genome.fa.s8685.2.7.7.80.10.50.1000.17.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: VEPZ01008685.1 Hibiscus syriacus cultivar Beakdansim tig00111708_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3669133

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

This is table  17  of  19  ( 2244 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)
3180895--3180959	19	3.4	19	67	25	55	46	10	27	15	1.79
3180783--3181041	116	2.2	116	88	2	378	40	16	22	20	1.92
3181423--3181473	3	18.0	3	80	11	63	29	0	3	66	1.09
3181431--3181469	20	2.0	20	89	0	60	28	0	5	66	1.12
3182823--3182944	30	4.2	30	85	7	153	26	17	13	43	1.85
3190460--3190494	14	2.5	14	86	13	54	34	14	8	42	1.76
3190615--3190654	20	2.0	20	85	0	53	47	0	0	52	1.00
3190625--3190664	20	2.0	20	85	9	55	42	0	0	57	0.98
3190639--3190719	29	2.8	28	83	10	92	45	0	3	50	1.19
3190827--3190870	22	2.0	23	81	4	54	50	2	0	47	1.13
3190977--3191023	22	2.1	23	88	4	69	53	0	0	46	1.00
3190984--3191036	22	2.5	21	79	11	54	54	0	0	45	0.99
3190945--3191094	53	2.9	52	74	16	132	48	0	2	49	1.17
3191050--3191101	25	2.1	25	82	7	61	50	1	3	44	1.31
3191498--3191570	33	2.2	33	92	0	119	38	10	19	31	1.86
3193486--3193529	15	2.9	15	100	0	88	6	34	13	45	1.70
3193486--3193542	30	1.9	30	88	0	87	8	33	14	43	1.76
3197001--3197047	2	23.5	2	100	0	94	51	0	48	0	1.00
3198736--3198764	12	2.4	12	100	0	58	41	0	0	58	0.98
3200797--3200859	31	1.9	33	90	9	103	23	9	15	50	1.73
3200883--3200937	26	2.1	27	86	3	76	21	3	20	54	1.59
3202123--3202164	19	2.1	20	91	8	68	26	19	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3202946--3203332	165	2.3	162	83	9	498	28	17	21	33	1.96
3202946--3203332	83	4.7	82	85	4	478	28	17	21	33	1.96
3203773--3204123	176	2.0	176	96	0	639	28	20	15	34	1.94
3208967--3209021	21	2.6	21	88	0	83	18	20	29	32	1.96
3208967--3209166	42	5.0	40	76	15	164	22	20	25	33	1.97
3208966--3209075	54	2.0	54	92	0	184	20	20	28	30	1.97
3209021--3209138	21	5.6	21	76	11	116	22	19	25	33	1.97
3209088--3209159	21	3.4	21	74	14	76	22	18	20	38	1.93
3209103--3209167	21	3.2	19	76	16	76	26	21	20	32	1.97
3209256--3209286	6	5.2	6	100	0	62	35	48	16	0	1.46
3210045--3210471	21	20.4	21	75	13	364	33	23	19	22	1.97
3212147--3212189	20	2.2	20	95	0	77	37	9	4	48	1.56
3213179--3213213	18	1.9	18	100	0	70	28	11	11	48	1.74
3214583--3215209	177	3.6	176	79	9	631	41	13	17	28	1.87
3217292--3217475	95	2.0	89	93	6	314	33	8	34	23	1.85
3217809--3217844	18	2.0	18	88	0	54	63	2	27	5	1.30
3218142--3218177	17	2.1	17	100	0	72	50	8	11	30	1.67
3220593--3220662	29	2.4	29	87	0	95	47	20	5	27	1.72
3220651--3220775	57	2.2	55	88	4	187	48	15	8	28	1.72
3220666--3220766	29	3.6	28	88	10	152	47	15	7	28	1.74
3220780--3220859	24	3.4	24	84	6	110	16	25	43	15	1.86
3220794--3220868	23	3.2	23	84	5	98	12	24	48	16	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3220828--3220879	23	2.3	23	89	0	77	13	23	46	17	1.83
3227953--3227997	21	2.1	21	87	0	63	31	28	24	15	1.96
3228838--3228993	31	5.0	31	91	1	242	21	19	21	37	1.94
3232139--3232183	21	2.1	21	87	0	63	31	28	24	15	1.96
3233024--3233179	31	5.0	31	91	1	242	21	19	21	37	1.94
3234420--3234453	10	3.2	10	91	8	50	29	17	29	23	1.97
3234528--3234640	29	3.8	29	88	2	154	46	22	9	21	1.80
3234641--3234723	18	5.0	17	80	12	93	13	22	46	16	1.82
3234641--3234704	30	2.1	30	91	0	101	14	23	45	17	1.84
3234655--3234722	13	5.5	13	74	25	60	11	23	47	17	1.81
3235481--3235529	19	2.6	19	90	3	73	30	2	10	57	1.43
3235861--3236819	198	4.9	196	91	2	1535	36	16	15	31	1.90
3235861--3237002	396	2.9	389	85	5	1482	37	15	15	31	1.89
3235861--3237002	594	1.9	586	85	4	1582	37	15	15	31	1.89
