genome.fa.s8243.2.7.7.80.10.50.1000.20.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  20  of  49  ( 5786 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)
3986136--3986177	14	3.0	14	89	0	66	11	28	38	21	1.89
3986220--3986277	29	2.0	29	93	0	98	22	25	37	13	1.91
3990123--3990163	18	2.3	18	100	0	82	4	26	48	19	1.69
3990448--3990583	60	2.3	60	82	0	164	33	23	5	38	1.77
3992360--3992401	21	2.0	21	95	0	75	26	28	21	23	1.99
3992530--3992589	29	2.0	31	90	6	97	41	16	6	35	1.75
3992631--3992743	29	4.0	28	75	11	106	46	9	4	39	1.57
3997120--3997177	18	3.1	19	75	9	73	22	20	29	27	1.99
3997119--3997178	20	3.1	20	76	9	61	25	20	28	26	1.99
4005094--4005144	20	2.7	19	85	14	70	31	33	13	21	1.92
4007400--4007436	2	18.5	2	100	0	74	51	0	0	48	1.00
4010472--4010519	27	1.9	23	87	12	60	29	20	16	33	1.95
4010465--4010559	29	3.3	29	92	5	167	30	23	15	30	1.95
4010614--4010678	26	2.4	27	87	2	96	38	13	16	30	1.88
4011729--4011853	62	2.0	62	98	1	243	36	20	20	22	1.95
4012720--4012939	25	8.8	25	97	0	413	28	18	20	33	1.96
4013037--4013079	3	14.7	3	82	4	52	62	2	4	30	1.28
4013276--4013519	90	2.7	90	87	4	316	25	19	29	26	1.98
4027544--4027707	25	6.6	25	97	0	301	28	15	18	37	1.92
4027801--4027847	3	15.7	3	78	8	51	61	2	4	31	1.27
4028247--4028343	29	3.3	29	97	0	185	31	22	17	27	1.97
4033542--4033566	12	2.1	12	100	0	50	8	16	60	16	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4046499--4046541	22	2.0	22	86	4	61	37	9	0	53	1.33
4053799--4053867	18	3.8	18	88	9	104	17	27	30	24	1.97
4053861--4053918	17	3.4	17	97	0	107	17	41	24	17	1.90
4053908--4053944	7	5.4	7	93	6	67	16	29	29	24	1.96
4053908--4053940	13	2.5	13	95	5	57	15	30	30	24	1.95
4054205--4054764	279	2.0	281	98	1	1081	31	19	19	30	1.96
4061313--4061384	10	7.5	10	80	9	87	16	23	31	27	1.96
4061296--4061386	19	4.7	19	89	8	121	17	25	29	27	1.97
4061380--4061437	17	3.4	17	97	0	107	17	41	24	17	1.90
4061427--4061463	7	5.4	7	93	6	67	16	29	29	24	1.96
4061427--4061459	13	2.5	13	95	5	57	15	30	30	24	1.95
4068637--4068707	10	7.5	10	76	12	78	16	23	30	28	1.97
4068621--4068692	10	7.4	9	77	13	72	16	25	29	29	1.97
4068620--4068709	19	4.7	19	87	9	112	17	25	28	27	1.98
4068703--4068759	17	3.4	17	95	2	98	17	40	24	17	1.91
4068749--4068784	7	5.4	7	93	6	58	16	30	30	22	1.96
4085409--4085434	11	2.4	11	100	0	52	92	7	0	0	0.39
4088306--4088345	21	2.0	21	85	5	55	37	0	10	52	1.35
4094928--4094988	30	2.0	30	100	0	122	39	13	29	18	1.88
4097370--4097407	17	2.2	17	95	0	67	23	26	36	13	1.91
4098183--4098217	13	2.7	13	100	0	70	34	8	22	34	1.85
4098267--4098333	20	3.3	20	91	0	107	23	19	22	34	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4098323--4098537	20	10.8	20	79	12	169	21	17	24	36	1.95
4098238--4098537	40	7.5	40	75	13	194	22	16	24	36	1.94
4098283--4098420	60	2.3	60	81	12	142	20	19	23	36	1.95
4098303--4098537	60	3.9	61	74	15	206	21	17	24	36	1.95
4099880--4099933	20	2.6	21	76	2	56	22	14	27	35	1.93
4103440--4103486	23	2.1	22	84	4	58	36	12	19	31	1.89
4103856--4103923	23	3.0	23	85	8	93	39	20	5	33	1.77
4104326--4104450	39	3.2	39	95	1	216	17	13	20	48	1.80
4104700--4104754	23	2.4	22	74	14	58	47	14	5	32	1.67
4104980--4105029	25	2.0	25	88	3	75	40	18	8	34	1.79
4105292--4105358	23	3.0	23	84	2	82	40	20	5	32	1.77
4105666--4105704	20	2.0	20	89	0	60	48	10	15	25	1.76
4105707--4105754	22	2.3	21	89	7	71	43	18	2	35	1.62
4105922--4105976	29	1.9	28	82	10	67	38	0	5	56	1.23
4106125--4106192	20	3.3	20	82	8	73	38	20	5	35	1.77
