genome.fa.s7952.2.7.7.80.10.50.1000.4.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: VEPZ01007952.1 Hibiscus syriacus cultivar Beakdansim tig00110377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3169409

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

This is table  4  of  16  ( 1872 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)
518788--518864	2	38.5	2	94	0	136	48	1	1	49	1.17
519797--519862	20	3.3	20	75	14	64	50	27	13	9	1.72
519807--519872	20	3.3	20	76	2	71	45	28	16	9	1.78
528093--528136	13	3.5	13	87	3	63	34	2	18	45	1.62
528191--528249	2	29.5	2	96	0	109	50	0	0	49	1.00
528227--528846	233	2.6	236	97	1	1165	39	15	10	34	1.82
528633--528672	19	2.0	20	85	4	55	30	0	15	55	1.41
529126--529199	29	2.5	30	72	10	80	32	32	6	28	1.83
530695--530721	12	2.2	12	100	0	54	37	22	7	33	1.82
530829--530889	23	2.7	23	73	16	56	67	3	6	22	1.29
533030--533062	15	2.2	15	94	0	57	6	15	69	9	1.34
533290--533370	29	2.8	29	90	0	126	34	28	1	35	1.65
535142--535185	22	2.0	21	86	4	61	75	0	0	25	0.81
536200--536337	29	4.8	28	74	13	102	35	5	22	36	1.78
536200--536338	58	2.4	58	82	5	158	35	5	22	36	1.78
536211--536361	57	2.6	58	79	5	155	36	5	21	36	1.77
542738--542896	29	5.6	28	76	6	106	38	6	22	32	1.79
542752--542898	56	2.6	58	82	3	183	39	6	21	33	1.78
542769--542898	29	4.6	28	75	9	129	38	6	21	33	1.78
545327--545354	14	2.0	14	100	0	56	42	0	28	28	1.56
545328--545361	14	2.6	13	90	9	52	41	0	26	32	1.56
547974--548173	40	4.9	40	92	1	328	23	16	27	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548254--548540	91	3.2	90	89	4	429	37	5	22	33	1.79
548254--548540	45	6.4	45	86	5	404	37	5	22	33	1.79
548274--548530	133	1.9	135	91	3	428	36	6	22	34	1.79
557135--557218	23	3.7	23	82	6	107	27	26	26	20	1.99
557486--557514	7	4.3	7	95	4	51	44	24	0	31	1.54
559964--560038	31	2.4	31	88	0	114	32	10	29	28	1.90
560287--560412	50	2.5	49	84	5	171	15	35	28	19	1.93
560536--560574	10	3.9	10	83	12	53	33	25	0	41	1.56
560534--560575	20	2.2	19	91	4	66	33	26	0	40	1.56
560701--561033	111	3.0	111	95	0	576	36	7	10	44	1.68
561949--561984	18	2.0	18	100	0	72	33	27	16	22	1.95
562324--562376	15	3.5	15	84	0	70	33	18	33	13	1.90
562315--562376	18	3.6	18	76	12	76	33	19	33	12	1.90
565525--565577	27	2.0	27	88	7	81	33	9	18	37	1.83
566774--566819	16	2.8	16	90	3	65	21	21	19	36	1.95
567572--567635	26	2.4	27	76	2	67	45	17	10	26	1.81
569967--570006	18	2.3	18	95	4	73	32	27	22	17	1.96
570121--570154	14	2.7	12	90	9	50	73	2	0	23	0.97
570222--570288	25	2.5	28	83	16	104	11	19	22	46	1.82
570236--570294	25	2.4	25	97	0	109	11	20	20	47	1.81
570347--570382	18	2.0	18	100	0	72	44	22	16	16	1.86
571294--571341	20	2.5	19	93	6	80	29	4	4	62	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572724--572771	23	2.2	22	78	10	55	77	4	6	12	1.11
579423--579507	31	2.7	32	92	1	136	20	27	25	27	1.99
579425--579542	32	3.7	31	85	3	137	22	27	24	25	2.00
579431--579555	32	3.9	32	81	7	103	24	28	22	24	1.99
580079--580139	30	2.0	32	83	6	81	32	4	4	57	1.41
581276--581315	21	1.9	21	85	10	55	30	20	25	25	1.99
585062--585271	65	3.3	63	79	12	214	30	24	18	26	1.97
585243--585291	19	2.6	19	84	9	57	24	28	20	26	1.99
590782--590876	44	2.2	44	85	7	124	27	25	22	25	2.00
590801--590881	23	3.7	23	77	8	96	25	25	24	23	2.00
594503--594537	18	1.9	18	88	0	52	28	17	0	54	1.43
599331--599365	18	1.9	18	88	0	52	28	17	0	54	1.43
609007--609033	11	2.5	11	100	0	54	92	0	7	0	0.38
