genome.fa.s8955.2.7.7.80.10.50.1000.16.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: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  16  of  23  ( 2731 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)
3118766--3118824	23	2.6	23	80	0	73	18	20	27	33	1.96
3125590--3125639	23	2.2	23	88	0	73	20	26	26	28	1.99
3131774--3131811	20	1.9	20	88	0	58	26	39	26	7	1.83
3138711--3138752	16	2.6	16	92	0	66	54	26	2	16	1.54
3139071--3139198	36	3.5	35	77	7	105	35	17	9	37	1.82
3139327--3139749	66	6.4	65	78	12	386	29	18	12	39	1.87
3139753--3140103	132	2.7	130	82	4	404	25	29	18	26	1.98
3141485--3141538	28	1.9	28	81	7	65	16	11	11	61	1.57
3141602--3141749	30	4.8	30	86	4	188	20	11	5	62	1.47
3141602--3141762	63	2.6	63	88	2	238	19	11	6	62	1.49
3141602--3141786	30	5.8	33	83	9	183	18	12	7	62	1.52
3148763--3148796	17	2.0	17	88	0	50	14	8	2	73	1.19
3153558--3153612	9	5.5	10	81	14	69	76	1	1	20	0.97
3153561--3153613	19	2.7	20	80	17	65	75	1	1	20	0.99
3153558--3153613	21	2.8	21	81	15	73	75	1	1	21	0.99
3153563--3153598	13	2.6	14	86	8	56	77	0	0	22	0.76
3153542--3153622	19	4.2	17	75	17	54	72	3	3	19	1.15
3153657--3153702	18	2.6	17	80	12	58	73	0	8	17	1.07
3153805--3153843	18	2.1	18	85	4	51	76	0	5	17	0.96
3153806--3153895	46	2.0	44	81	14	103	70	1	4	24	1.13
3153961--3154038	2	41.5	2	75	12	67	60	0	1	38	1.05
3153961--3154038	30	2.6	31	76	11	83	60	0	1	38	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3153992--3154032	11	3.5	12	81	15	50	68	0	0	31	0.90
3156257--3156437	67	2.8	65	85	7	226	37	8	22	32	1.85
3156383--3156474	34	2.6	38	88	11	149	35	11	23	28	1.91
3157959--3158093	69	2.0	69	86	0	189	25	14	22	37	1.92
3158177--3158228	13	4.2	12	77	18	61	1	19	1	76	0.97
3158165--3158227	27	2.4	27	87	10	87	3	19	3	74	1.09
3158165--3158220	28	2.0	28	93	6	96	3	17	3	75	1.10
3160659--3160692	18	1.9	17	88	5	50	76	0	8	14	1.01
3160954--3160995	2	21.0	2	100	0	84	50	0	0	50	1.00
3160983--3161051	21	3.2	21	78	13	70	68	0	4	27	1.09
3161035--3161065	14	2.2	14	94	0	53	74	0	0	25	0.82
3160983--3161070	39	2.2	40	77	15	103	67	0	4	28	1.11
3162504--3162560	30	1.9	30	92	0	96	33	5	15	45	1.69
3163899--3163975	38	2.0	38	97	0	145	37	7	27	27	1.84
3163965--3164010	22	2.1	22	88	8	67	28	4	36	30	1.76
3164539--3164658	31	4.0	30	82	9	156	35	15	19	30	1.92
3164549--3164659	59	1.9	58	94	1	195	35	16	17	31	1.92
3172678--3172731	26	2.2	25	90	6	83	29	0	14	55	1.40
3176824--3176920	31	3.1	31	88	2	131	30	22	19	26	1.98
3183391--3183421	10	3.0	10	95	4	53	48	0	9	41	1.36
3186599--3186645	12	4.0	12	80	5	51	46	17	0	36	1.48
3191554--3191883	166	2.0	164	98	1	633	30	25	12	31	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3195025--3195076	22	2.3	23	83	6	70	36	19	17	26	1.94
3195428--3195622	97	2.0	97	100	0	390	25	24	11	38	1.89
3197478--3197515	18	2.2	17	82	13	51	39	0	0	60	0.97
3204556--3204607	21	2.5	21	81	3	61	38	19	25	17	1.93
3204596--3204709	20	5.7	20	76	6	104	32	25	18	23	1.97
3204593--3204709	61	1.9	61	85	0	162	34	24	17	23	1.96
3204819--3204930	56	2.0	55	98	1	215	31	41	4	23	1.74
3204988--3205062	35	2.2	35	97	2	143	50	21	8	20	1.73
3205346--3205388	18	2.3	19	92	4	70	46	27	16	9	1.77
3205385--3205511	20	7.1	19	67	22	78	11	22	21	44	1.85
3205388--3205485	33	2.9	33	92	1	160	11	23	23	41	1.86
3207473--3207527	18	2.8	21	72	16	62	20	14	43	21	1.87
3207882--3207949	20	3.5	19	82	6	73	38	22	23	16	1.93
3207938--3207995	14	3.9	14	77	16	62	48	22	17	12	1.80
3207922--3207999	32	2.4	33	93	2	131	46	21	19	12	1.83
