genome.fa.s8105.2.7.7.80.10.50.1000.22.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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   

This is table  22  of  30  ( 3521 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)
4157506--4157554	24	2.1	23	84	3	62	44	2	0	53	1.12
4157997--4158034	9	4.4	9	80	12	53	47	0	0	52	1.00
4157990--4158036	16	3.1	15	80	16	53	46	0	0	53	1.00
4157997--4158037	16	2.4	17	88	8	57	43	0	0	56	0.99
4162790--4162862	2	36.5	2	100	0	146	50	0	0	49	1.00
4163608--4163702	36	2.7	35	85	4	127	35	13	18	31	1.90
4163582--4163710	35	3.6	36	79	5	136	34	17	18	29	1.94
4163607--4163720	36	3.2	35	75	7	95	35	15	18	29	1.92
4163582--4163720	72	1.9	72	81	5	165	35	17	18	28	1.93
4165417--4165498	19	4.3	19	95	0	137	28	18	34	19	1.95
4166079--4166113	14	2.5	14	95	0	61	20	0	48	31	1.50
4172071--4172115	20	2.2	21	84	11	58	51	4	15	28	1.63
4172196--4172263	34	1.9	36	85	5	95	47	7	4	41	1.51
4177181--4177296	39	2.9	41	80	5	146	29	13	10	46	1.77
4177332--4177404	31	2.4	31	86	4	103	38	10	19	31	1.86
4185650--4185676	12	2.2	12	100	0	54	37	7	25	29	1.83
4191723--4191775	23	2.3	23	83	3	63	24	7	11	56	1.60
4192029--4192077	13	3.8	12	79	15	53	38	0	2	59	1.09
4192072--4192133	19	3.3	19	78	15	58	37	1	0	61	1.06
4194360--4194399	12	3.6	12	80	12	50	45	2	0	52	1.14
4194386--4194640	22	11.6	22	91	1	404	41	0	8	49	1.37
4195692--4195731	15	2.6	15	96	4	71	60	0	7	32	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4195705--4195791	39	2.3	39	82	9	108	50	1	14	33	1.51
4195796--4195843	20	2.6	17	83	9	51	64	2	0	33	1.05
4197207--4197239	17	2.0	17	88	5	50	48	0	0	51	1.00
4197513--4197543	12	2.6	12	94	0	53	6	22	48	22	1.73
4197541--4197591	2	26.5	2	76	7	52	50	0	0	49	1.00
4197541--4197632	48	2.0	46	87	8	134	48	0	0	51	1.00
4197693--4197774	36	2.3	36	89	0	128	14	40	14	30	1.86
4211757--4211799	20	2.2	20	95	0	77	30	11	13	44	1.80
4213850--4214056	65	3.2	64	78	12	226	26	19	23	30	1.98
4219074--4219113	14	3.1	13	82	10	55	60	0	0	40	0.97
4219087--4219135	17	2.8	17	84	3	53	46	0	0	53	1.00
4220544--4220575	11	2.8	11	95	4	55	43	0	0	56	0.99
4220571--4220653	3	27.7	3	97	0	157	65	0	1	33	1.01
4220971--4221646	114	5.9	114	86	3	950	30	18	12	38	1.88
4220972--4221646	231	3.0	228	91	3	1106	30	18	12	38	1.88
4220973--4221628	345	1.9	340	88	4	987	30	18	12	38	1.87
4222360--4222752	86	4.6	85	88	3	553	35	22	12	28	1.92
4223895--4223987	7	11.3	9	76	22	57	3	15	0	81	0.81
4223894--4223986	25	4.0	22	78	15	89	3	13	0	82	0.78
4223904--4223981	15	5.6	14	79	17	58	3	12	0	83	0.78
4223898--4223987	9	8.9	10	77	19	71	3	14	0	82	0.80
4235138--4235315	91	2.0	91	81	2	214	36	10	10	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4235316--4235355	14	3.1	13	82	10	55	60	0	0	40	0.97
4235329--4235377	17	2.8	17	84	3	53	46	0	0	53	1.00
4236809--4236833	11	2.3	11	100	0	50	48	0	0	52	1.00
4236829--4236913	3	28.7	3	95	2	154	64	0	1	34	1.01
4239534--4239670	63	2.2	63	80	11	147	29	16	22	32	1.95
4241158--4241267	19	5.8	19	84	0	121	43	8	18	30	1.79
4243338--4243367	2	15.0	2	92	0	51	50	46	0	3	1.18
4243335--4243364	14	2.1	14	100	0	60	50	43	0	6	1.28
4243414--4245246	4	463.5	4	90	2	1820	50	39	0	9	1.38
4245266--4245347	2	41.0	2	92	4	139	47	1	0	51	1.08
4245869--4246432	54	10.4	54	85	1	684	26	16	21	35	1.94
4252496--4252873	54	7.0	54	87	0	522	26	17	19	35	1.94
4254149--4254391	11	22.0	11	68	16	105	38	4	8	48	1.53
4254188--4254237	26	1.9	26	87	0	73	38	0	10	52	1.35
4254323--4254388	24	2.9	23	78	12	57	40	4	6	48	1.48
