genome.fa.s260.2.7.7.80.10.50.1000.16.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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  16  of  26  ( 3102 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)
3123217--3123326	43	2.5	44	80	1	132	26	25	10	37	1.89
3126702--3126734	12	2.6	13	85	9	50	63	15	12	9	1.51
3128667--3128709	17	2.6	16	79	13	52	62	2	0	34	1.08
3134424--3134588	66	2.5	65	79	11	176	32	5	18	43	1.73
3135375--3135438	2	32.0	2	100	0	128	50	0	0	50	1.00
3138120--3138155	12	2.8	13	87	4	56	22	16	27	33	1.95
3145835--3145880	20	2.3	19	85	14	58	26	15	8	50	1.73
3147866--3148028	65	2.5	66	83	3	206	27	15	26	29	1.96
3147976--3148014	19	2.1	19	90	0	60	25	15	41	17	1.89
3156222--3156384	65	2.5	66	83	4	208	28	15	25	30	1.96
3156333--3156382	19	2.7	18	77	22	59	28	16	32	24	1.96
3157182--3157219	20	2.0	19	85	10	51	31	23	13	31	1.93
3158621--3158659	20	2.0	20	85	10	53	51	15	12	20	1.76
3162544--3162612	30	2.3	30	97	0	129	42	2	26	28	1.70
3168669--3168721	21	2.5	21	90	0	79	41	16	9	32	1.81
3170324--3170424	51	2.0	50	88	1	148	24	10	16	47	1.79
3172268--3172361	21	4.4	21	76	6	91	39	14	13	31	1.86
3175076--3175107	14	2.1	16	88	11	50	6	18	0	75	1.01
3175081--3175134	13	4.1	14	72	15	53	11	14	0	74	1.08
3175140--3178307	258	12.2	258	83	5	3720	35	17	15	31	1.91
3175739--3175838	42	2.4	41	80	8	121	33	21	21	25	1.97
3176771--3176868	42	2.4	41	81	5	126	34	23	20	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3177026--3177126	42	2.4	42	78	1	105	33	21	22	21	1.97
3177798--3177927	41	3.1	41	91	1	188	34	20	20	25	1.96
3186600--3186643	23	2.0	23	82	13	56	50	9	2	38	1.47
3200956--3200996	6	6.5	6	86	8	55	56	14	14	14	1.69
3205068--3205118	3	17.0	3	80	8	59	58	3	1	35	1.28
3206110--3206246	60	2.3	60	79	9	138	29	13	19	36	1.91
3209491--3210500	138	7.3	138	85	2	1193	29	13	13	43	1.83
3215274--3215320	19	2.3	20	78	7	51	61	4	2	31	1.27
3216620--3216711	3	30.7	3	100	0	184	33	0	0	66	0.92
3216721--3216783	11	5.6	11	73	1	54	44	44	3	7	1.49
3216792--3216843	24	2.2	24	82	0	59	42	40	17	0	1.49
3230151--3230179	7	4.1	7	100	0	58	72	0	27	0	0.85
3231231--3231671	135	3.3	134	84	3	591	35	15	19	29	1.93
3231558--3231766	95	2.2	95	83	5	253	33	19	18	29	1.95
3231949--3232007	29	2.0	29	100	0	118	47	45	0	6	1.29
3240587--3241082	55	9.2	55	79	8	398	32	14	24	28	1.95
3240596--3240998	161	2.5	160	84	6	460	32	15	24	28	1.95
3240716--3241024	51	5.9	51	83	6	341	31	13	25	28	1.94
3240596--3241059	158	2.9	159	81	7	460	32	14	24	28	1.95
3241249--3241304	3	18.3	3	82	10	69	33	0	1	64	1.04
3242667--3242712	22	2.1	22	95	0	83	28	17	6	47	1.72
3242771--3242800	12	2.5	12	100	0	60	50	6	0	43	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3243757--3243845	32	2.8	32	86	5	110	28	20	17	33	1.95
3245860--3245926	20	3.3	20	97	0	125	29	38	25	5	1.80
3256368--3256466	47	2.1	47	81	3	110	31	14	22	32	1.93
3263213--3263292	20	3.9	19	73	13	70	22	21	25	31	1.98
3263215--3263312	42	2.3	42	89	5	153	23	20	23	32	1.98
3263271--3263681	80	5.1	80	90	0	660	32	18	19	29	1.95
3263271--3263681	160	2.6	160	95	0	732	32	18	19	29	1.95
3264147--3264353	53	3.9	53	89	2	317	30	19	27	22	1.98
3271319--3271359	3	13.7	3	100	0	82	34	0	0	65	0.93
3273433--3273923	241	2.1	236	86	4	673	31	17	17	32	1.94
3274087--3274166	41	1.9	41	87	2	115	23	20	22	33	1.97
3274249--3274286	20	1.9	19	89	5	58	81	0	18	0	0.69
3274250--3274312	31	2.0	31	81	6	72	76	0	17	6	0.99
3277379--3277415	19	1.9	19	89	10	58	37	48	10	2	1.52
