genome.fa.s9579.2.7.7.80.10.50.1000.27.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  27  of  29  ( 3390 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)
5676209--5676678	237	2.1	226	87	7	673	28	13	18	39	1.89
5678351--5678491	64	2.2	63	80	7	160	25	22	18	33	1.97
5679342--5679392	18	2.9	17	77	8	57	29	29	5	35	1.81
5681712--5681753	8	5.2	8	83	11	59	38	0	2	59	1.10
5681712--5681752	16	2.6	16	92	7	66	36	0	2	60	1.10
5681951--5682000	26	1.9	26	83	0	64	34	16	10	40	1.81
5682446--5682499	8	6.0	9	76	19	51	14	9	1	74	1.15
5682966--5683011	22	2.0	23	91	4	76	23	0	4	71	1.03
5684642--5684683	20	2.2	19	86	4	57	33	0	2	64	1.07
5684537--5684774	120	2.0	117	82	4	282	37	7	8	45	1.64
5685274--5685323	23	2.2	23	92	0	82	22	6	0	72	1.07
5685284--5685317	16	2.1	16	100	0	68	23	5	0	70	1.09
5686953--5686988	14	2.6	14	86	0	54	30	13	2	52	1.55
5690539--5690591	26	2.0	26	96	0	97	69	11	13	5	1.34
5690554--5690663	36	3.2	33	82	12	98	73	2	17	6	1.16
5690554--5690663	17	6.4	17	75	17	93	73	2	17	6	1.16
5690587--5690672	36	2.4	36	82	9	120	75	0	17	6	1.01
5690554--5690635	25	3.2	24	77	14	76	75	3	15	4	1.11
5693964--5694135	74	2.3	74	83	5	213	33	15	20	30	1.94
5695016--5695169	54	2.9	54	94	0	254	38	14	23	23	1.92
5695533--5695614	22	3.7	22	90	0	101	36	19	9	34	1.85
5696014--5697139	113	10.0	113	91	2	1691	37	16	20	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5696176--5696220	24	1.9	23	82	13	56	48	6	26	17	1.72
5697188--5697542	113	3.2	112	84	5	456	37	14	20	27	1.91
5697352--5697542	104	1.8	104	85	0	265	39	14	22	24	1.91
5697775--5697852	19	4.0	20	85	6	79	37	0	1	61	1.04
5697766--5697831	22	3.0	22	86	2	87	28	0	3	68	1.05
5697776--5697831	3	20.0	3	82	14	66	32	0	1	66	1.03
5698747--5698778	14	2.3	14	100	0	64	6	15	28	50	1.68
5698748--5698798	24	2.1	24	85	0	66	9	11	21	56	1.63
5699779--5699853	10	7.7	10	69	21	52	10	9	21	58	1.59
5699785--5699846	16	3.9	16	86	0	79	9	9	20	59	1.57
5699784--5699846	32	2.0	32	93	0	108	11	9	20	58	1.60
5699919--5699951	16	2.1	16	100	0	66	6	12	24	57	1.57
5701223--5701296	33	2.2	33	90	0	112	55	21	4	18	1.59
5701287--5701373	32	2.7	32	90	0	138	49	18	12	19	1.79
5716866--5716920	21	2.6	21	91	0	74	25	10	25	38	1.88
5716877--5716920	21	2.1	21	100	0	88	25	13	27	34	1.93
5717119--5717153	14	2.6	13	86	8	52	80	2	0	17	0.84
5717639--5717670	2	16.5	2	93	6	57	50	0	0	50	1.00
5722299--5722347	20	2.4	21	83	10	57	36	6	2	55	1.37
5738911--5738964	25	2.2	25	86	0	72	46	24	1	27	1.63
5745366--5745405	19	2.2	19	86	4	55	52	0	10	37	1.35
5745417--5745451	12	3.0	12	91	4	54	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5749192--5749240	20	2.4	20	89	3	71	51	0	0	48	1.00
5749191--5749240	11	4.8	11	83	11	61	52	0	0	48	1.00
5752331--5752589	115	2.2	116	88	2	387	33	20	8	37	1.84
5767910--5767961	20	2.6	20	96	0	95	38	26	13	21	1.90
5768017--5768210	20	9.6	20	76	8	76	35	25	19	19	1.95
5768013--5768210	40	5.0	39	81	4	200	35	26	19	19	1.95
5768017--5768209	60	3.2	60	83	0	251	35	25	19	19	1.95
5768591--5768661	33	2.2	33	89	0	106	12	22	16	47	1.80
5768782--5768836	14	3.6	14	73	21	56	41	23	25	9	1.83
5768794--5768858	19	3.7	19	74	19	77	44	21	23	10	1.83
5768782--5768853	33	2.2	33	100	0	144	44	22	23	9	1.82
5768854--5768965	14	6.7	18	66	26	77	9	24	21	44	1.82
5768870--5768959	14	5.7	14	74	23	81	8	25	23	42	1.83
5768854--5768967	33	3.5	33	95	0	210	9	24	21	44	1.82
5769505--5769540	14	2.6	14	95	0	63	33	0	22	44	1.53
5769647--5769748	19	5.6	19	82	13	142	45	16	23	14	1.85
