genome.fa.s8495.2.7.7.80.10.50.1000.16.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  16  of  21  ( 2505 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)
3646739--3646788	17	3.0	17	85	2	66	34	2	6	58	1.34
3649877--3650249	112	3.3	112	94	0	629	25	14	13	46	1.81
3656407--3656461	21	2.6	21	97	0	101	25	29	25	20	1.99
3658858--3658891	17	1.9	18	88	5	52	32	0	11	55	1.36
3659260--3659330	23	3.2	22	72	22	67	29	21	21	28	1.98
3659255--3659358	44	2.4	44	86	0	145	29	19	20	30	1.97
3664849--3664888	20	2.0	21	85	5	55	25	17	10	47	1.78
3671828--3671899	24	3.2	24	72	22	73	31	19	16	31	1.94
3671983--3672016	17	2.0	17	94	0	59	17	17	8	55	1.66
3672057--3672129	24	3.2	22	74	21	71	32	20	15	31	1.93
3671714--3672341	229	2.9	218	89	7	956	30	20	14	34	1.93
3672270--3672352	44	1.9	43	90	2	130	34	21	12	31	1.90
3674135--3674229	47	2.0	47	89	0	145	30	6	26	36	1.81
3678140--3678231	20	4.5	21	80	11	93	31	17	17	33	1.93
3678688--3678722	18	1.9	18	88	11	54	22	0	14	62	1.31
3688460--3688531	21	3.4	21	92	0	126	40	22	20	16	1.91
3716027--3716090	19	3.3	19	78	10	76	31	10	23	34	1.89
3716146--3716199	21	2.6	21	81	0	72	37	12	18	31	1.89
3718848--3718893	20	2.3	20	84	0	56	36	8	19	34	1.83
3718890--3718937	21	2.3	21	92	0	78	41	20	12	25	1.87
3729209--3729237	15	2.0	15	93	6	51	0	20	3	75	0.94
3734878--3734924	23	2.0	24	84	12	62	72	2	4	21	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3744371--3744589	115	1.9	115	84	5	291	27	22	13	36	1.92
3744382--3744780	190	2.1	191	82	6	479	28	21	14	36	1.92
3744573--3744841	116	2.4	113	86	4	371	27	20	13	37	1.91
3745341--3745430	11	7.5	11	69	20	56	5	18	0	75	0.99
3745364--3745429	19	3.4	20	73	21	59	6	18	0	75	1.00
3745341--3745419	29	2.6	31	78	21	89	6	18	0	74	1.02
3751088--3751174	37	2.3	39	84	5	108	32	17	4	45	1.68
3751088--3751188	19	5.4	19	81	2	114	33	16	3	45	1.66
3751157--3751195	19	2.1	19	85	0	51	35	23	2	38	1.68
3754105--3754139	3	11.7	3	100	0	70	34	0	0	65	0.93
3755443--3755476	15	2.3	15	89	0	50	44	2	0	52	1.16
3756244--3756338	28	3.4	28	76	15	90	33	6	1	58	1.30
3756244--3756338	29	3.4	30	78	15	89	33	6	1	58	1.30
3762556--3762587	9	3.6	9	91	0	55	21	21	0	56	1.43
3766113--3766160	16	3.1	15	88	11	62	83	0	14	2	0.74
3766098--3766158	23	2.7	22	82	7	68	83	0	11	4	0.79
3766111--3766160	25	2.0	25	88	7	75	84	0	14	2	0.72
3766489--3766566	18	3.9	19	80	13	79	29	10	5	55	1.55
3767700--3768149	113	4.0	112	89	1	679	37	15	19	27	1.92
3769679--3769738	22	2.8	22	72	22	56	23	3	8	65	1.36
3769748--3769782	3	11.7	3	87	0	52	34	2	2	60	1.26
3776454--3776542	32	2.8	32	79	6	108	34	16	22	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3784173--3784219	16	2.8	17	81	12	53	23	0	19	57	1.41
3785036--3785084	16	3.1	16	79	8	64	44	0	2	53	1.12
3788454--3788563	59	1.9	56	83	5	139	28	18	23	30	1.98
3796285--3796324	21	2.0	20	95	5	71	12	30	32	25	1.92
3803101--3803140	21	1.9	21	100	0	80	10	30	35	25	1.88
3803753--3803814	15	4.1	15	100	0	124	12	25	33	27	1.93
3803753--3803829	30	2.7	30	92	6	124	14	25	33	25	1.94
3804685--3804969	142	2.0	142	99	0	561	36	11	21	31	1.88
3805876--3805932	30	1.9	30	96	0	105	50	8	21	19	1.74
3809840--3809891	20	2.9	17	76	15	52	61	3	11	23	1.46
3809930--3809967	14	2.7	14	92	8	60	57	0	13	28	1.36
3818010--3818055	22	2.1	22	87	0	65	36	2	8	52	1.45
3823557--3823602	22	2.1	22	91	0	74	36	2	10	50	1.50
3823783--3823896	61	1.9	60	90	1	183	28	19	27	24	1.98
3825079--3825124	18	2.6	18	96	0	83	56	0	39	4	1.19
