genome.fa.s8488.2.7.7.80.10.50.1000.52.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  52  of  54  ( 6450 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)
12268428--12268470	20	2.2	20	91	0	68	34	20	11	32	1.89
12276709--12276981	136	2.0	136	100	0	546	19	26	21	32	1.97
12278371--12278407	2	18.5	2	100	0	74	51	0	0	48	1.00
12283507--12283535	13	2.3	13	94	5	51	24	0	0	75	0.80
12294086--12294142	29	2.0	28	82	3	69	66	12	8	12	1.44
12294830--12294887	5	11.4	5	83	8	64	0	15	0	84	0.62
12294843--12294890	11	4.5	11	85	12	64	0	12	0	87	0.54
12294843--12294889	15	3.0	15	93	6	76	0	10	0	89	0.49
12296614--12296665	22	2.4	22	100	0	104	23	25	23	28	1.99
12305649--12306254	105	5.8	105	90	4	899	33	24	18	23	1.97
12305649--12306254	204	2.9	207	88	5	866	33	24	18	23	1.97
12305649--12306214	309	1.8	308	93	1	974	33	24	18	23	1.97
12306062--12306382	164	1.9	168	82	8	404	33	25	18	22	1.96
12306224--12306481	99	2.6	99	88	0	383	34	25	18	20	1.96
12305957--12306653	263	2.6	264	85	7	915	33	25	18	22	1.97
12306422--12306580	65	2.5	65	83	6	191	33	26	18	21	1.97
12306331--12306814	171	2.9	171	93	2	820	33	25	19	21	1.97
12306487--12306688	106	1.9	107	85	4	282	34	25	19	20	1.96
12306593--12306751	65	2.5	65	85	6	200	33	26	19	20	1.96
12306669--12306871	107	1.9	106	91	3	336	30	26	20	23	1.98
12308556--12308584	13	2.3	13	94	5	51	24	0	0	75	0.80
12308831--12308887	28	2.0	28	82	3	69	12	8	12	66	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12312502--12312546	23	2.0	23	95	0	81	26	28	13	31	1.94
12312834--12312910	33	2.4	32	89	4	127	44	15	9	31	1.78
12312899--12312940	21	2.0	21	90	0	66	50	7	11	30	1.66
12315861--12315921	19	3.3	18	73	26	65	49	29	14	6	1.69
12320256--12320315	22	2.7	22	86	0	93	31	26	16	25	1.96
12320279--12320348	35	2.0	35	86	2	97	30	27	17	25	1.97
12320522--12320551	11	2.7	11	94	0	51	30	26	6	36	1.82
12320739--12320808	33	2.1	33	83	0	86	31	14	30	24	1.94
12340464--12340504	20	2.1	19	86	9	55	34	2	14	48	1.57
12340464--12340538	17	3.7	20	75	18	66	36	2	16	45	1.61
12342156--12342246	24	3.8	24	80	12	98	41	19	14	24	1.88
12344690--12344731	13	3.2	13	93	0	75	16	21	45	16	1.86
12345855--12345913	31	2.0	28	83	9	73	25	6	5	62	1.41
12354174--12354255	6	13.7	6	100	0	164	50	0	17	32	1.46
12355859--12355887	11	2.6	11	100	0	58	20	37	10	31	1.86
12356796--12356841	15	2.9	15	81	18	58	8	30	0	60	1.26
12357367--12357402	17	2.1	17	89	0	54	33	27	0	38	1.57
12360922--12360946	13	1.9	13	100	0	50	28	40	0	32	1.57
12361110--12361155	15	2.9	15	81	18	58	8	30	0	60	1.26
12363121--12363240	64	1.9	64	87	3	181	29	20	17	32	1.96
12372356--12372724	131	2.8	131	90	1	596	40	16	11	31	1.84
12373885--12373984	33	3.0	32	88	5	146	45	15	7	33	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12373979--12374020	21	2.0	21	95	0	75	47	7	14	30	1.71
12381926--12381966	3	14.0	3	94	5	75	31	0	0	68	0.90
12382115--12382164	22	2.1	25	85	10	70	18	8	0	74	1.06
12382122--12382171	8	6.4	8	75	13	50	20	10	0	70	1.16
12382512--12382593	13	6.7	12	78	13	60	9	4	6	79	1.05
12382506--12382555	18	2.9	18	82	8	68	10	0	10	80	0.92
12386581--12386614	16	2.1	17	88	5	52	44	17	5	32	1.73
12387397--12387465	23	3.0	23	82	0	75	31	24	21	21	1.98
12391717--12391824	45	2.3	47	85	9	148	29	11	20	38	1.87
12401505--12401539	17	2.1	16	94	5	61	80	0	14	5	0.89
12402875--12403316	102	4.2	102	89	4	602	28	16	27	26	1.97
12402875--12403316	153	2.8	152	89	6	636	28	16	27	26	1.97
12402850--12403485	51	11.9	56	89	4	497	28	16	25	29	1.97
12406596--12406661	20	3.3	20	91	0	105	15	31	21	31	1.94
12408941--12409135	89	2.2	90	94	0	338	32	25	15	26	1.95