611373--611445	21	3.5	21	96	0	137	20	27	28	23	1.99
613828--613872	20	2.2	20	80	0	54	22	28	22	26	1.99
613936--613989	21	2.6	21	100	0	108	27	29	24	18	1.98
617235--617332	20	4.7	21	80	13	114	22	35	20	21	1.96
617352--617424	20	3.7	20	88	0	101	19	26	23	31	1.98
617536--617575	20	1.9	22	90	10	66	37	40	10	12	1.77
617790--617859	34	2.1	32	84	5	86	31	15	28	24	1.96
618997--619036	20	2.0	20	90	4	64	37	0	7	55	1.29
621172--621204	15	2.1	16	88	5	50	0	27	3	69	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626244--626289	23	1.9	25	82	8	60	39	0	2	58	1.10
630754--630800	2	23.5	2	100	0	94	51	0	0	48	1.00
637895--637936	17	2.4	17	96	4	75	73	0	0	26	0.83
638550--638615	19	3.4	19	72	14	53	57	10	0	31	1.33
638518--638712	64	2.9	64	81	15	182	58	11	2	28	1.44
638590--638736	76	1.9	75	90	4	233	58	10	3	27	1.47
640339--640374	18	2.0	18	100	0	72	5	16	11	66	1.40
644506--644539	15	2.3	15	94	0	59	5	23	23	47	1.73
646124--646162	21	1.9	20	84	5	51	38	7	7	46	1.61
646197--646231	18	1.9	18	88	11	54	80	0	0	20	0.72
646286--646330	15	2.7	16	86	13	56	73	2	2	22	1.05
646980--647127	76	2.0	75	87	4	217	58	10	2	29	1.45
653437--653490	19	2.7	19	78	13	56	55	1	0	42	1.10
654488--654522	15	2.3	15	100	0	70	40	8	8	42	1.66
654576--654627	27	1.9	27	84	7	70	61	7	7	23	1.49
656324--656368	3	15.0	3	95	0	81	64	0	2	33	1.06
656763--657654	227	3.9	226	88	3	1288	32	11	21	34	1.89
668749--668803	25	2.2	25	90	6	85	45	0	12	41	1.42
671403--671431	14	2.1	14	100	0	58	27	0	44	27	1.54
672115--672178	33	1.9	33	93	6	112	28	10	25	35	1.89
677556--677761	103	2.0	103	100	0	412	42	7	11	37	1.70
684886--684924	20	1.9	20	85	15	53	15	23	12	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
685320--685392	34	2.1	34	100	0	146	47	17	2	31	1.62
688951--689039	10	9.3	9	76	11	79	17	25	29	26	1.98
688968--689039	19	3.8	19	92	5	119	16	26	31	25	1.96
688950--689039	38	2.3	39	86	5	121	18	25	28	26	1.98
689033--689090	17	3.4	17	92	0	98	17	43	22	17	1.88
689080--689122	7	6.4	7	89	10	72	16	30	30	23	1.96
689080--689118	13	3.0	13	100	0	78	15	30	30	23	1.95
689080--689122	20	2.2	20	91	8	70	16	30	30	23	1.96
690026--690112	30	2.8	31	75	8	79	18	27	29	24	1.98
689990--690112	62	2.0	63	82	7	153	17	27	29	26	1.97
696317--696405	10	9.3	9	76	11	79	17	25	29	26	1.98
696334--696405	19	3.8	19	92	5	119	16	26	31	25	1.96
696316--696405	38	2.3	39	86	5	121	18	25	28	26	1.98
696399--696473	17	4.4	17	94	0	123	17	44	21	17	1.87
697349--697424	30	2.5	30	78	4	80	14	26	31	27	1.95
700569--700599	15	2.1	15	93	0	53	32	12	29	25	1.93
701511--701557	25	1.9	24	86	4	67	27	2	6	63	1.30
703445--703511	29	2.5	27	78	9	75	40	14	13	31	1.85
703461--703528	29	2.3	29	82	0	82	47	10	10	32	1.71
704760--704876	42	2.8	42	88	0	171	19	22	20	37	1.94
704988--705302	36	8.8	36	90	2	456	37	19	20	22	1.95
704988--705302	71	4.4	72	91	2	449	37	19	20	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705449--705480	8	3.8	9	84	16	50	43	0	0	56	0.99
708326--708421	18	4.9	20	82	11	119	21	20	30	27	1.98
708326--708416	38	2.3	40	88	3	141	19	20	30	28	1.97
714464--714528	19	3.4	19	95	0	121	27	16	33	21	1.95
715275--715345	18	3.8	18	67	7	61	22	18	28	30	1.97
718371--718447	33	2.3	33	86	0	109	36	25	16	20	1.94
724370--724432	19	3.3	19	76	10	65	50	1	0	47	1.10
736704--736737	18	1.9	18	88	5	52	20	11	17	50	1.77
740910--740980	34	2.1	34	81	5	81	73	2	5	18	1.16
752121--752172	3	17.0	3	80	11	61	59	0	1	38	1.08

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