genome.fa.s8926.2.7.7.80.10.50.1000.3.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: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4069050

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  3  of  20  ( 2371 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)
545032--545119	3	29.7	3	80	11	101	36	2	0	61	1.09
551992--552074	20	4.1	20	85	1	112	20	36	27	15	1.93
555455--555557	20	5.1	20	84	2	134	20	39	27	12	1.88
555455--555557	41	2.5	41	93	1	172	20	39	27	12	1.88
556794--557067	85	3.2	85	81	2	282	33	20	17	28	1.95
564408--564470	23	2.6	24	78	19	60	52	0	0	47	1.00
564425--564485	22	2.8	23	82	7	65	47	0	0	52	1.00
564408--564525	24	4.5	26	70	22	70	51	0	0	46	1.12
564768--564836	20	3.5	20	100	0	138	34	15	10	39	1.82
564768--564845	40	2.0	40	92	0	129	34	16	8	39	1.80
564819--564885	15	4.5	15	84	3	91	34	19	7	38	1.80
564819--564890	30	2.4	30	97	2	137	31	19	6	41	1.78
566824--566859	17	2.1	17	89	0	54	41	0	0	58	0.98
566889--566926	20	1.9	20	94	0	67	34	21	0	44	1.52
571463--571555	21	4.6	20	77	4	87	40	18	23	17	1.90
571480--571555	21	3.7	21	80	3	100	40	18	25	15	1.90
571463--571555	41	2.3	41	98	0	177	40	18	23	17	1.90
571482--571616	41	3.3	41	82	6	132	38	20	21	19	1.94
571544--571638	20	4.7	20	80	2	91	34	24	17	23	1.96
571826--571869	22	2.0	22	95	0	79	20	45	15	18	1.85
572148--572190	20	2.2	20	95	0	77	9	18	18	53	1.70
573510--573554	18	2.5	18	81	0	63	28	42	15	13	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574036--574102	20	3.4	20	81	2	73	38	23	22	14	1.92
574091--574180	14	5.9	14	76	19	90	48	25	16	8	1.75
574075--574197	32	3.8	33	94	2	214	47	23	17	10	1.79
574214--574271	14	3.9	14	79	16	71	8	17	25	48	1.75
574209--574287	32	2.4	33	95	2	142	10	18	24	46	1.80
574228--574345	20	6.4	19	77	11	95	13	20	24	41	1.88
576195--576230	14	2.6	14	90	0	54	30	0	22	47	1.52
576347--576428	19	4.6	19	85	14	129	48	17	20	13	1.80
576318--576430	52	2.2	52	91	0	190	44	20	22	13	1.86
576366--576445	33	2.4	33	97	0	151	46	18	22	12	1.83
576466--576523	20	2.9	20	97	0	107	15	22	24	37	1.93
577566--577619	24	2.2	24	90	0	81	24	16	20	38	1.92
577794--577818	12	2.1	12	100	0	50	72	0	28	0	0.86
580111--580208	19	5.7	19	69	22	90	43	19	24	12	1.85
580111--580204	33	2.8	33	98	0	179	43	19	24	12	1.85
580204--580246	20	2.2	20	87	4	61	16	18	23	41	1.89
580232--580265	14	2.4	14	85	0	50	8	23	20	47	1.78
580387--580423	14	2.6	14	91	0	65	45	24	0	29	1.53
581781--581847	21	3.2	21	68	4	55	19	20	35	23	1.95
581781--581903	42	2.9	41	80	7	113	22	17	36	22	1.95
583920--584018	33	3.0	33	87	1	135	39	25	23	12	1.89
583990--584079	19	4.7	19	88	2	135	47	22	17	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583990--584079	39	2.3	38	92	1	153	47	22	17	12	1.80
584673--584725	20	2.7	20	84	0	70	28	18	26	26	1.98
584734--584787	20	2.7	20	85	0	81	24	16	25	33	1.96
584858--584898	21	2.0	21	85	0	55	34	31	17	17	1.93
590022--590093	36	2.0	36	100	0	144	27	30	22	19	1.98
591071--591129	29	2.0	29	100	0	118	49	13	13	23	1.78
600848--600894	18	2.6	18	93	0	76	42	12	6	38	1.69
614190--614241	21	2.3	23	87	6	72	50	0	0	50	1.00
614196--614241	22	2.0	23	87	4	67	56	0	0	43	0.99
614196--614241	23	2.1	22	88	8	67	56	0	0	43	0.99
614587--614627	22	1.9	21	85	5	55	41	2	7	48	1.44
617531--617583	27	2.0	27	92	0	88	49	9	3	37	1.53
617681--617986	82	3.7	82	88	2	418	35	10	19	34	1.85
621590--621633	2	22.0	2	100	0	88	50	0	0	50	1.00
