genome.fa.s8048.2.7.7.80.10.50.1000.2.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: VEPZ01008048.1 Hibiscus syriacus cultivar Beakdansim tig00110540_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  541079

Tables:   1   2   3   

This is table  2  of  3  ( 254 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)
270951--271036	35	2.5	35	84	0	100	40	20	1	37	1.61
271005--271047	21	2.0	21	100	0	86	46	13	0	39	1.44
271170--271203	16	2.0	18	88	11	54	26	2	5	64	1.30
271669--271916	130	1.9	130	93	0	424	37	12	14	35	1.84
275251--275331	39	2.1	39	85	0	108	50	0	0	49	1.00
284974--285037	2	32.0	2	87	0	92	50	6	0	43	1.27
284974--285037	12	5.5	12	90	7	105	50	6	0	43	1.27
284974--285036	22	2.9	22	97	0	117	50	6	0	42	1.27
285311--285350	10	4.0	10	86	0	62	60	20	12	7	1.56
285328--285401	23	3.2	23	73	7	69	63	16	8	12	1.51
285716--285757	14	3.0	14	85	0	57	61	14	9	14	1.55
285704--285759	24	2.3	24	75	6	60	58	14	10	16	1.62
285870--285913	21	2.1	21	100	0	88	54	9	9	27	1.62
294151--294211	3	21.0	3	74	12	56	65	3	3	27	1.24
294156--294218	29	2.2	30	85	8	94	65	4	4	25	1.32
294370--294704	43	7.9	43	75	11	228	26	19	31	22	1.98
294377--294541	83	2.0	83	96	2	305	28	19	30	21	1.97
294537--294648	46	2.5	43	86	4	143	24	21	30	24	1.99
294785--294902	63	1.9	62	86	8	168	41	11	18	27	1.86
295061--295176	37	3.3	36	67	24	104	44	12	12	30	1.79
295088--295221	29	4.4	28	72	21	101	43	14	11	30	1.81
294999--295211	67	3.3	66	86	5	265	45	13	12	29	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295155--295223	29	2.4	29	90	7	106	42	15	8	33	1.78
295311--295421	28	4.1	25	81	11	96	47	13	9	29	1.73
295326--295427	28	3.7	29	83	7	115	46	14	8	30	1.75
295733--295787	28	2.0	28	96	0	101	38	14	23	23	1.92
295970--296031	21	3.1	21	62	17	51	35	12	20	30	1.91
295964--296058	38	2.6	36	83	6	118	37	12	20	29	1.89
297626--297696	12	6.5	11	78	12	76	5	12	11	70	1.32
297649--297718	17	3.6	18	68	27	54	2	15	11	70	1.28
297613--297718	42	2.5	42	96	1	196	3	16	11	68	1.33
298329--298399	20	3.0	24	69	22	78	40	11	23	23	1.87
298316--298390	20	3.5	20	70	20	62	37	10	25	26	1.89
298314--298407	46	2.1	45	89	2	143	39	9	24	26	1.86
299585--299646	32	2.0	32	96	3	117	61	9	14	14	1.57
303212--303275	3	22.0	3	75	12	62	65	3	3	28	1.23
303214--303281	32	2.1	32	89	5	102	64	4	4	26	1.31
304221--304261	16	2.3	18	84	12	50	39	0	9	51	1.35
305714--305839	60	2.1	61	88	4	184	33	16	14	35	1.89
308309--308347	17	2.2	18	90	9	62	15	0	0	84	0.62
311061--311237	88	2.0	88	98	0	345	23	18	14	44	1.86
312353--312389	18	2.1	18	94	0	65	24	5	51	18	1.67
313747--313776	2	15.0	2	100	0	60	50	0	0	50	1.00
313833--313885	25	2.1	25	100	0	106	33	7	11	47	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317075--317172	45	2.2	45	88	0	142	34	6	17	41	1.74
318395--318661	135	2.0	135	84	1	347	19	23	24	32	1.97
318631--318967	153	2.2	153	83	4	403	16	24	22	36	1.94
318812--319216	138	3.0	136	85	4	487	18	21	24	36	1.95
324146--324449	93	3.3	90	79	4	279	34	21	16	27	1.95
324179--324486	93	3.3	91	79	8	300	34	21	17	26	1.95
324521--324893	73	5.1	73	93	0	593	33	26	16	23	1.96
326107--326138	14	2.3	14	94	0	55	46	0	0	53	1.00
329279--329312	17	2.1	17	88	5	52	41	0	0	58	0.98
331057--331081	12	2.1	12	100	0	50	24	12	16	48	1.79
333652--333690	20	2.0	20	94	0	69	23	7	28	41	1.82
345484--345518	18	1.9	18	94	0	61	31	37	8	22	1.85
361854--361939	32	2.8	30	75	7	82	34	20	13	30	1.92
