genome.fa.s8733.2.7.7.80.10.50.1000.3.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: VEPZ01008733.1 Hibiscus syriacus cultivar Beakdansim tig00111806_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  774200

Tables:   1   2   3   4   

This is table  3  of  4  ( 466 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)
355847--355874	11	2.5	11	100	0	56	25	0	0	75	0.81
356768--356799	16	2.0	16	93	0	55	31	12	34	21	1.91
359607--360176	110	5.2	110	88	2	785	35	22	17	24	1.95
360144--360656	240	2.1	240	91	0	821	33	22	18	24	1.97
360485--360692	110	1.9	110	88	2	319	35	24	16	23	1.95
361018--361069	3	17.3	3	80	7	61	30	0	1	67	1.02
362557--362601	12	3.7	12	85	5	63	20	0	0	80	0.72
362552--362596	20	2.3	19	85	14	56	17	2	0	80	0.82
362551--362597	17	2.9	17	76	20	55	21	2	0	76	0.89
363863--363894	16	2.0	16	93	0	55	53	12	12	21	1.71
364645--364675	6	5.2	6	96	0	53	3	45	0	51	1.17
366135--366188	26	2.1	26	82	0	63	55	0	22	22	1.44
385266--385307	18	2.3	18	100	0	84	21	38	23	16	1.93
385479--385565	43	2.0	43	97	0	165	25	25	21	27	2.00
391377--391430	24	2.2	24	87	6	74	33	9	22	35	1.86
394674--394734	24	2.6	24	79	7	63	67	1	22	8	1.27
398936--398994	26	2.3	26	96	0	109	25	13	11	49	1.76
399024--399062	20	2.0	20	100	0	78	28	10	15	46	1.78
399030--399074	20	2.2	20	84	0	54	31	17	13	37	1.89
399106--399145	20	2.0	20	95	0	71	27	25	17	30	1.97
403704--403920	116	1.9	116	97	0	407	23	12	24	39	1.89
404302--404357	11	4.9	11	82	6	67	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404302--404357	3	19.3	3	78	14	64	35	0	0	64	0.94
409714--409825	55	2.0	55	89	0	170	37	15	9	37	1.80
409813--409866	2	27.0	2	100	0	108	50	0	0	50	1.00
413897--414058	73	2.4	63	75	19	175	48	20	6	23	1.73
413920--414156	73	3.2	73	80	6	248	45	20	11	22	1.83
413920--414178	74	3.5	74	82	4	283	44	21	11	22	1.84
414590--414614	2	12.5	2	100	0	50	52	0	0	48	1.00
419075--419103	2	14.5	2	100	0	58	48	0	0	51	1.00
420059--420096	15	2.5	15	100	0	76	5	39	0	55	1.23
420829--420879	3	17.0	3	76	15	52	72	0	1	25	0.95
424498--424628	67	2.0	67	100	0	262	33	19	15	31	1.93
432165--432234	35	2.0	35	97	0	131	20	15	25	38	1.92
440661--441256	140	4.3	140	84	3	691	36	14	20	28	1.92
441489--441540	24	2.2	23	86	6	68	40	40	11	7	1.70
444194--444597	130	3.1	130	81	6	423	28	16	20	34	1.94
445846--445909	20	3.6	17	72	18	51	15	3	1	79	0.93
445846--445909	16	4.4	15	76	11	62	15	3	1	79	0.93
456763--456806	18	2.4	19	81	14	56	52	6	20	20	1.69
460148--460830	345	2.0	342	88	2	1028	36	17	12	33	1.88
463034--463074	11	3.4	12	78	21	50	75	2	4	17	1.08
465828--465868	21	2.0	21	85	9	57	34	9	19	36	1.85
468309--468401	32	2.9	32	77	15	93	20	23	35	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468318--468433	32	3.7	30	73	15	90	21	23	34	20	1.97
470514--470609	31	3.1	30	89	5	156	23	28	13	34	1.93
471742--471811	32	2.2	32	94	0	122	31	7	24	37	1.82
472502--472570	31	2.3	31	90	7	106	33	11	26	28	1.91
473012--473049	11	3.5	11	85	7	51	39	0	0	60	0.97
474208--474243	17	2.1	17	89	0	54	69	0	0	30	0.89
475765--475864	3	33.7	3	97	2	193	33	0	0	67	0.91
475899--475965	32	2.1	32	97	0	125	22	23	14	38	1.92
476377--476408	17	1.9	17	93	6	57	65	0	0	34	0.93
476478--476510	17	1.9	17	88	11	50	51	3	0	45	1.16
476527--476573	16	2.9	16	78	9	60	59	0	2	38	1.09
488952--489130	31	5.8	31	85	1	189	30	10	8	50	1.66
491145--491174	15	2.0	15	93	0	51	23	13	13	50	1.77