3277902--3277974	34	2.1	35	92	7	123	57	0	0	42	0.98
3287118--3287203	27	3.2	26	82	8	95	48	26	6	17	1.72
3288602--3288648	14	3.4	14	84	0	58	21	34	34	10	1.88
3288697--3288773	29	2.7	29	95	0	136	20	27	36	15	1.93
3289899--3289940	20	2.0	20	86	9	57	28	4	42	23	1.74
3299389--3299427	20	2.0	20	89	0	60	33	23	10	33	1.88
3300171--3300217	19	2.5	19	80	10	53	38	4	4	53	1.40
3300517--3300560	18	2.5	18	85	10	56	61	2	0	36	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3305586--3305618	17	1.9	17	100	0	66	21	12	12	54	1.69
3307842--3307870	2	14.5	2	100	0	58	51	0	0	48	1.00
3309030--3309416	137	2.8	137	80	9	398	32	17	21	28	1.96
3309075--3309416	89	3.8	89	88	5	515	32	17	22	27	1.96
3309144--3309420	48	5.9	48	83	5	370	31	17	22	28	1.96
3309075--3309420	185	1.9	184	92	0	584	32	17	22	27	1.96
3310607--3310659	21	2.5	22	84	12	74	5	16	0	77	0.96
3310607--3310654	10	4.5	11	80	15	57	4	18	0	77	0.93
3310599--3310682	29	3.1	27	80	15	88	8	13	1	77	1.05
3310599--3310683	30	2.9	29	80	16	79	8	12	1	77	1.04
3322721--3322745	2	12.5	2	100	0	50	52	0	0	48	1.00
3324505--3324561	24	2.4	25	76	8	64	57	5	1	35	1.31
3326621--3326662	20	2.1	20	100	0	84	28	14	23	33	1.94
3326640--3326760	39	3.1	39	91	0	197	23	23	19	33	1.97
3329462--3329496	2	17.5	2	100	0	70	51	0	0	48	1.00
3330597--3330637	20	2.0	20	100	0	82	65	4	9	19	1.40
3334210--3334249	21	1.9	21	94	0	71	17	22	17	42	1.89
3335274--3335311	12	3.4	11	86	13	51	71	2	2	23	1.12
3337395--3337434	19	2.1	19	90	0	62	52	7	5	35	1.51
3337536--3337569	12	2.7	13	86	9	52	41	5	8	44	1.60
3339272--3339307	12	2.9	12	87	4	54	47	8	11	33	1.69
3339788--3339845	23	2.7	20	75	17	62	37	15	17	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3339854--3339880	14	1.9	14	100	0	54	37	14	22	25	1.93
3343054--3343096	20	2.2	20	86	0	59	30	13	20	34	1.92
3347404--3347460	21	2.7	21	100	0	114	26	19	24	29	1.98
3347793--3347832	19	2.1	19	85	0	53	55	7	2	35	1.42
3349495--3349587	2	46.5	2	100	0	186	50	49	0	0	1.00
3350514--3350541	2	14.0	2	100	0	56	50	0	0	50	1.00
3351324--3351353	15	2.1	14	93	6	51	46	13	6	33	1.69
3355287--3355679	58	6.4	65	79	11	373	33	5	19	41	1.75
3355309--3355667	123	3.0	123	86	2	462	34	6	18	40	1.75
3357270--3357316	21	2.2	22	85	11	62	29	0	21	48	1.50
3357587--3357614	2	14.0	2	100	0	56	50	0	0	50	1.00
3359772--3359808	19	1.9	19	94	0	65	40	0	13	45	1.43
3362058--3362096	20	2.0	20	85	10	53	20	12	15	51	1.76
3366056--3366775	55	13.0	55	82	5	758	34	8	15	41	1.77
3366791--3366917	42	3.1	42	77	5	127	25	22	19	33	1.97
3367254--3367307	20	2.7	20	94	0	90	24	24	22	29	1.99
3367274--3367348	20	3.7	20	69	22	57	25	20	20	34	1.96
3367069--3367548	261	1.8	262	86	2	707	30	15	17	36	1.91
3369376--3369404	3	9.7	3	100	0	58	31	0	0	68	0.89
3369786--3369838	14	3.9	14	90	5	90	9	24	0	66	1.21
3369786--3369838	27	1.9	28	96	3	99	9	24	0	66	1.21
3369902--3369926	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3373645--3373714	10	6.9	10	78	13	63	72	0	25	1	0.92
3373643--3373724	23	3.7	23	84	9	109	74	0	24	1	0.89
3373642--3373718	14	5.1	14	75	12	64	75	0	23	1	0.88
3373622--3373718	15	6.1	15	73	14	63	75	1	21	2	0.97
3374463--3374561	28	3.5	28	90	0	144	37	33	4	25	1.75
3376144--3376174	12	2.6	12	100	0	62	80	6	12	0	0.89
3376155--3376194	20	2.0	20	90	0	62	77	12	10	0	0.99
3376145--3376202	12	5.4	11	78	17	59	75	12	12	0	1.04
3381550--3382271	55	13.2	55	82	4	669	32	8	16	42	1.78
3381516--3382368	55	15.5	55	80	5	622	32	8	16	42	1.78

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