genome.fa.s8243.2.7.7.80.10.50.1000.18.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: 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  18  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)
3406713--3406753	17	2.4	17	91	0	64	26	0	24	48	1.51
3416129--3416307	93	1.9	93	80	4	209	25	17	24	32	1.97
3416196--3416619	78	5.5	78	80	8	431	25	17	23	33	1.96
3418699--3418730	15	2.1	15	94	0	55	31	25	18	25	1.98
3418676--3418763	38	2.3	38	92	0	140	28	17	17	37	1.92
3432637--3432732	29	3.2	28	68	13	68	51	4	10	34	1.56
3432599--3432750	60	2.5	60	79	8	148	50	4	13	32	1.62
3435876--3435925	19	2.6	19	90	0	73	38	10	18	34	1.84
3435957--3435998	21	2.0	21	90	0	66	23	23	23	28	2.00
3436357--3436391	3	11.7	3	100	0	70	65	0	0	34	0.93
3437792--3437821	9	3.4	9	95	4	53	56	0	36	6	1.26
3438227--3438259	12	2.8	12	95	0	57	15	3	33	48	1.60
3443525--3443568	23	1.9	23	85	0	61	29	25	25	20	1.99
3443548--3443852	149	2.0	149	98	0	592	33	20	17	27	1.95
3444319--3444382	2	32.0	2	100	0	128	50	0	0	50	1.00
3445400--3445444	21	2.1	21	87	0	63	15	24	28	31	1.96
3448704--3448747	23	1.9	23	85	0	61	29	25	25	20	1.99
3448727--3449031	149	2.0	149	98	0	592	33	20	17	27	1.95
3449488--3449546	2	30.0	2	96	3	111	50	0	0	49	1.00
3450553--3450597	21	2.1	21	87	0	63	15	24	28	31	1.96
3453812--3453855	23	1.9	23	85	0	61	29	25	25	20	1.99
3453835--3454136	147	2.0	148	97	1	572	33	20	17	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3454597--3454660	2	32.0	2	100	0	128	50	0	0	50	1.00
3455669--3455713	21	2.1	21	87	0	63	15	24	28	31	1.96
3468617--3468652	18	2.1	18	89	5	56	47	0	19	33	1.50
3475233--3475285	18	2.9	18	88	5	81	24	33	20	20	1.97
3479055--3479085	8	3.9	8	95	0	53	12	0	19	67	1.22
3481512--3481551	17	2.5	15	88	8	53	52	2	0	45	1.14
3481598--3481637	16	2.5	16	91	0	62	42	12	2	42	1.56
3481666--3481826	11	13.5	11	69	20	67	44	8	2	44	1.48
3481785--3481876	27	3.3	28	76	13	93	50	8	0	41	1.33
3481998--3482039	22	1.9	22	90	0	66	50	7	4	38	1.51
3482444--3482491	12	4.0	12	86	0	69	39	12	22	25	1.89
3482448--3482503	24	2.3	24	87	0	76	33	14	21	30	1.93
3485931--3485991	17	3.4	17	78	14	68	47	9	1	40	1.46
3486400--3486508	57	2.0	54	87	8	157	52	11	1	34	1.48
3486612--3486661	19	2.6	20	84	6	68	0	38	0	62	0.96
3487358--3487403	2	23.0	2	95	0	83	50	0	2	47	1.13
3489714--3489740	2	13.5	2	100	0	54	48	0	0	51	1.00
3496567--3496650	13	6.4	13	74	15	50	59	1	1	38	1.13
3496563--3496643	17	4.8	16	73	13	54	59	0	1	39	1.05
3496412--3496851	170	2.7	156	83	11	543	57	1	2	37	1.23
3496563--3496643	16	4.7	18	73	18	57	59	0	1	39	1.05
3496733--3496826	16	5.6	16	74	12	64	62	1	1	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3496742--3496820	39	2.0	40	83	11	101	64	1	0	34	1.02
3501733--3502247	260	2.0	259	87	2	755	31	17	19	32	1.95
3508306--3508352	20	2.4	19	79	10	58	55	8	17	19	1.67
3512511--3512572	19	3.4	19	91	4	92	30	3	11	54	1.51
3512653--3513674	197	5.1	200	96	1	1801	37	14	15	33	1.88
3515135--3515196	18	3.4	18	88	0	88	38	6	33	20	1.79
3515135--3515196	6	10.3	6	83	0	61	38	6	33	20	1.79
3515150--3515200	3	17.0	3	83	0	66	37	3	33	25	1.74
3515138--3515200	12	5.2	12	90	0	81	36	6	33	23	1.80
3516559--3517606	191	5.7	184	95	4	1883	35	15	15	33	1.89
3516559--3517606	375	2.8	375	97	1	1960	35	15	15	33	1.89
3520155--3520216	22	2.8	22	90	2	88	37	6	19	37	1.78
3520155--3520226	23	3.2	22	88	4	90	36	5	19	38	1.75
3520579--3520640	22	2.8	22	90	2	88	37	6	19	37	1.78
3520579--3520650	23	3.2	22	88	4	90	36	5	19	38	1.75
