2	82	12	59	53	2	0	44	1.12
4107406--4107459	27	2.0	27	92	0	90	55	3	0	40	1.17
4108014--4109214	84	14.5	84	77	6	948	25	18	23	32	1.97
4108014--4109203	165	7.2	162	77	7	926	25	18	23	32	1.97
4108057--4109171	249	4.5	246	83	4	1278	25	18	23	31	1.97
4108057--4109187	333	3.4	332	76	4	890	25	18	23	31	1.97
4110389--4110586	95	2.1	94	89	3	308	34	17	14	33	1.91
4114050--4114140	4	20.8	4	76	18	58	71	3	5	19	1.20
4114050--4114108	23	2.5	24	83	5	75	76	0	6	16	1.00
4114127--4114193	22	3.0	22	78	6	71	71	1	7	19	1.17
4114184--4114222	18	2.2	18	86	9	53	74	0	15	10	1.07
4115403--4115452	24	2.0	26	84	7	68	68	0	4	28	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4115475--4115599	33	3.9	30	71	18	92	50	4	3	41	1.39
4115460--4115599	31	4.4	31	71	20	101	50	5	2	42	1.39
4115497--4115543	24	2.0	24	83	8	60	46	6	4	42	1.48
4115516--4115713	37	5.8	36	71	20	104	46	5	3	43	1.44
4115592--4115647	27	2.1	27	96	0	103	39	3	3	53	1.36
4115504--4115683	64	2.8	64	83	8	220	46	5	3	44	1.45
4115622--4115751	37	3.5	37	85	10	174	45	6	3	43	1.49
4115711--4115765	27	2.0	27	86	6	76	47	7	3	41	1.49
4115674--4115805	63	2.1	65	84	5	171	49	6	3	41	1.43
4115887--4115918	15	2.2	14	94	5	55	68	0	0	31	0.90
4116238--4116346	51	2.2	51	79	1	121	19	27	31	22	1.97
4116592--4116643	9	6.1	9	76	13	56	32	1	1	63	1.16
4116591--4116640	17	3.0	17	91	2	75	34	2	4	60	1.27
4116600--4116645	16	2.9	16	87	6	58	30	2	2	65	1.16
4118326--4118390	27	2.4	27	94	0	112	15	49	16	18	1.80
4128304--4128329	12	2.2	12	100	0	52	38	30	0	30	1.58
4128785--4128931	29	5.0	29	97	1	267	23	39	20	16	1.92
4130357--4130381	13	1.9	13	100	0	50	44	0	32	24	1.54
4130735--4130812	39	2.0	39	100	0	156	30	25	17	25	1.97
4132474--4132567	20	4.7	20	75	5	91	14	22	23	39	1.91
4133208--4133255	22	2.2	23	85	11	73	39	25	16	18	1.91
4133212--4133254	22	2.0	22	95	0	77	39	25	13	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4152637--4152704	27	2.6	27	90	4	113	39	17	11	30	1.86
4154499--4154591	21	4.5	21	78	4	100	39	18	24	17	1.91
4154499--4154591	41	2.3	41	100	0	186	39	18	24	17	1.91
4154518--4154652	41	3.3	41	82	6	132	38	20	21	19	1.94
4154580--4154694	20	5.7	20	82	2	113	32	25	18	24	1.97
4154577--4154714	41	3.4	41	78	2	143	34	23	17	23	1.96
4154882--4154925	22	2.0	22	91	8	72	22	45	13	18	1.84
4154882--4154933	22	2.5	21	84	12	63	23	44	11	21	1.84
4155205--4155247	20	2.2	20	95	0	77	9	18	18	53	1.70
4156567--4156611	18	2.5	18	85	0	63	26	44	13	15	1.83
4157093--4157159	20	3.4	20	83	2	82	40	23	20	14	1.90
4157148--4157205	14	3.9	14	79	16	71	48	24	17	10	1.78
4157132--4157222	32	2.8	33	94	3	166	47	21	18	12	1.81
4157234--4157312	32	2.4	33	91	2	133	10	17	24	48	1.78
4157239--4157296	14	3.9	14	79	16	71	8	15	25	50	1.73
4157285--4157351	19	3.5	19	83	4	89	14	23	23	37	1.93
4157297--4157351	20	2.8	19	89	5	83	16	25	23	34	1.95
4157382--4157450	25	2.6	28	73	19	76	21	10	15	52	1.73
4159209--4159244	14	2.6	14	90	0	54	30	0	22	47	1.52
4159361--4159428	19	3.8	19	85	14	101	47	17	22	13	1.82
4159447--4159504	20	2.9	20	97	0	107	15	22	24	37	1.93
4159718--4159780	33	1.9	33	90	0	99	14	22	19	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4160561--4160614	24	2.2	24	90	0	81	24	16	20	38	1.92
4163103--4163233	19	7.7	19	66	23	94	42	19	22	14	1.88
4163103--4163229	33	3.8	33	88	4	202	42	19	22	14	1.88
4163104--4163236	66	2.0	66	97	0	248	41	19	22	16	1.90
4163229--4163271	20	2.2	20	87	4	61	16	18	23	41	1.89
4163412--4163448	14	2.6	14	91	0	65	45	24	0	29	1.53
4164806--4164872	21	3.2	21	65	4	55	19	19	35	25	1.95
4164806--4164928	42	2.9	41	80	7	113	22	17	36	23	1.94
4166807--4166992	19	10.1	19	72	15	131	45	21	20	12	1.83
4166832--4166912	33	2.4	34	89	2	119	37	25	24	12	1.91

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