3237294--3237345	15	3.5	15	91	0	77	17	46	1	34	1.59
3238480--3238553	6	12.3	6	86	0	85	39	2	29	28	1.71
3238480--3238553	9	8.2	9	80	0	85	39	2	29	28	1.71
3238479--3238553	15	5.0	15	81	4	80	40	2	29	28	1.70
3239701--3239803	36	2.9	36	98	0	197	37	18	19	24	1.94
3240403--3240448	21	2.1	21	84	4	56	30	15	10	43	1.81
3240603--3240648	21	2.1	21	84	4	56	30	15	10	43	1.81
3240800--3240845	21	2.1	21	84	4	56	30	15	10	43	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3239906--3241044	397	2.8	396	86	4	1565	39	16	13	30	1.87
3239906--3241043	200	5.7	198	87	5	1459	39	16	13	30	1.87
3241013--3241069	21	2.7	21	97	0	105	29	14	12	43	1.81
3244484--3244512	14	2.0	15	93	6	51	44	13	13	27	1.82
3244209--3244730	198	2.6	197	81	5	592	38	14	16	31	1.88
3248776--3248821	25	1.9	23	86	8	65	47	0	2	50	1.13
3250461--3250498	3	12.7	3	83	10	51	60	0	0	39	0.97
3250461--3250500	21	1.9	21	94	0	71	60	0	0	40	0.97
3250706--3251351	46	14.0	46	90	3	978	33	19	21	25	1.97
3250706--3251351	139	4.7	138	90	3	1005	33	19	21	25	1.97
3253348--3253512	75	2.2	75	83	6	226	31	21	17	29	1.96
3259862--3259904	16	2.8	16	78	3	52	34	18	9	37	1.83
3260838--3260882	12	3.8	12	82	2	56	48	2	0	48	1.13
3279196--3279291	21	4.7	21	70	3	70	35	21	18	23	1.96
3279938--3279977	18	2.1	20	86	9	57	32	5	17	45	1.70
3290785--3290884	3	32.7	3	83	7	121	37	2	0	61	1.08
3294541--3294594	14	3.8	14	82	4	63	24	14	9	51	1.71
3297853--3297907	11	5.3	10	82	10	58	87	0	12	0	0.55
3297865--3297915	11	4.5	11	95	5	84	88	0	11	0	0.52
3297864--3297908	1	45.0	1	81	0	54	91	0	8	0	0.43
3300044--3300517	83	5.7	83	92	2	722	27	12	22	37	1.90
3300044--3300514	164	2.8	166	90	3	718	28	12	21	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3300044--3300514	247	1.9	249	92	1	795	28	12	21	37	1.90
3301631--3301793	74	2.2	74	82	5	186	33	17	20	28	1.95
3303082--3303136	22	2.5	22	96	0	101	34	14	14	36	1.87
3303611--3304511	113	8.0	113	91	1	1376	37	14	19	29	1.91
3304302--3304696	186	2.1	185	90	1	603	37	14	18	29	1.91
3304423--3304586	73	2.2	73	85	0	220	33	14	16	35	1.89
3303611--3304511	451	2.0	451	91	0	1189	37	14	19	29	1.91
3304488--3304809	112	2.9	112	89	2	484	38	13	18	29	1.89
3304188--3304939	298	2.5	298	94	2	1301	36	14	18	30	1.90
3304718--3304884	73	2.3	73	88	2	246	33	14	17	34	1.90
3305333--3305429	3	31.7	3	82	8	106	38	2	0	59	1.09
3310053--3310103	27	2.0	25	81	14	59	41	3	0	54	1.19
3312118--3312147	14	2.2	13	94	5	51	66	0	0	33	0.92
3314315--3314356	22	1.9	22	85	0	57	9	38	11	40	1.75
3315454--3315527	3	25.0	3	83	8	80	33	1	1	63	1.11
3315488--3315541	23	2.4	22	78	9	63	46	3	0	50	1.19
3316919--3316971	21	2.5	21	78	0	61	22	22	16	37	1.94
3316961--3317088	20	6.3	20	88	3	150	38	18	21	21	1.94
3316961--3317035	21	3.6	21	92	1	116	37	17	22	22	1.94
3317099--3317148	20	2.5	20	90	0	82	34	24	16	26	1.95
3319498--3319565	20	3.4	20	89	4	93	39	25	17	17	1.91
3319538--3319633	33	2.9	34	88	3	131	42	20	22	13	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3319650--3319743	33	2.8	33	86	3	116	14	22	18	44	1.86
3319849--3319885	14	2.6	14	86	0	56	48	24	0	27	1.51
3321857--3321929	20	3.7	20	96	0	119	41	23	20	15	1.90
3321857--3321941	20	4.3	19	86	5	80	38	23	18	18	1.93
3321857--3321941	40	2.1	40	86	0	116	38	23	18	18	1.93
3321990--3322126	20	7.5	20	73	21	104	15	18	22	43	1.88
3321962--3322123	87	1.9	87	92	0	270	14	19	21	44	1.86
3322010--3322103	33	2.8	34	80	3	100	12	19	23	44	1.85
3323997--3324086	20	4.6	20	85	1	101	45	23	16	14	1.84
3324423--3324488	22	3.0	22	86	0	96	21	13	40	24	1.89

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