492252--492368	59	2.0	59	84	3	155	32	18	7	41	1.79
492565--492715	60	2.6	58	77	8	144	38	5	23	33	1.77
497118--497218	51	2.0	51	94	0	175	31	19	12	35	1.90
499430--499474	14	3.1	14	81	12	63	13	20	20	46	1.83
499430--499475	16	3.0	15	87	6	58	15	19	19	45	1.85
514794--514847	25	2.2	25	93	0	90	27	37	1	33	1.68
517571--517603	12	2.9	12	91	8	52	45	6	24	24	1.75
518506--518546	19	2.1	19	86	4	55	51	4	0	43	1.23
518629--518681	16	3.2	16	78	17	54	35	1	3	58	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518686--518718	17	1.9	17	93	0	57	18	6	9	66	1.40
519710--520823	554	2.0	554	99	0	2210	37	18	14	29	1.90
521028--521084	28	2.0	28	100	0	114	28	21	17	33	1.96
527638--527701	28	2.3	28	94	0	110	26	39	6	28	1.80
533379--533871	277	1.8	271	90	1	702	38	9	14	37	1.78
536189--536221	16	2.0	17	88	5	50	12	12	0	75	1.04
540119--540193	16	4.7	16	93	0	123	33	17	10	38	1.84
541822--541867	22	2.0	22	83	12	56	52	13	2	32	1.52
542727--542927	90	2.2	90	84	5	255	29	19	21	28	1.98
542897--542974	41	1.9	41	83	0	102	25	19	20	34	1.96
542818--543057	131	1.8	130	88	2	365	27	19	23	30	1.98
542999--543142	45	3.2	44	70	11	114	26	20	21	31	1.98
542654--543199	220	2.5	220	83	3	634	28	18	22	31	1.97
542949--543147	89	2.2	90	86	1	274	27	20	22	29	1.98
544446--544507	20	3.2	20	79	18	69	14	4	0	80	0.87
544479--544530	1	52.0	1	76	0	50	5	5	0	88	0.63
544447--544536	23	3.9	23	79	2	92	14	5	0	80	0.89
544479--544515	8	4.8	8	90	6	58	2	5	0	91	0.48
544479--544536	15	3.8	15	81	2	71	6	6	0	86	0.72
544478--544530	18	2.7	20	75	19	58	7	5	0	86	0.69
544458--544529	7	10.7	7	77	5	53	11	5	0	83	0.80
544458--544549	46	2.0	46	82	4	114	9	8	1	80	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548028--548230	109	1.9	109	83	6	268	21	12	18	47	1.81
548574--548620	24	2.0	24	83	8	60	14	6	12	65	1.44
549055--549580	131	4.0	131	90	1	781	32	11	16	39	1.84
553447--553477	15	2.0	16	93	6	55	19	0	29	51	1.47
554025--554081	24	2.4	24	87	0	87	28	28	21	22	1.99
555143--555187	20	2.2	20	100	0	90	15	28	35	20	1.93
555570--555611	15	2.9	15	85	3	59	16	2	9	71	1.23
555697--555746	24	2.1	24	88	7	75	26	2	14	58	1.47
561177--561218	15	2.9	15	85	3	59	16	2	9	71	1.23
561304--561353	24	2.1	24	88	7	75	26	2	14	58	1.47
578166--578909	2	376.0	2	63	21	119	49	3	5	42	1.41
578166--578245	9	9.5	8	73	13	54	52	2	1	43	1.22
578165--578271	42	2.6	42	86	8	150	48	2	1	46	1.27
578385--578445	21	2.9	21	80	4	70	45	1	3	49	1.28
578429--578482	17	3.0	17	83	8	54	44	1	3	50	1.30
578344--578455	11	10.4	11	68	17	74	46	1	3	48	1.30
578567--579134	39	15.3	37	68	22	161	51	2	7	38	1.43
578906--579434	7	74.4	7	69	24	212	52	2	8	36	1.46
578755--579214	69	6.4	69	72	19	211	50	2	8	38	1.46
578652--579451	22	36.8	22	69	22	320	52	2	8	37	1.46
578939--579352	124	3.3	120	74	20	114	52	2	9	36	1.47
579096--579443	57	6.0	57	72	20	181	52	2	8	36	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
578896--579434	30	18.1	29	69	23	188	52	2	8	36	1.46
578568--579451	36	24.3	36	70	22	322	52	2	7	37	1.44
578930--579451	58	8.7	59	69	20	213	52	2	8	36	1.46
579257--579463	35	6.0	34	74	17	137	52	2	8	36	1.47
579099--579453	65	5.5	66	70	19	202	52	2	8	36	1.45
579448--579842	81	5.0	82	88	9	617	50	6	7	35	1.55
579448--579842	161	2.5	161	89	7	616	50	6	7	35	1.55
579701--579838	70	2.0	71	94	4	244	52	5	6	34	1.51
581268--581313	16	2.9	16	93	0	83	39	13	21	26	1.90
586011--586178	59	2.8	61	85	7	220	31	17	15	35	1.91

Tables:   1   2   3   4