genome.fa.s8323.2.7.7.80.10.50.1000.15.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  15  of  26  ( 3017 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)
2888598--2888627	2	15.0	2	100	0	60	50	0	0	50	1.00
2888895--2888943	2	24.5	2	100	0	98	48	0	0	51	1.00
2888950--2889011	12	5.1	11	76	18	52	14	6	0	79	0.93
2888959--2889009	16	3.2	16	76	15	52	13	7	0	78	0.96
2888950--2889011	25	2.5	25	84	5	72	14	6	0	79	0.93
2892177--2892226	2	25.5	2	87	4	75	52	0	2	46	1.12
2894000--2894085	2	45.5	2	82	11	101	47	1	0	51	1.08
2894059--2894121	33	1.9	32	90	3	99	42	0	0	57	0.99
2896634--2896696	28	2.3	28	97	2	119	28	22	30	19	1.98
2899473--2899506	16	2.1	17	88	5	52	35	0	0	64	0.94
2903188--2903330	55	2.6	54	86	4	198	43	12	22	21	1.86
2905467--2905502	19	2.0	17	89	10	54	22	16	13	47	1.82
2907610--2907637	2	14.0	2	100	0	56	50	0	0	50	1.00
2910003--2910575	37	14.9	37	69	11	287	33	21	19	25	1.97
2910003--2910553	116	4.8	116	93	0	888	33	21	19	25	1.97
2914522--2914664	55	2.6	54	86	4	198	43	12	22	21	1.86
2916801--2916836	19	2.0	17	89	10	54	22	16	13	47	1.82
2918943--2919003	2	30.5	2	100	0	122	50	0	0	49	1.00
2921365--2921937	37	14.9	37	69	11	287	33	21	19	25	1.97
2921365--2921915	116	4.8	116	93	0	888	33	21	19	25	1.97
2924120--2924145	3	8.7	3	100	0	52	0	0	30	69	0.89
2927247--2927368	61	2.0	61	98	0	235	34	16	18	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2935147--2935184	19	2.0	20	85	15	53	42	5	5	47	1.48
2935283--2935418	65	2.1	64	85	6	186	27	22	17	31	1.97
2936861--2936887	12	2.2	12	100	0	54	66	7	25	0	1.17
2937026--2937109	41	2.0	41	100	0	168	44	21	16	17	1.87
2941129--2941231	44	2.3	44	86	3	136	31	18	20	30	1.96
2943867--2944022	65	2.4	65	86	7	203	29	22	16	31	1.96
2943867--2944042	65	2.7	65	77	11	182	28	23	17	30	1.97
2946829--2946910	39	2.1	39	97	0	155	32	18	17	31	1.94
2948751--2948803	26	2.0	26	100	0	106	43	11	11	33	1.76
2948888--2948946	20	3.2	18	74	25	52	55	11	6	25	1.60
2950248--2950330	3	28.3	3	70	4	53	54	1	1	43	1.16
2950504--2950614	53	2.1	53	91	3	179	18	25	24	32	1.97
2951361--2951406	20	2.3	20	88	0	65	28	19	26	26	1.99
2953034--2953080	19	2.4	20	96	3	87	38	23	21	17	1.93
2954027--2954074	20	2.4	20	89	0	69	39	22	18	18	1.92
2954935--2954988	24	2.2	24	90	0	81	20	20	18	40	1.91
2957430--2957503	20	3.7	20	88	0	121	36	24	20	18	1.95
2957426--2957502	40	1.9	41	97	2	147	37	22	20	19	1.94
2957509--2957632	19	6.7	19	86	10	186	45	17	21	14	1.84
2957530--2957644	38	3.3	32	79	16	115	41	19	22	16	1.90
2957781--2957817	14	2.6	14	86	0	56	48	21	0	29	1.50
2959088--2959185	41	2.4	42	77	5	110	22	20	34	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2959516--2959572	20	2.8	20	94	0	96	38	19	19	22	1.93
2959589--2959754	40	4.5	37	79	15	136	17	18	20	43	1.88
2959613--2959756	20	7.5	20	85	9	201	18	18	21	42	1.89
2961514--2961553	20	2.0	20	100	0	80	55	15	15	15	1.71
2961519--2961583	20	3.2	20	86	0	76	43	23	16	16	1.88
2961627--2961675	20	2.5	20	82	0	62	20	18	24	36	1.94
2962247--2962298	20	2.6	20	100	0	104	23	21	25	30	1.99
2962285--2962394	20	5.4	20	87	2	166	22	18	18	40	1.91
2962285--2962583	41	7.3	40	74	10	178	25	18	21	33	1.96
2962285--2962398	41	2.8	40	90	1	183	23	18	18	39	1.92
2962396--2962440	21	2.1	21	87	0	63	37	17	26	17	1.93
2962496--2962583	20	4.3	20	85	8	115	19	20	23	36	1.95
2962494--2962576	42	2.0	42	90	4	132	18	21	24	36	1.95
2962307--2962708	185	2.2	182	84	5	524	28	18	22	30	1.98
2969752--2969804	26	2.0	26	96	0	97	43	9	11	35	1.73
