genome.fa.s3805.2.7.7.80.10.50.1000.2.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: VEPZ01003805.1 Hibiscus syriacus cultivar Beakdansim tig00008145_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2300233

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  2  of  11  ( 1239 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)
329337--329390	24	2.2	24	93	0	90	20	18	20	40	1.91
331900--331954	19	2.8	19	83	2	65	38	21	21	18	1.94
331861--331954	20	4.7	20	71	13	68	35	23	20	21	1.96
331931--332020	33	2.7	33	92	0	144	46	17	23	12	1.82
332020--332065	19	2.4	19	96	0	83	13	15	26	45	1.82
332037--332128	33	2.8	33	83	3	114	13	18	20	47	1.81
332236--332272	14	2.6	14	91	0	65	45	21	0	32	1.52
333624--333690	21	3.2	21	68	4	55	19	20	35	23	1.95
333624--333746	42	2.9	41	79	7	113	21	18	36	22	1.95
334167--334210	19	2.3	19	96	0	79	50	25	15	9	1.74
334255--334292	20	1.9	20	100	0	76	5	15	28	50	1.66
334261--334358	33	2.9	33	84	1	133	9	17	24	48	1.76
334475--334850	94	4.1	93	92	2	580	47	17	12	22	1.80
336537--336668	19	7.1	19	78	11	148	46	19	21	11	1.81
336664--336744	33	2.5	33	91	0	126	9	19	22	48	1.78
336724--336799	20	3.8	20	75	1	71	11	15	17	55	1.69
337350--337443	20	4.7	20	82	2	125	20	21	20	38	1.94
337350--337443	41	2.3	40	87	1	125	20	21	20	38	1.94
337440--337485	21	2.2	21	88	0	65	36	17	28	17	1.92
338857--338911	25	2.2	24	81	12	58	60	0	3	36	1.15
347098--347153	21	2.7	21	85	0	76	23	8	30	37	1.85
355544--356417	134	6.5	134	87	1	1198	32	19	17	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355510--356417	401	2.3	402	87	2	1301	33	19	17	29	1.95
356950--357052	45	2.3	45	86	0	134	43	17	14	24	1.86
357617--357668	10	5.4	10	75	6	54	67	1	1	28	1.12
359722--359773	21	2.6	21	90	6	81	32	13	7	46	1.72
360508--360532	8	3.1	8	100	0	50	76	0	24	0	0.80
363853--363904	21	2.6	21	90	6	81	32	13	7	46	1.72
365083--365140	30	1.9	30	86	6	82	39	8	18	32	1.82
380426--380507	3	27.7	3	80	11	98	31	0	1	67	0.99
380426--380508	21	3.8	23	84	12	113	31	0	1	67	0.98
380426--380506	38	2.1	39	86	6	112	32	0	1	66	0.99
380427--380509	22	3.8	22	80	16	102	32	0	1	66	1.00
381885--381933	13	3.3	15	73	21	50	36	0	0	63	0.95
381910--382007	49	2.0	49	81	15	114	41	4	1	53	1.27
390848--391392	113	4.9	113	89	4	824	38	14	19	27	1.90
390855--391392	218	2.4	220	90	4	798	38	14	19	27	1.90
391331--391394	20	3.2	20	63	20	53	42	9	23	25	1.84
392097--392181	3	28.7	3	81	11	104	32	1	0	65	1.00
392097--392180	38	2.2	39	87	8	127	33	1	0	65	1.00
392101--392183	22	3.8	22	80	16	102	33	1	0	65	1.01
393551--393599	13	3.3	15	73	21	50	36	0	0	63	0.95
395202--395289	21	4.2	21	95	0	149	18	28	18	35	1.94
395286--395432	20	7.3	20	91	1	240	38	20	19	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395605--395665	22	2.8	22	90	2	97	24	37	9	27	1.87
398649--398742	20	4.7	20	89	2	145	34	24	22	19	1.97
398714--398803	38	2.5	36	82	10	96	43	18	23	14	1.87
398747--398803	19	3.0	19	100	0	114	47	15	21	15	1.82
398822--398897	33	2.3	34	90	2	118	14	23	18	43	1.87
399019--399055	14	2.6	14	86	0	56	48	21	0	29	1.50
400999--401105	20	5.3	20	94	0	178	37	21	20	20	1.95
401079--401191	34	3.4	34	80	2	156	40	21	20	17	1.91
401219--401362	20	7.5	20	81	9	165	21	20	18	39	1.92
401181--401362	40	4.9	40	73	13	165	20	20	18	40	1.91
403220--403289	20	3.5	20	90	0	86	41	25	17	15	1.89
403333--403379	20	2.3	20	88	0	67	21	19	23	36	1.95
404000--404045	21	2.2	21	88	0	65	36	17	28	17	1.92
