genome.fa.s8087.2.7.7.80.10.50.1000.18.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: VEPZ01008087.1 Hibiscus syriacus cultivar Beakdansim tig00110597_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8279816

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   

This is table  18  of  37  ( 4336 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)
4119246--4119306	17	3.6	17	73	20	65	37	0	0	62	0.96
4119393--4119461	23	3.0	23	80	6	59	46	0	2	50	1.16
4119431--4119499	19	3.6	19	72	14	61	47	0	1	50	1.09
4119472--4119613	24	6.0	24	64	18	75	47	0	1	50	1.15
4119609--4119677	22	3.0	23	83	6	79	49	0	1	49	1.09
4119856--4119943	42	2.1	42	85	4	115	54	11	10	23	1.66
4121729--4121818	35	2.6	35	92	0	162	53	2	8	35	1.45
4133382--4133483	37	2.9	36	88	5	154	44	12	14	28	1.82
4133382--4133481	34	2.8	35	89	6	148	44	13	14	29	1.82
4133379--4133517	37	3.8	37	82	5	149	41	12	13	31	1.83
4133787--4133850	22	2.9	22	76	23	64	20	6	4	68	1.30
4133797--4133850	21	2.5	20	75	18	56	20	5	3	70	1.23
4133800--4133866	23	3.0	22	73	16	64	22	4	4	68	1.26
4133864--4133948	33	2.6	32	81	10	100	31	2	1	64	1.13
4133888--4133978	30	2.9	31	77	14	87	26	2	1	70	1.06
4133888--4133971	37	2.4	33	81	13	98	28	2	0	69	1.01
4133922--4133970	21	2.3	22	80	16	59	26	2	0	71	0.97
4134114--4134143	15	2.0	15	100	0	60	20	20	0	60	1.37
4136074--4136113	18	2.2	18	100	0	80	20	32	12	35	1.90
4136634--4136672	8	5.0	8	84	6	53	10	17	12	58	1.61
4137798--4137840	13	3.2	13	81	18	52	76	9	11	2	1.10
4137829--4137873	23	1.9	23	86	4	63	75	6	17	0	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4138461--4138504	22	2.0	22	91	8	72	38	22	11	27	1.88
4138939--4138974	18	2.0	18	88	0	54	16	5	33	44	1.71
4139546--4139614	22	3.5	22	68	25	71	28	17	11	42	1.84
4139540--4139741	37	5.5	36	94	2	314	27	19	11	41	1.86
4139754--4139875	36	3.4	36	84	5	158	24	20	14	40	1.90
4140482--4141095	105	5.9	105	91	2	943	33	26	17	22	1.96
4141643--4141744	37	2.9	36	88	5	154	44	12	14	28	1.82
4141643--4141742	34	2.8	35	89	6	148	44	13	14	29	1.82
4141640--4141753	37	3.2	37	83	7	144	42	14	14	29	1.84
4142043--4142104	23	2.8	22	75	20	58	20	6	4	67	1.32
4142058--4142103	24	2.0	23	83	12	58	19	6	4	69	1.28
4142120--4142223	42	2.5	39	77	18	104	33	1	0	63	1.12
4142117--4142250	44	3.0	43	73	17	114	31	2	0	65	1.10
4142117--4142250	46	3.0	44	78	16	143	31	2	0	65	1.10
4142203--4142279	24	3.2	24	77	15	70	19	5	1	74	1.08
4142384--4142413	15	2.0	15	100	0	60	20	20	0	60	1.37
4145928--4145954	6	4.5	6	100	0	54	0	0	48	51	1.00
4151827--4151872	20	2.3	19	82	10	65	52	10	17	19	1.74
4155116--4155855	201	3.7	201	94	0	1293	36	14	17	32	1.90
4158488--4158979	251	2.0	250	83	4	634	38	14	15	31	1.87
4162213--4162375	87	1.9	87	96	0	299	33	15	11	39	1.82
4162297--4162341	23	2.0	23	95	0	81	37	20	8	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4164863--4164955	21	4.5	21	78	4	100	39	18	24	17	1.91
4164863--4164955	41	2.3	41	100	0	186	39	18	24	17	1.91
4164882--4165016	41	3.3	41	83	4	139	38	20	20	20	1.94
4164944--4165037	20	4.7	20	77	2	80	34	23	17	25	1.96
4165552--4165632	19	4.5	19	73	16	73	46	24	17	11	1.80
4165628--4165736	19	5.7	19	91	2	173	11	18	21	48	1.79
4165719--4165806	33	2.6	33	92	1	140	11	25	25	38	1.89
4165774--4165831	20	2.9	20	80	10	64	13	24	18	43	1.87
4167833--4167953	42	2.9	42	80	2	118	23	33	18	24	1.96
4169312--4169347	14	2.6	14	95	0	63	30	0	25	44	1.54
4169527--4169677	19	8.7	19	64	21	80	15	22	20	41	1.89
4169531--4169657	33	3.9	32	87	8	193	14	22	19	42	1.88
4169524--4169656	66	2.0	66	97	0	248	16	22	19	41	1.90
4171939--4171963	12	2.1	12	100	0	50	0	28	0	72	0.86