12409116--12409456	66	5.4	66	64	14	216	34	25	15	24	1.95
12409030--12409456	124	3.4	124	90	1	660	33	25	15	25	1.95
12409530--12409853	85	3.8	85	85	0	425	34	21	18	24	1.96
12411866--12411921	11	5.0	11	78	10	60	14	5	1	78	1.00
12411854--12411924	15	4.6	14	73	20	52	14	5	1	78	0.99
12412253--12412349	5	20.6	5	69	16	55	13	4	5	77	1.09
12412253--12412322	26	3.0	23	73	18	65	14	2	5	77	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12412317--12412353	13	2.8	13	92	8	58	8	8	5	78	1.09
12412259--12412340	23	3.7	22	73	20	57	12	4	4	78	1.07
12415891--12415947	31	1.9	30	85	7	80	31	15	12	40	1.85
12417730--12417773	18	2.4	18	84	0	52	38	0	6	54	1.27
12419286--12419453	79	2.1	78	93	1	282	41	4	10	44	1.59
12430131--12430159	15	1.9	15	100	0	58	48	27	6	17	1.72
12430286--12430673	184	2.1	185	92	3	651	42	2	8	46	1.49
12430751--12430794	22	2.0	21	91	4	70	34	25	18	22	1.96
12453671--12453727	19	3.0	18	75	10	51	19	24	35	21	1.96
12459100--12459187	32	2.8	32	77	8	108	48	4	6	39	1.50
12463168--12463226	29	2.1	28	87	3	82	27	30	8	33	1.86
12466936--12466988	2	25.5	2	92	7	88	49	1	1	47	1.23
12467049--12467091	17	2.4	18	85	14	54	60	4	6	27	1.43
12468291--12468322	13	2.5	13	94	0	55	56	3	0	40	1.15
12468270--12468325	21	2.5	22	78	16	62	55	3	0	41	1.17
12468822--12469476	105	6.4	104	94	1	1028	22	17	24	35	1.95
12469184--12469471	98	2.9	98	94	0	506	21	18	24	35	1.95
12481000--12481056	2	28.5	2	84	13	73	52	1	1	43	1.21
12481117--12481159	17	2.4	18	85	14	54	60	4	6	27	1.43
12481188--12481243	2	27.5	2	89	10	87	50	1	1	46	1.22
12482391--12482422	13	2.5	13	94	0	55	56	3	0	40	1.15
12484381--12484443	29	2.2	29	88	0	90	28	11	19	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12486159--12486260	34	2.9	36	91	5	172	44	13	14	27	1.83
12486843--12486877	16	2.1	18	89	10	56	25	8	0	65	1.21
12488640--12488707	17	4.2	17	81	14	81	19	44	23	13	1.85
12488662--12488697	13	2.8	13	95	4	65	16	47	25	11	1.79
12488715--12488796	29	2.8	29	90	0	137	24	9	21	43	1.83
12495873--12495953	17	5.2	17	85	11	79	18	43	23	14	1.87
12495895--12495943	13	3.8	13	97	2	91	16	46	24	12	1.81
12495961--12496041	28	2.8	29	90	3	137	23	9	22	44	1.82
12495990--12496064	29	2.6	29	82	6	80	29	9	22	38	1.85
12499669--12499737	20	3.2	20	80	10	66	79	5	11	2	1.01
12500372--12500420	22	2.2	22	96	0	89	32	22	14	30	1.93
12500835--12500870	18	2.0	18	88	0	54	19	8	30	41	1.81
12501350--12501631	36	8.0	36	79	8	312	25	19	14	40	1.90
12501308--12501631	72	4.6	72	76	10	230	26	19	14	38	1.91
12501406--12501594	102	1.9	102	88	2	290	26	19	13	40	1.89
12501370--12501694	138	2.4	137	84	2	445	27	20	12	39	1.89
12501589--12501763	67	2.6	65	83	6	208	32	22	9	36	1.86
12501580--12501762	68	2.7	67	83	4	210	30	22	9	37	1.86
12502287--12503436	105	11.0	105	92	2	1826	33	26	17	22	1.96
12503984--12504085	34	2.9	36	91	5	172	44	13	14	27	1.83
12504666--12504700	16	2.1	18	89	10	56	25	8	0	65	1.21
12508343--12508622	151	1.8	153	86	3	413	37	12	16	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12518751--12518815	32	2.1	31	91	2	103	41	23	12	23	1.87
12524781--12524840	30	2.0	30	93	6	104	33	6	16	43	1.74
12524920--12525018	21	4.7	21	80	5	119	24	34	19	22	1.96
12524951--12524975	13	1.9	13	100	0	50	24	32	20	24	1.98
12524920--12525018	42	2.4	41	88	10	139	24	34	19	22	1.96
12525039--12525101	21	3.0	21	84	6	67	20	26	26	25	1.99
12525458--12525529	34	2.2	32	85	7	90	33	15	29	22	1.94
12528322--12528381	29	2.0	30	87	6	86	36	6	13	43	1.70
12528461--12528559	21	4.7	21	77	5	110	23	33	19	24	1.97
12528492--12528516	13	1.9	13	100	0	50	24	32	20	24	1.98

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54