365488--365527	18	2.2	19	90	4	64	40	0	0	60	0.97
367327--367352	12	2.2	12	100	0	52	57	0	0	42	0.98
368163--368213	22	2.4	22	96	3	95	39	0	3	56	1.18
372213--372242	3	10.0	3	100	0	60	33	0	66	0	0.92
373592--373628	18	2.0	19	89	5	58	48	0	0	51	1.00
376731--376787	23	2.3	25	76	14	73	42	8	19	29	1.81
376743--376790	23	2.1	23	92	0	78	39	8	22	29	1.83
380504--381488	201	4.9	201	79	5	1107	31	15	15	37	1.89
380506--381511	405	2.5	404	90	2	1519	31	15	15	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382998--383647	182	3.6	182	86	1	847	27	17	12	43	1.84
402906--402979	31	2.4	31	90	0	112	43	14	21	20	1.88
410137--410263	60	2.1	60	86	0	173	31	16	15	36	1.90
414655--414764	54	2.0	54	85	0	148	30	26	26	17	1.97
425240--425284	23	1.9	24	86	4	65	35	8	0	55	1.31
428114--428146	13	2.5	13	95	0	57	21	0	30	48	1.50
430848--430899	21	2.5	21	81	3	61	38	19	25	17	1.93
430888--430941	20	2.7	20	97	0	99	31	24	18	25	1.97
430885--431002	61	1.9	62	84	5	159	37	22	16	23	1.94
430908--431002	41	2.3	41	83	3	129	36	22	16	24	1.94
431476--431534	20	3.0	20	87	0	73	16	18	22	42	1.89
431671--431725	25	2.2	24	78	15	58	20	9	18	52	1.71
432854--432898	18	2.5	18	88	0	72	26	44	15	13	1.83
433380--433425	20	2.3	20	88	0	65	36	26	21	15	1.93
433419--433515	19	5.6	19	70	22	88	47	18	19	14	1.83
433419--433510	33	2.8	33	93	0	148	48	18	18	14	1.80
433709--433796	41	2.1	41	85	2	122	21	43	14	20	1.88
434417--434483	21	3.2	21	68	4	55	19	19	35	25	1.95
434456--434535	42	1.9	42	84	0	106	22	17	38	21	1.93
434757--434941	91	2.0	90	91	6	300	46	18	12	21	1.83
436628--436792	19	9.1	19	75	15	152	44	20	23	12	1.85
436628--436792	33	4.6	38	78	14	170	44	20	23	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436628--436793	71	2.3	73	86	3	246	43	20	22	12	1.85
436788--436854	19	3.5	19	81	2	80	11	16	22	49	1.78
437420--437468	20	2.4	21	79	6	55	42	18	18	20	1.89
437516--437568	21	2.5	22	81	6	74	33	18	26	20	1.96
442964--443006	17	2.5	17	100	0	86	46	4	0	48	1.22
445448--445496	21	2.2	22	82	13	57	24	0	12	63	1.29
447242--447645	210	1.9	213	87	3	593	27	9	24	38	1.86
447997--448092	29	3.3	29	89	0	147	35	22	4	37	1.74
450666--450724	31	1.9	31	85	0	82	45	11	16	25	1.82
458166--458340	54	3.2	54	89	1	244	25	12	29	33	1.92
467519--467903	54	7.2	54	89	3	537	30	24	16	28	1.96
470437--470493	31	1.9	29	82	10	71	21	3	26	49	1.65
471320--471512	94	2.1	93	82	4	228	31	10	25	32	1.90
472886--472980	46	2.1	46	87	0	136	37	6	8	47	1.59
475920--475953	3	11.7	3	93	6	61	0	29	0	70	0.87
475947--475971	11	2.3	11	100	0	50	8	16	8	68	1.38
487991--488186	96	2.0	96	99	0	383	42	15	7	34	1.75
488116--488232	55	2.1	55	95	0	207	36	16	11	35	1.84
488646--488785	60	2.3	60	95	0	244	37	17	10	35	1.83
493624--494188	4	141.5	4	85	8	609	26	1	22	50	1.57
493511--493967	231	2.0	231	99	0	896	29	3	16	50	1.60
506715--507036	155	2.1	157	83	5	402	50	6	13	28	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508765--508818	21	2.6	21	96	0	99	42	9	14	33	1.78
509305--509362	20	2.6	22	86	10	75	31	18	22	27	1.97
509834--509863	2	15.0	2	100	0	60	50	0	0	50	1.00
510095--510136	12	3.3	12	79	20	50	45	0	19	35	1.50
510204--510297	32	3.0	32	80	7	111	31	17	19	31	1.94
511231--511411	43	4.2	43	77	3	177	32	22	20	24	1.98
511251--511386	42	3.2	42	80	5	139	30	22	21	25	1.99
511657--511713	27	2.0	28	93	6	98	40	22	14	22	1.90
515645--515679	16	2.1	18	89	10	56	65	0	8	25	1.21
516267--516368	34	2.9	36	85	7	154	29	13	12	44	1.81

Tables:   1   2   3