4172138--4172191	24	2.2	24	86	0	72	40	20	16	22	1.91
4173244--4173301	20	2.9	20	94	0	98	37	22	22	17	1.93
4173325--4173382	14	3.8	14	79	20	71	10	20	18	50	1.76
4173307--4173377	33	2.2	33	84	0	88	19	19	21	39	1.93
4173320--4173454	19	7.6	19	83	13	173	13	21	18	46	1.83
4173320--4173437	33	3.4	33	92	5	182	13	20	17	48	1.81
4175444--4175510	19	3.5	19	83	4	89	37	23	23	14	1.93
4175499--4175556	14	3.9	14	79	16	71	48	25	17	8	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4175483--4175561	32	2.4	33	95	2	142	46	24	18	10	1.80
4175568--4175715	14	8.6	18	75	15	77	12	20	23	43	1.86
4175590--4175661	14	4.9	14	82	12	90	9	16	25	48	1.76
4175573--4175646	32	2.3	32	97	2	139	9	17	24	48	1.76
4175662--4175715	20	2.8	19	86	5	72	16	24	24	35	1.95
4176188--4176232	18	2.5	18	85	0	63	11	15	46	26	1.79
4177552--4177589	20	1.9	20	88	0	58	50	21	15	13	1.78
4178042--4178155	20	5.7	20	77	10	90	25	16	24	33	1.96
4178144--4178236	20	4.5	21	78	4	100	17	24	18	39	1.91
4178083--4178217	41	3.3	41	84	4	148	20	20	21	37	1.94
4178144--4178236	41	2.3	41	100	0	186	17	24	18	39	1.91
4182457--4182619	87	1.9	87	94	0	290	41	10	14	33	1.80
4186035--4186520	169	2.8	169	89	5	697	33	16	13	36	1.88
4187754--4188715	200	4.8	200	95	0	1698	29	18	15	36	1.92
4187754--4188715	399	2.4	400	95	1	1709	29	18	15	36	1.92
4188937--4188997	19	3.3	18	88	2	59	52	11	1	34	1.47
4188949--4188997	19	2.6	19	96	0	89	55	10	2	32	1.45
4192118--4192452	161	2.1	162	88	0	492	28	15	13	42	1.85
4199173--4199218	2	23.0	2	100	0	92	50	0	0	50	1.00
4199226--4199291	33	2.0	33	96	0	123	30	24	10	34	1.89
4213653--4213691	19	2.0	20	85	5	53	58	7	0	33	1.26
4229543--4229877	161	2.1	162	88	0	492	28	15	13	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4236597--4236637	2	21.0	2	95	5	75	48	0	0	51	1.00
4236645--4236710	33	2.0	33	96	0	123	30	24	10	34	1.89
4253585--4253623	19	2.0	20	85	5	53	58	7	0	33	1.26
4275511--4275563	21	2.5	21	75	6	63	22	26	16	33	1.96
4275553--4275750	21	9.6	21	69	12	97	35	18	20	25	1.95
4275657--4275768	20	5.6	20	84	4	136	37	20	20	21	1.94
4275657--4275750	41	2.3	41	88	1	136	39	19	21	20	1.93
4275535--4275726	103	1.9	104	84	5	264	33	19	19	27	1.96
4276282--4276348	19	3.5	19	83	2	80	49	25	14	10	1.76
4276344--4276508	19	9.1	19	75	15	143	12	23	20	44	1.85
4276404--4276459	14	3.6	14	74	21	58	10	25	25	39	1.87
4276385--4276483	33	3.0	33	95	1	171	11	25	23	40	1.87
4278601--4278689	42	2.1	42	80	0	106	21	38	16	23	1.93
4280070--4280105	14	2.6	14	95	0	63	30	0	25	44	1.54
4280250--4280400	19	8.7	19	64	21	80	15	23	20	41	1.90
4280254--4280380	33	3.9	32	87	8	193	14	23	19	41	1.89
4280247--4280379	66	2.0	66	97	0	248	16	23	19	40	1.91
4282675--4282711	12	3.1	12	100	0	74	0	27	0	72	0.84
4282886--4282939	24	2.2	24	90	0	81	40	20	16	22	1.91
4283723--4283774	21	2.5	21	81	3	61	38	19	21	21	1.94
4283763--4283841	20	3.9	20	77	9	70	35	22	18	22	1.96
4283801--4283850	20	2.5	20	80	0	73	38	22	18	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4283950--4284027	20	3.9	20	73	6	77	41	20	17	20	1.91
4284046--4284132	19	4.8	19	84	9	121	13	20	18	47	1.83
4284046--4284162	38	3.4	33	80	12	126	14	19	20	45	1.85
4285716--4285806	42	2.2	42	84	3	123	23	15	39	21	1.91
4286144--4286216	20	3.7	20	88	0	83	36	27	13	21	1.92
4286170--4286256	20	4.4	20	85	1	104	39	24	21	14	1.91
4286305--4286363	14	3.9	14	76	20	64	10	16	23	49	1.77
4286294--4286379	33	2.6	33	96	0	154	11	17	20	50	1.77
4286953--4287000	18	2.7	18	90	0	69	16	12	41	29	1.85
4288320--4288362	20	2.2	20	95	0	77	53	18	18	9	1.70

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