3207922--3208010	32	2.8	32	87	5	108	46	23	17	12	1.82
3208006--3208070	18	3.8	18	80	15	93	13	21	20	44	1.86
3208011--3208096	32	2.8	30	89	8	122	12	18	20	47	1.81
3208188--3208219	15	2.1	15	94	5	55	78	21	0	0	0.76
3209973--3210017	20	2.2	20	88	0	63	37	26	17	17	1.93
3210274--3210322	22	2.3	21	80	16	57	22	14	40	22	1.90
3210281--3210324	22	2.0	22	91	8	72	18	15	43	22	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3210454--3210548	20	4.7	20	79	7	93	23	18	25	32	1.97
3210475--3210569	41	2.3	41	81	3	111	20	21	23	35	1.96
3210619--3210659	21	2.0	21	85	0	55	34	29	17	19	1.94
3223486--3223527	20	2.0	21	90	4	68	40	9	7	42	1.65
3223681--3223776	38	2.5	38	87	0	138	25	28	20	26	1.99
3223699--3223763	21	3.3	20	68	24	57	23	27	24	24	2.00
3223925--3224029	46	2.3	46	95	1	185	32	18	6	42	1.76
3235340--3235381	20	2.0	21	90	4	68	42	9	4	42	1.58
3235537--3235601	17	3.6	17	71	15	58	24	30	24	20	1.98
3235554--3235617	21	3.2	21	69	24	66	20	28	26	25	1.99
3235535--3235630	38	2.5	38	91	0	156	22	28	22	26	1.99
3235779--3235883	46	2.3	46	93	1	176	33	18	5	42	1.73
3248557--3248591	16	2.2	16	100	0	70	42	0	11	45	1.40
3248836--3248893	21	2.6	23	70	10	57	20	18	3	56	1.56
3260747--3260793	18	2.7	17	80	3	58	34	8	27	29	1.87
3261350--3261444	39	2.5	39	87	5	140	41	40	9	9	1.70
3262600--3262640	16	2.4	18	80	19	61	26	29	4	39	1.77
3266573--3266630	19	2.9	21	69	23	52	31	18	20	29	1.97
3272080--3272152	28	2.5	28	75	16	69	60	4	4	31	1.34
3281504--3281553	22	2.3	22	75	0	55	20	10	14	56	1.66
3281568--3281613	21	2.2	21	88	0	65	45	2	13	39	1.55
3286179--3286220	15	2.7	15	88	3	57	57	11	21	9	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3290702--3290758	29	2.0	27	93	6	96	38	8	22	29	1.85
3292055--3292080	2	13.0	2	100	0	52	50	0	0	50	1.00
3292179--3292219	15	2.7	15	80	0	55	46	14	9	29	1.77
3292130--3292437	85	3.6	85	89	1	456	33	17	20	29	1.95
3292416--3292460	13	3.5	13	81	0	54	28	17	22	31	1.97
3299741--3299791	26	2.0	26	96	0	93	50	15	7	25	1.71
3300238--3300309	23	3.1	23	74	9	74	30	23	20	25	1.99
3303000--3303195	7	28.3	7	66	11	91	42	35	0	22	1.54
3303000--3303164	21	8.3	21	74	13	116	42	36	0	21	1.53
3303000--3303195	35	5.7	33	77	11	155	42	35	0	22	1.54
3303322--3303349	11	2.5	11	100	0	56	39	0	0	60	0.97
3323725--3323763	19	2.1	19	100	0	78	53	20	20	5	1.64
3329654--3329686	16	2.0	17	88	5	50	33	30	6	30	1.82
3344215--3344275	29	2.0	32	90	9	101	45	21	6	26	1.76
3345979--3346005	6	4.5	6	100	0	54	33	0	0	66	0.92
3348268--3348307	20	2.0	20	100	0	80	25	15	5	55	1.60
3349375--3349419	23	2.0	23	86	8	65	42	0	2	55	1.12
3349958--3350012	25	2.3	25	84	6	69	47	5	10	36	1.62
3350887--3350911	2	12.5	2	100	0	50	48	0	0	52	1.00
3352110--3352146	19	1.9	19	88	0	56	35	29	13	21	1.92
3352193--3352244	21	2.5	21	81	6	61	25	19	23	32	1.97
3352274--3352318	20	2.2	20	92	0	72	24	28	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3352880--3352930	19	2.7	19	96	0	93	15	25	25	33	1.95
3352880--3353004	20	6.7	19	76	14	80	16	20	23	40	1.90
3352952--3353007	20	2.8	20	91	0	85	12	16	21	50	1.78
3352971--3353014	20	2.2	20	91	0	70	11	13	20	54	1.69
3354824--3354885	31	2.0	31	87	9	90	22	8	17	51	1.71
3354998--3355157	20	8.6	19	66	19	88	37	23	20	18	1.94
3354998--3355157	74	2.2	74	94	0	284	37	23	20	18	1.94
3355017--3355152	34	3.8	34	75	11	137	36	23	21	19	1.95
3355208--3355265	20	2.9	20	89	0	62	17	12	22	48	1.80
3355742--3355853	42	2.7	42	82	0	125	20	38	17	23	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23