5769755--5770069	33	9.1	36	82	14	300	14	21	17	46	1.83
5769777--5770097	19	18.4	19	78	18	369	13	20	18	47	1.83
5769755--5770069	52	6.0	52	83	11	412	14	21	17	46	1.83
5769815--5769869	14	3.6	14	78	21	65	10	20	20	49	1.78
5771931--5771977	24	2.0	24	87	8	69	38	21	14	25	1.92
5772660--5772929	20	13.5	20	87	4	357	20	18	26	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5776546--5776634	9	9.3	9	74	11	70	17	22	29	30	1.97
5776578--5776632	19	2.9	19	83	5	67	18	21	32	27	1.96
5776631--5776659	14	2.1	14	100	0	58	20	55	24	0	1.44
5776650--5776676	12	2.2	12	100	0	54	18	40	25	14	1.89
5778681--5778711	3	10.3	3	100	0	62	64	0	0	35	0.94
5784830--5784870	20	2.0	20	95	0	73	17	34	24	24	1.96
5785730--5785779	23	2.2	23	85	7	66	30	10	20	40	1.85
5794182--5794321	74	1.9	74	100	0	280	36	16	16	30	1.91
5796442--5796487	2	23.0	2	100	0	92	50	0	0	50	1.00
5800619--5800664	18	2.6	18	85	0	65	19	50	17	13	1.78
5800655--5800690	18	2.0	18	94	0	63	13	44	25	16	1.85
5801939--5801974	18	2.0	18	88	0	54	52	0	16	30	1.44
5805735--5805793	31	1.9	31	89	6	93	13	42	23	20	1.88
5805754--5805790	18	2.1	18	94	0	65	13	43	27	16	1.85
5805767--5805811	13	3.3	14	84	12	58	17	40	22	20	1.92
5807052--5807086	18	1.9	18	88	0	52	54	0	17	28	1.43
5809743--5809843	31	3.2	30	75	8	94	39	2	9	47	1.52
5811410--5811478	30	2.3	30	97	2	131	37	21	23	17	1.94
5822955--5822980	2	13.0	2	100	0	52	50	0	0	50	1.00
5823300--5823340	16	2.6	16	88	3	57	36	12	21	29	1.90
5831404--5831489	19	4.4	19	67	18	59	51	0	8	40	1.32
5851478--5851503	13	2.0	13	100	0	52	76	7	0	15	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5852751--5852836	36	2.4	37	86	7	133	39	3	4	52	1.39
5853238--5853282	20	2.4	18	82	10	56	51	2	0	46	1.13
5853248--5853326	27	2.9	27	78	12	81	58	1	1	39	1.14
5853248--5853345	27	3.4	29	73	18	71	58	3	1	37	1.21
5853832--5853934	31	3.4	31	76	12	95	37	9	13	38	1.78
5855192--5855230	19	2.2	19	86	9	55	20	5	0	74	1.01
5855818--5855880	23	2.8	23	78	2	65	50	9	11	28	1.69
5859527--5859641	58	2.0	58	98	0	221	26	19	13	41	1.87
5865689--5865754	29	2.3	29	83	0	78	42	21	6	30	1.77
5865801--5865842	17	2.5	16	85	11	57	11	21	47	19	1.81
5873059--5873132	29	2.6	29	80	0	85	41	21	10	25	1.85
5873152--5873186	13	2.7	13	90	0	61	14	22	45	17	1.84
5873163--5873205	18	2.4	18	88	0	59	13	18	51	16	1.77
5883222--5883347	63	2.0	63	90	0	198	26	14	17	41	1.88
5899146--5899214	28	2.3	29	90	7	104	43	7	11	37	1.69
5899800--5899841	22	1.9	22	85	0	57	45	2	2	50	1.27
5909064--5909089	2	13.0	2	100	0	52	50	0	0	50	1.00
5912316--5912441	42	3.0	42	97	0	234	32	14	16	36	1.89
5913290--5914912	702	2.3	696	85	4	2181	32	12	15	40	1.84
5916057--5916205	75	2.0	74	92	1	244	29	15	18	36	1.91
5917791--5921575	705	5.4	710	89	5	5948	36	15	19	28	1.92
5920256--5921575	683	1.9	689	89	5	2018	36	14	19	29	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5922543--5922611	34	2.0	34	97	0	129	30	11	17	40	1.85
5925408--5925446	18	2.2	18	86	4	53	33	5	2	58	1.33
5928806--5928845	18	2.2	18	90	0	62	22	32	20	25	1.98
5929339--5929410	26	3.0	24	68	27	62	26	6	4	62	1.39
5934975--5935023	22	2.2	22	88	0	71	51	2	0	46	1.12
5934962--5935025	30	2.1	30	85	8	85	50	1	0	48	1.10
5934984--5935075	29	3.3	29	73	14	79	50	1	1	47	1.15
5935189--5935233	23	2.0	23	86	0	63	53	2	2	42	1.25
5935311--5935355	14	3.2	14	77	0	54	60	0	0	40	0.97
5936439--5936506	32	2.1	32	88	0	100	23	10	5	60	1.51

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