413224--413288	27	2.4	27	94	5	114	50	6	4	38	1.48
413224--413469	27	8.9	27	71	18	107	44	4	6	43	1.51
413310--413764	22	21.4	20	67	18	94	44	4	7	44	1.51
413278--413870	13	43.8	13	66	21	111	43	4	7	44	1.52
413511--413750	27	8.9	27	74	13	165	45	5	7	42	1.54
413629--413688	29	2.1	29	84	6	77	43	6	8	41	1.61
413202--413757	280	2.0	285	89	3	865	44	4	7	43	1.53
413303--413882	20	31.7	18	65	24	95	43	4	7	45	1.51
413772--413826	24	2.2	24	78	9	58	43	7	5	43	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413725--413915	31	6.1	31	71	18	114	40	3	7	48	1.48
413876--413924	14	2.9	18	74	22	61	40	6	6	46	1.53
413901--413980	26	2.9	26	74	18	72	45	6	5	43	1.51
413962--414000	20	2.0	20	84	0	51	46	10	5	38	1.60
417503--417969	112	4.2	112	92	1	785	44	12	12	31	1.79
418347--418545	87	2.3	87	91	1	310	45	9	11	34	1.72
418480--418539	23	2.6	23	86	0	84	40	10	18	31	1.84
418765--419104	114	3.0	112	86	4	463	44	11	10	33	1.75
419018--419165	80	1.9	79	88	1	224	45	11	10	32	1.75
423367--423436	36	1.9	36	88	11	108	24	30	20	25	1.99
426525--426582	18	3.1	18	81	13	80	27	12	10	50	1.72
426525--426582	21	3.0	20	83	11	77	27	12	10	50	1.72
426795--426863	35	1.9	37	85	5	97	24	23	20	31	1.98
429252--429299	19	2.5	19	96	0	87	39	0	20	39	1.53
432386--432423	15	2.5	15	95	4	67	21	10	18	50	1.76
436799--436881	23	3.7	23	80	7	91	24	32	25	18	1.97
439074--439133	30	2.0	30	93	6	104	35	6	15	43	1.72
439213--439291	21	3.8	21	94	0	131	20	40	17	21	1.91
439213--439332	42	2.9	42	86	7	147	22	36	18	22	1.95
439213--439331	63	1.9	63	85	3	168	22	36	18	22	1.95
442702--442770	30	2.2	30	85	15	95	34	5	17	42	1.73
442711--442770	30	2.0	30	93	6	104	33	6	16	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
442850--442907	21	2.8	21	86	0	89	22	37	17	22	1.93
442892--442948	22	2.7	21	79	12	64	24	31	19	24	1.98
442969--443025	21	2.7	21	100	0	114	22	24	28	24	2.00
443156--443195	20	1.9	22	90	10	66	37	40	10	12	1.77
443836--443870	12	3.0	12	91	4	54	45	8	2	42	1.49
450944--451004	30	2.0	30	96	0	113	40	0	18	40	1.50
451254--451321	35	1.9	35	87	0	100	42	19	1	36	1.60
451326--451400	35	2.1	35	90	0	114	34	0	21	44	1.53
454651--454675	10	2.5	10	100	0	50	64	8	0	28	1.22
455036--455167	39	3.4	38	80	9	133	31	24	23	20	1.98
465146--465172	12	2.2	12	100	0	54	22	25	29	22	1.99
465987--466121	39	3.4	41	78	8	120	30	20	28	20	1.98
466055--466144	39	2.3	39	90	0	144	30	24	30	15	1.96
467363--467421	29	2.0	29	86	3	82	38	20	5	35	1.75
468136--468199	9	7.1	8	79	20	65	4	26	3	65	1.27
468136--468205	23	3.0	23	100	0	140	4	27	4	64	1.31
472685--472741	24	2.4	24	81	0	69	35	14	14	36	1.86
490368--490447	40	2.0	40	100	0	160	40	12	25	22	1.89
492978--493062	42	2.0	42	93	0	143	17	27	21	34	1.96
494605--494644	19	2.1	19	85	0	53	47	2	0	50	1.14
494762--494790	14	2.0	15	93	6	51	65	0	0	34	0.93
498789--498854	27	2.4	28	84	5	98	27	19	22	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500495--500646	75	2.0	75	100	0	304	42	18	7	30	1.79
501783--501934	75	2.0	75	100	0	304	42	18	7	30	1.79
504287--504327	13	3.2	13	100	0	82	14	21	14	48	1.80
514713--514737	13	1.9	13	100	0	50	20	8	0	72	1.10
530527--530567	22	1.9	21	94	0	64	43	7	7	41	1.60
536951--537003	17	3.1	17	71	10	54	28	9	28	33	1.88
536983--537054	29	2.4	30	93	2	128	30	9	27	31	1.89
538381--538460	17	4.8	16	77	7	70	36	8	10	45	1.69
538414--538465	17	3.1	17	91	0	86	40	11	7	40	1.70
544345--544405	12	4.9	12	70	21	54	40	6	8	44	1.60

Tables:   1   2   3   4   5   6   7   8   9   10   11