genome.fa.s8772.2.7.7.80.10.50.1000.13.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  13  of  16  ( 1817 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)
2575789--2575935	67	2.2	67	95	1	260	40	14	6	38	1.73
2576320--2576370	17	2.9	17	83	16	61	33	5	7	52	1.54
2582958--2583008	17	2.9	17	83	16	61	33	5	7	52	1.54
2589978--2590363	193	2.0	193	95	3	706	35	9	13	41	1.77
2591402--2591445	21	2.1	21	82	0	52	6	43	13	36	1.71
2592563--2592700	60	2.2	63	83	10	169	31	24	20	23	1.98
2592595--2592718	64	2.0	63	87	7	180	29	25	20	24	1.99
2592585--2592738	64	2.5	61	80	16	165	28	25	20	24	1.99
2595092--2595128	16	2.3	16	90	0	56	67	2	0	29	1.04
2596649--2596679	8	4.0	8	91	8	55	38	0	48	12	1.42
2598101--2598126	12	2.2	12	100	0	52	15	0	0	84	0.62
2607929--2607975	17	2.7	17	81	18	53	31	2	8	57	1.41
2610155--2610198	17	2.6	18	82	13	58	36	4	6	52	1.49
2611158--2611190	17	1.9	18	88	11	52	42	42	3	12	1.57
2612219--2612258	17	2.3	18	91	4	64	17	0	5	77	0.94
2613631--2614143	274	1.9	272	81	8	630	45	5	15	33	1.70
2616386--2616627	118	2.0	120	90	3	380	32	14	19	33	1.91
2620248--2620548	20	14.9	20	75	16	207	39	23	20	16	1.92
2620309--2620560	62	4.1	60	74	11	185	38	24	20	16	1.92
2620248--2620560	40	7.8	40	81	8	305	39	23	20	16	1.91
2620329--2620560	20	11.4	20	81	9	229	37	25	21	16	1.93
2620670--2620812	6	24.7	6	99	0	251	30	51	17	0	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2620813--2620839	5	5.4	5	100	0	54	37	22	40	0	1.54
2621706--2621797	22	4.4	22	84	5	120	17	19	27	35	1.94
2621712--2621822	22	5.2	22	77	17	87	15	19	24	40	1.90
2621788--2621841	20	2.7	20	91	0	81	12	20	16	50	1.78
2623336--2623404	29	2.3	29	82	7	77	52	13	2	31	1.55
2625275--2625348	38	1.9	38	94	0	130	28	5	4	62	1.36
2630153--2630218	23	2.9	22	80	8	69	19	24	22	33	1.97
2637053--2637118	23	2.9	23	83	0	78	19	28	22	28	1.98
2637979--2638025	20	2.3	20	88	0	67	14	17	17	51	1.77
2640872--2640990	31	4.2	30	69	21	103	46	0	2	50	1.20
2640924--2640973	17	3.1	17	76	18	54	50	0	0	50	1.00
2642316--2642452	6	22.8	6	99	0	229	20	16	12	50	1.77
2642570--2642648	23	3.4	23	80	0	86	34	24	21	20	1.97
2642594--2642656	23	2.7	23	85	0	81	33	23	25	17	1.96
2642733--2642797	14	4.4	14	73	17	60	35	23	9	32	1.86
2642824--2642869	14	3.2	14	78	6	56	39	23	6	30	1.80
2646881--2647006	60	2.1	60	84	7	159	33	25	3	37	1.75
2647158--2647330	60	2.9	58	79	3	157	39	7	24	28	1.82
2650815--2650847	2	16.5	2	93	0	57	51	0	0	48	1.00
2650911--2650969	24	2.4	25	75	13	61	27	0	3	69	1.04
2655324--2655481	20	7.8	20	69	7	68	38	24	17	19	1.92
2655449--2655759	20	15.5	20	81	6	79	34	26	19	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2655449--2655838	40	9.7	40	87	2	430	35	25	18	20	1.95
2655487--2655838	20	17.6	19	84	5	389	34	25	18	21	1.96
2656515--2656561	24	2.0	24	87	8	69	25	14	21	38	1.92
2656736--2656760	12	2.1	12	100	0	50	72	0	28	0	0.86
2659037--2659310	19	15.4	19	81	15	354	46	17	21	13	1.83
2659065--2659332	109	2.5	105	91	6	459	46	16	22	14	1.83
2659065--2659332	52	5.0	52	93	4	455	46	16	22	14	1.83
2659339--2659421	20	4.6	19	81	15	113	14	24	18	43	1.87
2659528--2659564	14	2.6	14	91	0	65	45	21	0	32	1.52
2661495--2661587	33	2.8	33	93	0	159	47	21	19	11	1.81
2661458--2661592	19	7.6	19	76	16	128	45	23	18	11	1.82
2661514--2661570	14	3.7	14	75	20	51	45	22	19	12	1.83
2661588--2661716	19	7.3	19	75	17	125	8	17	28	45	1.77
2661588--2661679	33	2.8	33	93	3	150	7	18	28	45	1.76
2661759--2662136	93	4.1	93	98	1	726	46	18	12	22	1.82