4106130--4106176	22	2.1	22	92	0	76	40	21	2	36	1.65
4106548--4106609	22	2.7	23	85	5	81	37	19	6	37	1.78
4106538--4106609	23	3.2	23	82	4	83	38	20	5	34	1.76
4109603--4109647	22	2.0	22	91	8	74	44	13	11	31	1.78
4109642--4110141	180	2.8	182	92	4	820	32	16	14	36	1.89
4111326--4111399	3	25.0	3	76	2	69	25	33	5	35	1.79
4112847--4114364	194	7.9	197	93	5	2625	31	15	16	35	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4112847--4114364	386	3.9	392	93	5	2617	31	15	16	35	1.91
4114659--4114706	19	2.6	19	93	3	80	56	10	2	31	1.45
4114464--4114825	183	2.0	179	96	3	672	30	16	11	41	1.84
4116483--4116547	34	1.9	34	90	0	103	24	47	0	27	1.52
4116581--4116645	21	3.1	21	80	6	69	15	29	15	40	1.88
4118846--4118887	19	2.3	18	88	11	68	19	16	11	52	1.74
4118851--4118896	19	2.4	19	88	3	74	17	17	10	54	1.70
4118876--4118934	28	2.1	29	96	3	111	20	15	11	52	1.73
4118876--4118951	28	2.6	28	87	10	91	19	13	14	52	1.74
4119044--4119089	20	2.3	20	89	10	76	17	17	10	54	1.70
4120025--4120067	23	1.9	23	86	13	63	48	11	2	37	1.52
4120057--4120123	31	2.2	31	86	5	91	46	8	4	40	1.56
4129711--4130044	176	1.9	177	81	6	408	34	12	14	38	1.85
4144048--4144084	15	2.6	14	91	4	56	5	32	8	54	1.53
4145411--4145474	17	3.5	19	78	18	82	3	14	31	51	1.57
4148832--4148856	9	2.8	9	100	0	50	44	0	0	56	0.99
4152373--4152432	30	2.0	31	83	9	79	31	3	0	65	1.09
4152378--4152433	19	3.0	19	82	12	64	33	1	0	64	1.04
4155581--4155619	19	2.1	19	85	0	51	61	0	2	35	1.10
4157109--4157157	25	2.0	25	84	11	66	26	12	8	53	1.66
4162400--4162448	16	3.1	16	84	0	62	36	2	28	32	1.69
4162381--4162445	30	2.1	32	82	5	80	38	3	26	32	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4162454--4162693	123	1.9	123	84	4	318	49	15	11	24	1.77
4162644--4162726	29	2.8	29	81	3	85	57	4	10	26	1.52
4162636--4162729	29	3.2	29	77	4	73	59	4	9	26	1.47
4163922--4164327	138	3.0	136	84	2	490	27	16	27	28	1.97
4164329--4164424	36	2.7	36	91	0	147	42	13	17	26	1.86
4164497--4164612	36	3.4	35	68	12	107	40	13	18	26	1.89
4164366--4164819	132	3.4	131	83	7	510	41	14	16	27	1.87
4164367--4164817	198	2.3	198	84	4	570	41	14	16	27	1.87
4164366--4164845	67	7.2	66	80	7	488	40	13	16	28	1.87
4165677--4165741	23	2.8	23	83	0	85	18	24	23	33	1.96
4169614--4169652	2	19.5	2	100	0	78	48	0	0	51	1.00
4171465--4171503	2	19.5	2	100	0	78	48	0	0	51	1.00
4171594--4171639	24	1.9	24	86	8	67	17	8	0	73	1.07
4171548--4171636	46	2.0	44	80	12	101	17	10	1	70	1.20
4171573--4171636	15	4.3	14	74	9	56	15	9	1	73	1.16
4174981--4175007	4	6.8	4	100	0	54	48	0	25	25	1.52
4175679--4175765	29	3.0	29	87	1	111	40	5	18	35	1.75
4175686--4175765	30	2.8	29	84	3	99	41	5	17	36	1.71
4177861--4177963	36	2.9	36	94	0	170	27	14	14	43	1.84
4183370--4183465	32	3.0	32	76	11	106	37	26	13	22	1.91
4184690--4184740	14	3.9	14	78	17	65	43	19	7	29	1.79
4184688--4184749	14	4.7	14	75	15	60	43	16	6	33	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4184704--4184754	24	2.1	24	85	0	66	45	13	5	35	1.68
4187985--4188032	24	2.0	24	100	0	96	45	16	8	29	1.76
4190347--4190404	30	1.9	30	92	0	98	34	15	12	37	1.85
4190687--4190789	30	3.4	30	90	1	161	36	13	16	33	1.88
4210950--4210990	6	6.7	6	88	11	57	65	0	0	34	0.93
4212512--4212565	23	2.3	23	80	0	63	53	14	14	16	1.73
4213249--4213288	15	2.6	16	88	4	55	50	27	12	10	1.72
4213251--4213335	17	5.2	17	76	7	61	44	27	14	14	1.83
4217386--4217419	15	2.3	15	100	0	68	76	0	5	17	0.98
4217387--4217450	24	2.6	24	78	11	60	75	3	6	15	1.14

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