4254419--4254492	2	37.0	2	78	15	73	44	4	1	50	1.29
4254419--4254553	16	8.4	16	72	16	91	40	3	3	51	1.37
4254514--4254588	28	2.8	27	80	13	75	38	4	5	52	1.43
4254428--4254552	25	4.8	26	69	21	50	40	3	4	52	1.36
4258075--4258112	18	2.1	19	85	5	51	68	7	5	18	1.34
4258127--4258215	45	2.0	45	86	6	126	48	5	1	44	1.33
4258150--4258189	17	2.4	17	95	0	71	47	7	0	45	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4258218--4258274	22	2.7	21	83	5	69	45	3	5	45	1.43
4258228--4258296	22	3.1	22	87	0	93	49	1	4	44	1.31
4258260--4258356	41	2.3	41	80	1	104	43	6	6	44	1.54
4258302--4258343	22	1.9	22	90	0	66	42	9	9	38	1.70
4258338--4258406	28	2.5	28	97	0	129	44	7	0	47	1.30
4261037--4261217	72	2.5	72	78	7	190	23	25	20	30	1.99
4266623--4266993	183	2.0	183	90	2	584	44	9	4	41	1.57
4267812--4267895	37	2.3	36	86	6	116	32	5	20	41	1.76
4270667--4270750	37	2.3	38	85	6	111	34	4	19	41	1.72
4272302--4272355	24	2.3	23	75	9	54	64	1	5	27	1.26
4278286--4278323	18	2.1	18	90	0	58	28	0	2	68	1.03
4278323--4278369	23	2.1	23	88	4	69	40	2	0	57	1.11
4279679--4279803	62	2.0	62	100	0	250	31	25	14	28	1.95
4281565--4281642	35	2.2	35	97	0	147	38	30	5	25	1.78
4285511--4285785	82	3.4	82	82	4	286	36	20	10	32	1.86
4285512--4285753	123	2.0	123	83	1	306	36	20	11	31	1.88
4285454--4285808	41	8.6	41	76	5	232	37	19	10	32	1.87
4292846--4293018	93	1.9	93	88	0	265	34	15	24	25	1.95
4293359--4293518	59	2.7	59	82	0	176	33	11	18	36	1.86
4293807--4294691	136	6.4	136	81	10	993	31	13	24	30	1.93
4293807--4294128	68	4.7	68	92	0	536	31	14	25	29	1.95
4294078--4294227	81	1.9	81	85	2	212	32	12	24	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4294159--4294424	68	4.0	67	84	7	330	30	13	25	31	1.94
4293942--4294345	217	1.9	217	91	2	668	31	13	24	29	1.94
4294303--4294425	61	2.0	61	87	0	174	29	11	26	32	1.91
4294437--4294691	68	3.8	68	84	3	334	30	12	25	30	1.93
4294776--4294838	29	2.1	30	85	8	85	46	7	14	31	1.73
4302527--4302593	27	2.5	27	97	2	127	40	2	7	49	1.46
4302601--4302663	26	2.3	26	94	5	108	46	0	7	46	1.32
4302580--4302951	37	10.2	37	84	10	437	43	1	8	45	1.46
4302580--4302699	62	1.9	63	89	8	190	45	0	8	45	1.39
4302629--4302951	37	8.6	37	89	5	470	43	2	8	45	1.47
4302629--4302951	76	4.3	74	89	5	470	43	2	8	45	1.47
4302972--4303010	15	2.6	15	91	0	60	20	5	0	74	1.01
4303721--4303765	22	2.0	23	86	4	65	17	2	2	77	0.97
4303722--4303774	19	2.7	19	80	13	56	18	1	3	75	1.05
4306413--4306441	13	2.2	13	100	0	58	41	13	20	24	1.89
4308075--4308122	22	2.2	21	85	3	60	66	2	10	20	1.32
4308215--4308270	28	2.0	29	82	10	71	71	1	5	21	1.15
4308227--4308287	4	15.5	4	75	16	56	70	0	4	24	1.07
4309490--4309535	6	7.5	6	84	15	51	80	0	0	19	0.71
4309493--4309548	16	3.2	17	82	9	69	76	0	0	23	0.78
4309501--4309558	26	2.2	26	80	17	66	72	1	0	25	0.94
4309491--4309542	7	7.4	7	83	12	54	78	0	0	21	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4309568--4309841	37	7.1	39	84	7	346	43	6	3	45	1.48
4322525--4322585	23	2.7	23	84	0	68	50	14	24	9	1.73
4323859--4323950	27	3.1	27	66	24	67	42	0	1	56	1.06
4323826--4323984	63	2.6	62	89	6	243	39	0	1	58	1.09
4323881--4323963	13	6.5	13	67	20	59	42	0	1	56	1.07
4323828--4324029	63	3.3	60	82	12	182	40	0	1	57	1.11
4323979--4324040	19	3.3	19	78	15	58	37	1	0	61	1.06
4324494--4324553	31	1.9	31	89	0	93	41	10	8	40	1.69
4327405--4327486	3	27.3	3	94	0	146	34	2	0	63	1.08
4327948--4328027	42	1.9	41	82	2	97	65	10	25	0	1.24

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