2663842--2663912	14	4.7	14	83	16	97	40	23	26	8	1.83
2663837--2663903	33	2.0	33	94	0	116	43	20	26	8	1.82
2663946--2664002	14	3.7	14	75	20	60	8	24	22	43	1.81
2663930--2664021	33	2.8	33	93	0	148	8	22	25	43	1.82
2663960--2664028	19	3.9	19	72	18	76	10	23	21	44	1.82
2663957--2664040	19	4.6	19	74	17	61	10	23	21	44	1.84
2664120--2664190	33	2.2	33	92	0	115	47	18	22	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2664371--2664425	22	2.5	22	81	0	74	20	16	40	23	1.91
2664571--2664763	20	9.6	20	82	5	219	19	19	25	35	1.95
2664571--2664763	60	3.2	60	83	0	251	19	19	25	35	1.95
2666451--2666907	36	13.0	36	74	11	367	26	18	12	42	1.86
2666494--2666553	15	3.3	19	65	25	56	23	18	10	48	1.78
2666514--2666704	102	1.9	102	82	2	240	28	17	10	42	1.83
2666617--2666910	37	8.3	36	72	13	198	24	18	13	43	1.86
2666615--2666910	73	4.2	72	73	10	241	24	17	13	43	1.86
2666479--2666878	138	2.9	137	87	2	559	27	18	11	43	1.84
2666550--2666793	65	3.6	65	71	12	213	26	18	12	43	1.85
2666829--2666894	21	3.4	21	70	25	72	25	19	12	42	1.86
2666981--2667057	31	2.4	32	91	4	120	37	14	12	35	1.84
2666981--2667068	31	2.8	31	84	10	115	37	18	11	32	1.86
2668829--2668874	22	2.1	22	84	8	58	26	0	2	71	0.97
2668844--2668885	11	3.8	11	81	6	50	19	0	2	78	0.86
2668825--2668907	29	2.6	33	76	18	86	25	0	3	71	1.02
2668841--2668883	22	2.0	22	86	13	63	23	0	2	74	0.93
2668927--2668965	2	19.5	2	100	0	78	48	0	0	51	1.00
2669099--2669125	13	2.1	13	100	0	54	14	7	0	77	0.97
2684854--2684932	3	25.7	3	84	5	104	35	2	0	62	1.09
2685050--2685140	27	3.4	27	98	0	173	18	42	18	19	1.89
2685388--2685417	13	2.2	14	94	5	53	83	6	10	0	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2686331--2686371	18	2.2	18	86	8	55	36	2	0	60	1.10
2686396--2686434	13	3.0	13	82	10	53	38	0	2	58	1.12
2687101--2687149	18	2.8	18	78	9	57	24	0	2	73	0.94
2687140--2687176	15	2.7	15	88	12	53	24	5	8	62	1.44
2688595--2688634	14	2.9	14	88	0	62	27	12	5	55	1.58
2693245--2693983	85	8.7	85	97	0	1358	27	14	22	35	1.93
2695990--2696190	54	3.8	51	79	11	212	37	15	22	24	1.93
2696562--2696616	22	2.5	22	90	0	92	34	12	14	38	1.84
2697037--2698094	113	9.2	112	87	7	1249	35	14	19	30	1.91
2697086--2698094	118	8.8	113	87	6	1305	36	13	19	30	1.91
2697086--2698079	349	2.9	345	92	4	1607	36	13	20	30	1.91
2698486--2698823	76	4.5	76	95	1	572	24	21	18	35	1.96
2698486--2698823	151	2.2	152	93	1	581	24	21	18	35	1.96
2698949--2699027	3	25.7	3	82	5	95	36	2	0	60	1.10
2699145--2699235	27	3.4	27	96	0	164	19	42	17	19	1.89
2699483--2699514	15	2.1	16	94	5	57	84	6	9	0	0.78
2700429--2700469	18	2.2	18	86	8	55	36	2	0	60	1.10
2700494--2700532	13	3.0	13	82	10	53	38	0	2	58	1.12
2702323--2702372	18	2.8	18	88	8	59	54	4	0	42	1.19
2702321--2702385	19	3.3	19	79	16	69	52	3	0	44	1.16
2702344--2702535	38	4.7	39	68	21	110	46	6	4	43	1.48
2702338--2702601	94	2.9	94	88	9	418	46	5	4	43	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2702419--2702465	14	3.1	14	87	9	58	46	6	2	44	1.40
2702344--2702566	18	11.1	20	71	18	103	46	5	4	43	1.46
2702316--2702694	13	28.7	13	65	22	98	48	5	4	41	1.46
2702640--2702795	2	79.0	2	71	18	96	46	3	5	44	1.41
2702352--2702654	94	3.3	92	80	11	239	47	5	5	42	1.48
2702576--2702730	66	2.3	67	74	14	151	49	4	5	41	1.45
2702853--2702894	7	6.0	7	82	0	57	45	38	0	16	1.48
2703009--2703118	42	2.6	42	92	0	184	39	7	12	40	1.71
2703267--2703342	7	10.9	7	73	5	55	44	32	0	22	1.53
2703241--2703347	28	3.9	26	72	10	88	46	28	0	23	1.58

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16