genome.fa.s8323.2.7.7.80.10.50.1000.4.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  4  of  26  ( 3017 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)
541971--542045	30	2.5	30	82	6	80	38	0	1	60	1.06
542187--542240	17	3.2	17	72	0	54	31	0	3	64	1.11
542365--542825	229	2.0	229	96	0	859	24	19	26	29	1.99
543998--544045	21	2.3	21	85	0	60	25	39	12	22	1.89
544049--544121	21	3.5	21	88	7	112	17	34	27	20	1.95
544644--544740	33	2.9	34	84	3	124	55	5	3	36	1.38
544642--544747	34	3.2	33	81	8	124	54	5	2	36	1.39
545132--545433	128	2.4	128	96	0	559	33	18	24	23	1.97
548614--548656	23	1.9	22	86	13	61	65	4	0	30	1.13
550020--550153	3	45.0	3	91	5	211	67	0	1	31	1.00
550518--550934	119	3.4	123	86	5	573	27	19	14	39	1.90
551273--551343	19	3.7	19	100	0	142	35	30	16	16	1.92
558443--558471	14	2.0	15	93	6	51	6	3	27	62	1.37
558518--558547	2	15.0	2	100	0	60	50	0	0	50	1.00
559174--559325	45	3.4	44	75	12	150	30	20	15	32	1.94
560394--560477	22	3.8	22	85	0	114	36	11	14	36	1.83
561086--561123	18	2.1	18	95	0	67	52	2	10	34	1.50
561463--561509	13	3.4	14	82	11	53	8	10	0	80	0.89
561463--561510	15	3.3	15	80	13	57	8	12	0	79	0.94
569119--569143	12	2.1	12	100	0	50	12	32	0	56	1.36
572886--572925	8	5.4	8	80	17	50	65	0	0	35	0.93
572885--572925	21	1.9	21	90	5	64	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573889--573944	25	2.2	25	100	0	112	17	26	25	30	1.97
574338--574435	3	32.0	3	76	11	92	67	0	3	29	1.06
575774--575812	17	2.2	18	86	4	53	74	5	0	20	1.01
575783--575818	18	2.1	17	89	5	54	66	5	0	27	1.13
578383--578452	37	1.9	37	91	2	115	47	0	5	47	1.26
579303--579336	17	2.0	17	88	0	50	29	17	0	52	1.45
586472--586515	2	22.0	2	100	0	88	50	0	0	50	1.00
586904--586953	22	2.4	21	90	6	75	32	24	18	26	1.97
586904--586961	20	2.8	20	86	5	62	32	20	20	25	1.97
590433--590528	44	2.2	44	86	3	131	31	22	20	25	1.98
592821--592855	13	2.6	14	86	13	56	45	8	5	40	1.58
593193--593321	65	2.0	64	83	4	161	29	20	16	33	1.95
593199--593340	65	2.2	65	80	7	155	30	19	17	32	1.95
597278--597404	2	64.0	2	98	1	247	49	0	0	50	1.00
597793--597842	22	2.4	20	90	6	73	32	24	18	26	1.97
597793--597852	20	2.9	20	87	5	75	33	21	20	25	1.97
604845--604895	15	3.4	15	75	20	61	62	0	1	35	1.06
604847--604903	17	3.6	17	75	18	68	59	0	3	36	1.14
604842--604914	30	2.4	30	100	0	146	58	0	2	38	1.12
604860--604910	15	3.4	15	75	20	61	58	0	3	37	1.16
617425--617485	30	2.0	30	90	0	95	24	18	36	21	1.95
617425--617476	15	3.5	15	81	0	68	25	15	40	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
617425--617485	15	4.1	15	78	4	61	24	18	36	21	1.95
618225--618275	26	1.9	27	84	4	68	52	1	13	31	1.51
622488--622581	31	3.0	31	93	3	154	39	24	18	18	1.92
623234--623394	64	2.5	64	82	4	191	28	17	20	33	1.95
626845--626969	31	4.0	31	92	2	207	39	22	19	19	1.93
627621--627782	64	2.5	64	83	4	202	29	17	19	33	1.95
627820--627872	21	2.5	21	100	0	106	28	20	22	28	1.99
628341--628370	3	10.0	3	92	0	51	63	0	33	3	1.11
631280--631324	22	2.2	22	84	11	60	66	4	2	26	1.22
645941--646603	333	2.0	331	97	1	1269	34	16	20	28	1.95
663156--663327	82	2.1	83	93	1	292	46	9	11	32	1.72
667973--668022	24	2.1	24	88	7	75	58	14	2	26	1.47
669164--669206	9	4.9	9	82	5	61	2	11	0	86	0.67
669164--669206	17	2.4	18	88	3	61	2	11	0	86	0.67
673555--673603	24	2.0	24	88	7	73	57	14	2	26	1.48
