genome.fa.s7999.2.7.7.80.10.50.1000.1.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  1  of  50  ( 5918 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)
2154--2183	13	2.4	13	94	5	53	26	30	0	43	1.55
7807--7856	17	3.1	15	76	18	55	40	4	4	52	1.39
9460--9530	18	4.0	18	81	7	74	78	4	11	5	1.05
9463--9539	37	2.0	40	90	7	124	79	3	11	5	1.03
9481--9532	17	2.8	19	80	14	63	80	1	13	3	0.93
9481--9544	19	3.4	19	78	4	76	78	3	12	6	1.06
12437--12466	2	15.5	2	93	6	53	50	0	0	50	1.00
13798--13845	16	3.0	16	77	17	55	16	16	0	66	1.25
14084--14151	34	2.0	33	88	2	100	76	4	13	5	1.12
14113--14137	13	1.9	13	100	0	50	84	0	16	0	0.63
21976--22024	24	2.1	24	84	3	64	71	6	18	4	1.23
22170--22219	24	2.0	25	85	11	68	16	20	0	64	1.30
30173--30210	19	2.1	18	85	9	51	39	18	5	36	1.73
31010--31061	21	2.6	19	87	6	68	36	13	3	46	1.62
31727--31797	27	2.6	27	76	24	78	77	2	18	1	0.97
31744--31794	5	9.8	5	76	16	50	78	1	17	1	0.94
31726--31802	16	4.7	15	78	13	66	76	2	19	1	0.97
34305--34342	19	2.1	18	85	9	51	39	18	5	36	1.73
35149--35200	21	2.6	21	90	6	81	34	13	5	46	1.67
46360--46429	24	3.0	23	85	4	86	35	22	21	20	1.96
47823--47877	24	2.3	25	81	6	60	32	16	21	29	1.95
54000--54051	21	2.6	21	90	6	81	34	13	5	46	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54789--54823	8	4.1	8	86	13	52	77	0	22	0	0.78
54789--54832	13	3.4	13	82	17	56	77	0	22	0	0.77
58207--58241	11	2.9	12	91	8	54	25	8	48	17	1.75
61349--61381	14	2.4	14	90	5	50	84	0	15	0	0.61
61344--61381	5	8.0	5	82	11	53	84	0	15	0	0.63
61341--61380	9	4.3	9	93	3	62	87	0	12	0	0.54
83963--83992	13	2.4	13	94	5	53	43	0	30	26	1.55
97270--97344	15	5.0	15	95	0	132	49	0	0	50	1.00
97285--97799	32	17.4	31	67	25	194	37	0	10	52	1.36
97330--97911	54	10.8	54	79	8	632	35	0	11	52	1.38
97375--97471	22	4.0	22	71	23	86	34	0	13	52	1.41
97429--97678	76	3.2	77	86	5	369	34	0	12	52	1.39
97563--97627	22	3.0	22	95	0	121	36	0	12	50	1.40
97639--97681	22	2.0	22	95	0	77	41	0	6	51	1.29
97859--97901	22	2.0	22	95	0	77	34	0	11	53	1.37
97926--97984	31	1.9	31	92	0	100	42	10	6	40	1.65
99982--100824	417	2.0	418	93	2	1424	27	22	14	35	1.93
105026--105087	17	3.8	16	78	19	58	74	4	16	4	1.17
105045--105087	14	2.8	14	83	16	50	74	2	16	6	1.14
111628--111653	5	5.2	5	100	0	52	23	38	19	19	1.93
111723--111758	2	18.0	2	100	0	72	50	0	0	50	1.00
118413--118464	13	4.0	13	76	0	59	36	19	19	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
122611--122645	4	8.8	4	100	0	70	77	0	0	22	0.78
123407--123487	29	2.8	28	70	15	67	34	20	6	38	1.78
123358--123501	58	2.5	58	79	4	130	29	21	6	42	1.79
128557--128594	9	4.3	9	80	6	51	60	0	2	36	1.11
128562--128594	17	1.9	17	93	0	57	57	0	3	39	1.14
128738--128764	2	13.5	2	100	0	54	48	0	0	51	1.00
137388--137482	35	2.7	35	82	14	131	50	20	6	23	1.70
148077--148126	21	2.4	21	96	0	91	14	44	24	18	1.86
151079--151126	2	24.0	2	100	0	96	50	0	0	50	1.00
151936--151963	3	9.3	3	100	0	56	64	0	0	35	0.94
153926--153989	25	2.7	24	83	7	76	31	25	18	25	1.98
153886--154007	24	5.1	24	76	9	83	32	22	22	22	1.98
154135--154173	14	2.7	15	88	4	53	33	17	7	41	1.79
160264--160337	25	3.0	24	75	11	71	29	21	22	25	1.99
160277--160337	24	2.5	24	83	2	77	31	22	24	21	1.98
164761--164799	20	2.0	19	95	5	69	30	17	30	20	1.96
172785--172833	21	2.5	19	83	6	53	24	4	0	71	1.03