621895--621994	13	8.3	13	78	9	81	65	1	1	33	1.06
621889--621998	28	3.8	30	74	12	104	64	0	0	33	1.06
621889--621997	17	7.1	15	69	20	73	65	0	0	33	1.05
621894--622009	45	2.6	44	76	12	121	63	0	0	34	1.06
621983--622031	27	1.9	24	84	12	62	53	0	0	46	1.00
621890--622018	13	9.6	13	71	19	54	62	0	0	35	1.06
622057--622097	21	2.0	21	85	9	57	58	0	0	41	0.98
622470--622503	13	2.8	12	86	4	50	17	0	8	73	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623702--623753	19	2.5	21	75	9	54	36	26	13	23	1.92
624492--624524	16	2.0	17	94	5	59	48	0	0	51	1.00
624585--624701	13	9.0	13	67	25	52	36	1	0	60	1.13
624617--624720	16	6.8	16	69	19	69	33	0	0	64	1.07
624634--624705	19	3.6	19	74	18	65	34	0	0	65	0.93
624622--624714	13	7.2	13	69	20	61	33	0	1	65	1.00
626158--626220	21	3.0	21	95	0	108	49	15	6	28	1.69
627806--627855	23	2.2	23	92	0	82	60	2	26	12	1.43
629183--629357	50	3.5	50	90	2	273	44	4	7	44	1.51
630077--630154	39	2.1	39	90	7	126	16	8	8	65	1.46
632426--632477	19	2.6	20	90	6	79	42	5	13	38	1.68
636196--636298	35	3.0	36	80	11	117	42	11	10	34	1.76
636195--636299	17	6.1	17	74	11	97	41	11	10	36	1.76
640296--640336	21	2.0	21	85	9	57	53	26	4	14	1.61
641191--641226	14	2.6	14	91	8	56	5	30	0	63	1.17
643663--643692	12	2.5	12	100	0	60	16	16	26	40	1.90
647401--647507	37	2.9	37	82	0	124	41	14	12	32	1.82
647903--647970	21	3.3	19	78	16	57	27	1	2	67	1.13
647926--647970	21	2.0	23	91	8	76	24	2	0	73	0.95
648361--648416	19	2.9	19	75	19	62	23	8	1	66	1.30
652702--652754	16	3.5	15	83	16	74	79	7	13	0	0.93
654150--654673	106	4.9	106	87	1	694	34	23	18	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
655417--655520	37	2.8	37	84	4	131	42	13	13	30	1.83
656053--656078	13	2.0	13	100	0	52	23	7	0	69	1.14
656146--656221	29	2.6	28	74	11	66	31	1	3	63	1.21
656228--656281	10	5.4	9	76	20	54	22	1	0	75	0.89
656228--656281	19	2.7	20	85	8	74	22	1	0	75	0.89
656468--656506	18	2.2	18	86	9	53	23	5	0	71	1.05
665141--665167	14	1.9	14	100	0	54	22	0	25	51	1.48
665141--665185	21	2.2	20	84	8	54	22	0	28	48	1.50
668097--668133	19	1.9	19	89	10	58	13	10	51	24	1.73
672864--672904	20	2.1	20	86	4	57	63	9	2	24	1.37
673012--673082	20	3.5	20	96	0	124	46	12	21	19	1.83
673236--673266	15	2.1	15	93	0	53	54	0	0	45	0.99
675176--675229	20	2.7	20	100	0	108	18	29	27	24	1.98
675870--676086	118	1.8	118	93	0	380	46	17	9	26	1.79
680067--680128	27	2.2	28	91	2	99	27	8	38	25	1.84
701107--701235	62	2.1	62	100	0	258	27	23	16	33	1.95
717054--717123	31	2.3	31	83	9	92	37	4	1	57	1.27
717131--717196	30	2.2	30	89	5	98	36	4	0	59	1.18
717210--717261	26	2.0	25	85	3	68	53	0	9	36	1.34
717236--717343	30	3.7	30	77	8	107	49	1	11	37	1.49
717352--717511	85	1.9	85	83	8	209	58	1	5	35	1.31
717463--717511	25	2.0	25	88	8	73	55	0	8	36	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
720682--720739	2	29.0	2	100	0	116	50	0	0	50	1.00
725182--725843	182	3.7	182	87	3	917	43	14	14	28	1.84
728358--728400	17	2.5	17	100	0	86	13	46	0	39	1.44
732914--732967	24	2.2	24	100	0	108	40	16	9	33	1.80
737488--737548	27	2.3	27	80	5	70	42	3	45	8	1.50
737491--737530	18	2.2	18	86	0	53	40	2	50	7	1.44
737733--737857	66	1.9	66	83	3	162	36	1	36	25	1.66
742975--743084	9	11.7	9	70	12	53	75	0	3	20	0.95
742996--743076	33	2.4	34	82	10	96	74	0	4	20	1.01
743092--743120	2	14.5	2	100	0	58	51	0	0	48	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20