688333--688385	21	2.6	20	85	5	79	13	30	33	22	1.92
688466--688660	95	2.1	95	95	1	347	41	7	13	37	1.72
690964--691026	21	3.0	21	88	2	92	12	25	39	22	1.89
692000--692027	2	14.0	2	100	0	56	50	0	0	50	1.00
694720--694756	20	1.9	19	89	10	58	45	10	24	18	1.81
699911--700004	49	1.9	49	88	0	143	54	26	9	9	1.63
702075--702118	22	2.0	22	95	0	79	34	22	15	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
712099--712143	2	22.5	2	100	0	90	48	0	0	51	1.00
715158--715214	29	1.9	30	82	3	71	19	17	8	54	1.68
720184--720317	40	3.3	40	92	0	223	30	14	13	41	1.85
720323--720415	36	2.6	36	85	0	132	26	23	16	33	1.95
720349--720464	51	2.2	51	81	7	117	25	21	17	36	1.95
720401--720497	39	2.5	39	89	0	149	27	18	15	38	1.91
720511--720728	43	4.8	43	79	13	249	27	13	28	30	1.94
720542--720649	55	2.0	55	94	3	191	30	12	27	29	1.92
720736--721058	90	3.6	90	90	2	472	26	18	20	34	1.96
725294--725339	24	1.9	24	100	0	92	63	8	10	17	1.51
725280--725345	24	2.9	23	86	10	91	63	9	10	16	1.50
726458--726496	3	13.3	3	94	5	71	66	0	0	33	0.92
726459--726493	17	2.1	17	100	0	70	65	0	0	34	0.93
726458--726503	20	2.2	20	96	3	83	65	0	0	34	0.93
726494--726564	23	3.0	24	75	10	74	52	7	1	39	1.38
726552--726645	31	3.2	27	75	22	66	44	8	3	43	1.50
726506--726653	61	2.4	58	81	13	147	45	8	2	43	1.47
726552--726793	70	3.5	70	82	13	265	44	6	4	44	1.50
726546--726879	36	9.7	34	76	16	250	44	6	4	44	1.51
726616--726870	70	3.5	74	83	9	312	44	5	5	44	1.50
727393--728194	162	5.0	163	82	6	913	25	20	24	29	1.99
727393--728190	327	2.5	324	85	5	1035	25	20	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
727460--728229	245	3.2	241	79	7	846	25	20	24	29	1.99
731451--731495	19	2.4	19	92	3	74	66	8	13	11	1.44
733204--733265	25	2.7	22	71	23	56	66	9	11	12	1.46
733204--733274	21	3.2	22	80	11	67	66	8	11	14	1.45
734457--734514	3	19.0	3	83	16	75	67	0	1	31	1.01
734451--734510	16	3.9	15	81	14	61	70	0	1	28	0.97
734454--734514	25	2.5	24	85	15	81	67	0	1	31	1.01
734521--734658	32	4.4	30	73	23	92	45	8	2	42	1.50
734606--734811	38	5.6	38	79	13	191	47	5	3	43	1.44
734562--734891	36	9.2	36	74	17	239	45	6	3	43	1.47
734659--734893	68	3.2	72	83	11	241	45	5	4	44	1.47
742224--742268	19	2.1	22	84	15	60	66	4	11	17	1.38
743321--743375	27	2.0	27	86	6	76	47	5	10	36	1.62
749534--749564	2	16.0	2	93	6	55	51	0	0	48	1.00
750507--750574	30	2.3	30	87	5	93	44	17	16	22	1.87
750558--750627	30	2.5	27	79	9	79	41	11	15	31	1.83
753893--754019	50	2.5	50	83	5	166	17	32	28	22	1.96
757685--757755	26	2.9	24	69	28	60	63	4	8	23	1.40
759952--759992	18	2.3	18	91	4	66	63	2	4	29	1.28
761572--761610	19	2.1	19	95	0	69	33	28	15	23	1.95
761634--761705	20	3.6	20	74	7	74	27	25	20	26	1.99
762282--762386	20	5.7	19	73	13	85	14	18	21	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
762353--762396	20	2.2	20	91	0	70	11	13	20	54	1.69
764301--764369	20	3.5	20	79	0	84	36	23	20	20	1.95
764390--764423	14	2.4	14	85	0	50	52	14	14	17	1.74
764465--764533	20	3.5	20	84	7	95	18	21	24	34	1.96
764447--764534	40	2.4	37	80	14	101	17	22	23	36	1.94
764520--764562	19	2.2	20	91	4	70	13	13	23	48	1.79
765063--765156	42	2.2	42	86	3	127	22	37	19	21	1.95
765087--765156	21	3.3	20	72	5	59	22	35	20	21	1.96
766559--766671	36	3.4	35	70	21	116	27	1	15	55	1.50
766533--766694	63	2.5	63	93	6	263	29	1	16	53	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