2971252--2971351	3	34.3	3	72	6	71	55	1	1	43	1.13
2971315--2971352	5	7.6	5	82	11	51	55	0	0	44	0.99
2971307--2971358	14	3.9	13	76	19	54	53	0	1	44	1.11
2971287--2971352	25	2.7	25	83	6	82	54	1	1	42	1.18
2972121--2972163	21	2.0	21	82	13	52	58	4	11	25	1.52
2972177--2972220	19	2.3	19	84	0	61	18	0	6	75	1.02
2972084--2972311	111	2.0	112	88	7	340	36	4	10	48	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2972215--2972387	95	1.8	94	90	3	276	42	5	9	41	1.62
2982668--2982692	9	2.8	9	100	0	50	32	0	0	68	0.90
2983912--2983964	18	2.9	18	94	0	97	26	32	22	18	1.97
2985207--2985249	2	21.5	2	100	0	86	48	0	0	51	1.00
2989734--2989808	21	3.6	21	98	0	141	34	20	29	16	1.94
2989871--2990008	64	2.1	65	81	9	158	27	17	24	30	1.97
2990710--2990747	15	2.4	17	83	16	55	60	23	0	15	1.35
2992476--2992522	19	2.5	19	92	0	85	31	12	21	34	1.91
2992581--2992616	18	2.0	18	88	0	54	33	2	52	11	1.51
2992680--2992731	20	2.6	20	87	0	77	26	19	30	23	1.98
2992723--2992819	44	2.2	43	80	14	110	30	18	20	29	1.97
2998471--2998594	64	1.9	64	80	9	146	29	17	22	29	1.97
2998515--2998676	64	2.5	63	78	6	175	30	15	22	30	1.95
3000521--3000627	18	5.9	18	94	0	187	27	32	21	18	1.97
3001805--3001838	2	17.0	2	100	0	68	50	0	0	50	1.00
3008523--3008592	29	2.3	30	90	4	115	24	10	5	60	1.51
3011353--3011383	16	1.9	16	93	0	53	29	6	0	64	1.18
3014995--3015035	18	2.3	18	86	0	55	56	2	7	34	1.40
3016465--3017238	105	7.4	105	97	0	1442	23	18	24	32	1.97
3017983--3018076	48	1.9	49	82	6	120	15	22	13	47	1.81
3027457--3027490	16	2.1	16	88	0	50	79	2	2	14	0.97
3030701--3030759	29	2.0	30	83	3	75	50	0	1	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3030744--3030784	22	1.9	22	95	5	75	60	0	0	39	0.96
3033333--3033386	26	2.1	26	96	0	99	35	3	16	44	1.66
3037089--3037142	23	2.2	24	78	18	58	48	1	0	50	1.11
3037114--3037160	22	2.1	23	84	4	60	42	2	2	53	1.25
3037108--3037186	32	2.4	33	77	14	83	46	2	1	49	1.23
3037155--3037225	26	2.8	26	78	2	81	52	1	0	46	1.09
3037153--3037198	23	2.1	22	88	8	67	52	2	0	45	1.13
3037153--3037239	23	3.6	24	72	17	65	51	1	0	47	1.08
3037340--3037381	23	1.9	22	85	9	59	50	4	0	45	1.23
3037413--3037489	14	5.4	14	70	7	57	51	1	0	46	1.09
3041297--3041330	2	17.0	2	100	0	68	50	0	0	50	1.00
3041771--3041813	2	21.5	2	90	0	68	48	2	0	48	1.14
3042207--3042254	19	2.4	20	86	6	62	33	2	2	62	1.18
3042136--3042297	87	1.9	88	84	3	220	31	8	5	54	1.54
3042524--3042555	7	4.6	7	92	0	55	15	0	40	43	1.47
3042524--3042570	14	3.4	14	82	8	60	17	2	36	44	1.60
3043662--3043869	60	3.5	60	74	9	183	39	6	21	32	1.78
3045586--3045711	60	2.1	60	82	2	155	34	15	4	46	1.67
3046044--3046110	32	2.1	32	82	0	80	26	22	14	35	1.93
3046659--3046870	60	3.6	58	78	9	214	39	6	22	31	1.80
3054015--3054060	22	2.1	22	88	8	67	23	43	10	21	1.84
3054434--3054486	19	2.8	20	85	8	74	13	15	22	49	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3055380--3055428	21	2.3	21	100	0	98	34	12	18	34	1.88
3056604--3056720	21	5.6	20	77	8	101	21	35	19	23	1.96
3056602--3056720	42	2.8	41	87	5	159	21	35	19	24	1.96
3057123--3057171	19	2.5	19	86	3	62	20	16	32	30	1.94
3058291--3058649	22	16.6	22	88	5	545	38	0	11	49	1.39
3060718--3060749	8	3.9	8	95	4	55	34	12	0	53	1.39
3060718--3060749	17	1.9	16	93	6	55	34	12	0	53	1.39
3060946--3061024	28	2.8	28	88	0	113	36	26	18	17	1.94
3065002--3065075	28	2.6	28	89	0	103	36	28	21	13	1.91
3072695--3072741	20	2.3	20	92	0	76	53	8	12	25	1.67

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