3528438--3528904	242	1.9	242	80	3	537	38	14	7	38	1.76
3564546--3564917	185	2.0	185	81	2	433	34	14	10	39	1.81
3565235--3565323	31	2.9	31	100	0	178	44	13	12	29	1.80
3565234--3565332	31	3.2	31	94	2	164	44	13	15	27	1.83
3566124--3566164	17	2.6	15	82	14	55	41	2	0	56	1.13
3566524--3566556	15	2.3	15	89	5	50	57	0	0	42	0.98
3566614--3566673	15	4.1	14	78	19	61	68	0	5	26	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3568044--3568111	12	5.4	13	84	7	79	58	0	0	41	0.98
3568051--3568112	3	20.0	3	83	6	79	61	0	0	38	0.96
3568239--3568728	75	6.5	76	94	1	806	34	21	20	23	1.96
3568239--3568728	151	3.2	151	94	0	836	34	21	20	23	1.96
3569409--3569463	22	2.5	22	90	0	92	38	14	10	36	1.81
3571646--3571671	6	4.3	6	100	0	52	19	15	15	50	1.79
3571957--3572402	114	3.9	114	95	0	759	31	19	14	33	1.92
3579451--3579491	17	2.6	15	82	14	55	41	2	0	56	1.13
3579944--3580003	15	4.1	14	78	19	61	68	0	5	26	1.10
3581392--3581456	3	21.0	3	84	6	85	61	0	0	38	0.96
3581385--3581456	24	3.0	23	88	11	101	59	0	0	40	0.97
3583933--3583986	2	27.0	2	100	0	108	50	0	0	50	1.00
3585645--3585677	3	10.7	3	93	6	57	0	36	0	63	0.95
3587856--3587899	12	3.8	12	81	3	54	25	22	15	36	1.94
3592664--3592742	38	2.1	38	85	2	104	20	17	24	37	1.93
3601919--3601995	29	2.7	28	74	4	73	36	12	3	46	1.61
3606589--3606636	8	5.6	8	79	13	51	12	4	2	81	0.93
3608058--3608136	18	4.4	18	91	3	108	20	20	27	31	1.97
3608058--3608146	18	4.9	18	87	0	106	21	19	28	31	1.97
3612123--3612149	2	13.5	2	100	0	54	48	0	0	51	1.00
3612553--3612623	18	3.9	18	90	0	106	19	18	32	29	1.96
3612553--3612623	36	2.0	36	94	0	124	19	18	32	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3618220--3618258	8	4.6	8	87	9	51	69	2	0	28	1.02
3618220--3618283	26	2.4	25	79	7	65	65	1	1	31	1.11
3620204--3620290	32	2.7	31	81	10	88	41	8	8	42	1.64
3623342--3623401	23	2.7	23	73	17	54	38	1	5	55	1.32
3623348--3623401	24	2.4	22	76	11	56	38	1	3	55	1.28
3627967--3628050	31	2.8	29	67	13	71	36	15	10	36	1.82
3636636--3636820	92	2.0	93	98	1	363	36	22	15	25	1.93
3637144--3637243	53	1.9	53	87	4	150	40	12	1	47	1.47
3637429--3637477	24	2.0	24	92	0	80	55	8	12	24	1.64
3651879--3651950	26	3.0	24	69	21	60	27	6	1	63	1.28
3651979--3652063	35	2.5	33	78	14	91	27	7	10	55	1.60
3658482--3658556	39	1.9	39	86	5	107	54	8	1	36	1.38
3658584--3658635	14	3.9	14	80	12	56	30	0	25	44	1.54
3676718--3676749	13	2.5	13	100	0	64	15	0	0	84	0.63
3676717--3676747	6	5.0	6	92	7	53	16	0	0	83	0.64
3676841--3676886	18	2.7	17	83	6	58	36	6	26	30	1.82
3677458--3677550	38	2.5	38	86	8	145	37	36	11	13	1.82
3677722--3677807	38	2.3	37	90	6	136	38	37	11	12	1.80
3677412--3677989	260	2.2	258	91	2	926	35	27	12	24	1.91
3679415--3679581	60	2.8	60	81	8	180	32	20	4	42	1.71
3680282--3680321	21	1.9	21	89	0	62	50	20	0	30	1.49
3680289--3680337	21	2.3	21	82	10	55	44	24	0	30	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3681424--3681482	21	2.8	21	76	0	73	28	25	20	25	1.99
3688454--3688510	29	2.0	28	80	16	64	63	1	0	35	1.05
3690449--3690563	60	1.9	60	82	7	144	40	5	10	44	1.61
3690447--3690574	60	2.1	60	78	8	136	38	8	10	42	1.69
3692200--3692238	2	19.5	2	89	0	51	51	5	0	43	1.24
3692028--3692405	193	2.0	193	81	6	444	42	8	7	41	1.64
3694554--3694602	22	2.3	20	79	6	53	44	8	2	44	1.45
3696435--3696498	34	2.0	33	84	9	87	39	17	20	23	1.92
3700041--3700197	64	2.5	62	80	7	161	33	19	23	23	1.97
3703100--3703139	20	2.1	19	90	4	62	62	0	17	20	1.33

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