3827084--3827109	13	2.0	13	100	0	52	61	7	7	23	1.49
3828234--3828325	35	2.6	36	74	5	98	50	2	0	47	1.13
3830891--3831017	31	4.2	31	82	8	136	57	1	4	36	1.29
3830938--3831041	31	3.3	32	83	9	108	53	1	5	38	1.36
3831051--3831110	25	2.4	25	85	0	75	53	3	11	31	1.53
3837498--3837567	21	3.4	21	90	2	97	37	7	20	35	1.80
3848259--3848303	24	1.9	23	82	13	56	22	2	22	53	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3852134--3852545	206	2.0	206	99	0	806	33	8	19	38	1.81
3853527--3853765	119	2.0	120	95	4	432	28	23	13	34	1.93
3855828--3855938	35	3.2	35	80	2	125	29	36	3	30	1.75
3856267--3856307	20	2.0	20	85	9	55	78	4	14	2	1.03
3858357--3858469	55	2.0	56	98	1	219	36	22	15	25	1.94
3860196--3860306	35	3.2	35	81	2	125	27	36	2	34	1.71
3861941--3862044	37	2.8	37	85	1	138	39	15	14	30	1.87
3862737--3862849	44	2.6	42	77	16	113	30	5	0	63	1.22
3862783--3862835	12	4.5	11	82	17	54	28	1	0	69	0.99
3862783--3862848	21	3.0	21	74	14	62	27	3	0	69	1.03
3867160--3867222	8	7.8	8	77	13	58	82	4	11	1	0.88
3868797--3870047	105	12.0	106	87	4	1667	34	24	17	23	1.96
3871444--3871482	9	4.3	9	83	9	53	25	10	0	64	1.25
3871408--3871482	25	3.0	25	81	13	66	28	8	0	64	1.22
3871444--3871482	17	2.2	19	86	9	55	25	10	0	64	1.25
3871536--3871610	28	2.6	27	76	19	73	30	1	4	64	1.20
3871512--3871667	6	24.8	6	67	19	61	31	3	2	62	1.27
3871764--3871824	23	2.6	24	77	12	65	21	9	3	65	1.37
3878055--3878109	27	2.0	28	96	3	103	41	3	36	18	1.68
3885210--3885314	45	2.3	46	82	6	135	39	9	20	30	1.85
3885210--3885329	43	2.7	45	82	8	140	40	8	21	30	1.83
3885380--3885433	26	2.0	27	96	3	101	25	0	14	59	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3885747--3885803	30	1.9	30	92	0	96	24	21	21	33	1.97
3888126--3888183	21	2.7	21	79	12	57	36	1	6	55	1.37
3888200--3891316	4	789.8	4	93	3	5394	24	26	0	48	1.53
3891345--3891389	2	22.5	2	100	0	90	48	0	0	51	1.00
3897884--3897991	29	3.7	29	82	0	126	22	24	12	41	1.87
3899080--3899420	171	2.0	171	93	1	585	28	12	23	35	1.91
3903905--3903951	24	2.0	24	86	0	67	44	4	12	38	1.62
3904853--3904890	16	2.4	16	82	4	51	55	0	0	44	0.99
3910065--3910126	23	2.7	23	87	2	90	20	25	30	22	1.98
3925397--3925427	14	2.2	14	94	0	53	38	9	12	38	1.77
3939638--3939671	16	2.1	16	88	0	50	23	23	11	41	1.87
3940131--3940165	16	2.2	16	89	0	52	28	8	11	51	1.67
3943311--3943348	19	2.0	19	85	10	51	47	2	15	34	1.60
3947106--3947642	137	3.9	137	83	4	624	26	15	28	29	1.96
3947145--3947638	273	1.8	273	82	5	649	26	15	29	29	1.96
3947645--3947765	36	3.6	34	72	20	110	41	13	16	28	1.86
3947650--3947786	65	2.1	67	87	5	199	38	13	16	31	1.87
3947726--3947926	102	2.0	102	80	8	232	36	11	15	35	1.85
3950578--3950652	13	6.1	13	75	19	56	1	16	5	77	1.02
3951693--3951841	72	2.0	74	97	2	284	26	26	12	34	1.92
3954220--3954274	23	2.4	23	87	3	85	20	23	34	21	1.97
3985732--3985756	3	8.3	3	100	0	50	68	0	0	32	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3985958--3986497	138	3.9	138	82	6	605	26	15	29	29	1.96
3986500--3986630	36	3.8	34	72	16	101	40	13	16	29	1.87
3986541--3986643	31	3.2	31	70	17	100	37	10	17	33	1.84
3986505--3986643	67	2.1	67	90	2	217	37	12	17	32	1.88
3989455--3989497	4	10.8	4	82	9	52	0	16	2	81	0.79
3989451--3989490	13	3.2	13	92	3	64	0	17	2	80	0.83
3989463--3989525	21	3.0	22	80	11	62	0	17	4	77	0.93
3989459--3989530	33	2.2	32	85	7	92	0	18	5	76	0.97
3989454--3989531	13	6.2	12	76	19	54	0	17	5	76	0.96
3989488--3989531	14	3.2	14	81	12	56	0	18	6	75	1.02

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21