175518--175581	31	2.1	31	87	0	92	25	7	15	51	1.70
183515--183548	12	2.8	12	100	0	68	17	14	17	50	1.79
194065--194229	36	4.5	35	76	18	115	44	2	7	44	1.46
194065--194252	38	5.1	35	83	11	157	45	2	7	44	1.46
194065--194252	74	2.5	74	87	4	236	45	2	7	44	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
195940--196039	40	2.5	41	91	1	166	16	30	9	45	1.78
202971--202997	2	13.5	2	100	0	54	51	0	0	48	1.00
203066--203095	13	2.3	13	94	0	51	43	6	20	30	1.77
203169--203256	13	6.8	13	82	0	113	34	20	18	27	1.96
203163--203256	26	3.6	26	86	0	125	35	19	18	27	1.95
203448--203500	17	3.1	17	88	0	79	41	5	15	37	1.70
204720--206200	85	17.5	85	84	3	1806	34	22	18	24	1.96
204724--206200	680	2.2	682	86	2	2040	34	22	18	24	1.96
206944--207203	39	6.7	39	83	7	300	43	2	6	48	1.40
206933--207203	77	3.5	77	85	9	358	43	2	6	47	1.40
207162--207239	24	3.2	24	82	13	90	35	3	6	53	1.45
208430--208462	4	8.0	4	93	6	57	24	0	0	75	0.80
208398--208512	49	2.4	49	80	7	128	20	6	1	71	1.18
208480--208533	17	3.1	18	81	7	76	20	1	0	77	0.86
210747--210817	26	2.7	25	89	6	97	54	15	8	21	1.67
210756--210817	26	2.4	26	94	0	106	54	17	9	17	1.69
215111--215170	24	2.5	25	77	20	65	43	1	1	53	1.20
216485--216541	22	2.7	21	86	7	80	29	21	12	36	1.90
218321--218523	106	1.9	106	84	2	273	39	4	30	24	1.76
218363--218573	106	2.0	106	85	3	291	38	5	31	24	1.78
218320--218586	53	5.0	54	76	6	190	38	5	32	23	1.77
219371--219612	33	7.5	33	80	10	295	43	7	6	42	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
219371--219509	42	3.1	41	77	16	127	43	6	6	43	1.56
219397--219440	18	2.4	18	92	0	70	45	4	4	45	1.44
219664--219714	2	27.0	2	88	11	81	49	0	0	50	1.00
220518--220796	30	9.3	30	71	9	160	37	7	1	54	1.35
220518--220796	60	4.7	59	74	10	210	37	7	1	54	1.35
221826--221918	44	2.1	44	95	0	168	37	8	13	39	1.76
234498--234541	22	2.0	22	81	0	52	36	40	2	20	1.65
247081--247120	20	1.9	22	90	10	66	37	40	10	12	1.77
247699--247738	21	1.9	21	84	0	53	32	12	10	45	1.75
250011--250199	45	4.2	45	84	2	245	31	23	5	39	1.79
250024--250201	90	2.0	91	92	4	297	30	23	6	39	1.79
250160--250247	33	2.7	33	96	0	158	25	26	10	38	1.87
250184--250257	33	2.6	25	70	28	67	25	22	9	41	1.84
251777--251844	29	2.4	28	78	7	73	32	19	7	41	1.79
254545--254631	19	4.3	20	67	23	58	5	16	0	78	0.94
254556--254631	10	7.2	10	74	20	57	6	15	0	77	0.96
254544--254603	17	3.6	17	84	10	88	6	16	0	76	0.99
254556--254632	26	3.0	25	71	19	61	7	15	0	76	1.00
257225--257461	45	5.3	45	86	0	305	31	22	7	39	1.81
257225--257458	90	2.6	90	93	0	380	31	22	7	38	1.82
257570--257691	61	2.0	61	83	3	156	31	28	16	22	1.96
258931--258998	29	2.4	28	78	7	73	29	20	7	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
259411--259445	17	2.0	18	88	5	54	37	17	0	45	1.48
260077--260147	29	2.4	28	78	17	81	33	16	8	40	1.79
262865--262919	17	3.3	16	82	12	67	7	14	0	78	0.96
262875--262939	31	2.1	32	82	8	80	6	16	0	76	0.97
265442--265563	40	3.0	40	97	0	235	23	16	27	32	1.96
265668--265785	47	2.6	44	79	10	130	40	8	19	31	1.81
266237--266289	22	2.4	22	100	0	106	20	35	20	22	1.96
268615--268703	6	15.3	6	71	14	71	77	3	17	1	0.97
268615--268706	34	2.7	34	80	14	100	78	3	17	1	0.95
268653--268705	16	3.3	15	85	12	70	77	3	18	0	0.92

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