genome.fa.s8356.2.7.7.80.10.50.1000.29.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  29  of  56  ( 6656 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)
6103435--6103474	19	2.1	19	90	0	62	52	7	5	35	1.51
6121109--6121284	55	3.3	55	91	5	288	55	3	0	40	1.21
6121958--6121993	13	2.8	13	91	4	56	30	0	30	38	1.58
6122089--6122165	28	2.7	29	76	9	88	44	19	6	29	1.76
6122471--6122551	31	2.6	31	90	0	135	43	13	18	24	1.86
6122721--6122771	25	2.1	24	81	3	57	56	1	3	37	1.29
6122747--6122845	48	2.1	48	81	9	114	33	14	5	47	1.66
6123145--6123177	17	1.9	17	93	0	57	45	0	3	51	1.16
6135679--6135785	35	3.1	35	76	0	115	40	20	16	22	1.91
6136160--6136192	16	2.0	17	88	5	50	48	33	6	12	1.65
6140600--6140654	21	2.6	21	79	0	65	32	16	10	40	1.83
6143530--6143566	18	2.1	18	89	0	56	67	2	2	27	1.17
6143998--6144383	66	5.8	66	84	4	474	37	15	17	29	1.91
6143999--6144384	131	2.9	130	86	4	506	37	15	17	29	1.91
6144273--6144544	30	8.5	31	68	16	119	38	13	16	30	1.88
6144273--6144479	97	2.1	96	89	0	306	39	14	16	29	1.88
6144400--6144814	36	12.4	34	68	19	232	40	13	17	28	1.88
6144370--6144580	66	3.2	66	88	4	320	41	12	16	29	1.85
6144602--6144778	30	5.5	30	69	19	124	38	14	18	28	1.90
6144566--6144823	66	3.9	66	93	0	444	39	14	17	27	1.89
6144370--6144814	232	1.9	233	91	2	734	40	13	17	28	1.88
6144466--6144682	102	2.2	100	88	3	319	40	12	17	29	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6143999--6144823	132	6.3	132	76	11	613	39	14	17	29	1.89
6151791--6151827	18	2.1	18	89	0	56	64	2	2	29	1.21
6152248--6152884	66	9.5	65	78	10	461	39	13	16	30	1.87
6152361--6152479	36	3.5	36	66	18	92	39	12	17	30	1.87
6152261--6152884	130	4.7	130	80	8	678	39	13	16	30	1.87
6152593--6152703	30	3.6	30	74	13	116	39	14	17	28	1.89
6152254--6152884	196	3.1	198	80	8	652	39	13	16	30	1.87
6152653--6152754	51	2.0	51	92	0	168	44	11	14	29	1.81
6152708--6152846	30	4.5	30	79	7	161	42	12	15	30	1.83
6152593--6153012	145	2.8	145	84	7	501	41	12	16	29	1.85
6152576--6152818	115	2.1	112	79	10	251	41	13	15	28	1.85
6152851--6152896	21	2.2	21	92	0	74	43	8	17	30	1.79
6152862--6152905	21	2.1	21	91	0	70	47	9	13	29	1.74
6152889--6153054	30	5.5	30	66	22	105	41	13	18	27	1.87
6152872--6153012	66	2.1	66	94	0	246	41	12	17	27	1.86
6152798--6152971	87	2.0	87	91	0	285	41	10	17	29	1.83
6152872--6152977	36	3.1	36	65	20	100	43	13	16	27	1.84
6158596--6158778	64	2.9	65	80	6	214	30	26	17	25	1.97
6167177--6167300	64	1.9	64	87	6	180	29	26	17	25	1.98
6167272--6167320	19	2.6	19	84	9	57	24	30	18	26	1.98
6170394--6170428	18	1.9	18	94	0	61	65	2	2	28	1.21
6170693--6170728	17	2.1	17	89	0	54	11	36	16	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6170762--6170915	77	2.0	77	100	0	308	27	27	15	29	1.96
6176564--6176634	21	3.4	21	92	0	115	29	25	8	36	1.85
6179052--6179096	20	2.4	19	85	7	56	48	6	24	20	1.73
6180359--6180494	72	1.9	72	83	8	179	40	7	7	44	1.60
6181373--6181882	77	6.6	76	80	8	455	36	9	17	36	1.82
6181375--6181829	230	2.0	227	84	5	601	36	9	17	36	1.83
6181376--6181882	153	3.3	152	81	5	576	36	9	17	36	1.83
6182133--6182289	82	1.9	80	85	2	215	38	8	4	47	1.55
6187258--6187333	21	3.6	21	78	7	82	39	19	22	18	1.92
6189881--6189919	17	2.3	17	86	8	53	74	0	23	2	0.94
6189907--6189949	15	2.9	15	86	3	61	69	0	16	13	1.19
6191188--6191596	128	3.2	127	87	3	565	34	16	26	22	1.95
6191188--6191658	128	3.7	126	82	6	373	35	16	25	22	1.94
6192370--6192955	108	5.4	108	95	0	1064	29	14	28	27	1.95
6196751--6196801	25	2.0	25	100	0	102	15	3	27	52	1.60
6197581--6197756	90	2.0	90	91	2	291	36	11	6	44	1.68
6200898--6200935	20	1.9	20	84	10	51	34	15	13	36	1.87
6202433--6202480	14	3.6	13	81	10	53	56	6	2	35	1.36
6204425--6204449	9	2.8	9	100	0	50	52	0	0	48	1.00
6204824--6204925	43	2.3	44	86	5	136	30	21	19	28	1.98
6207845--6207946	44	2.3	44	87	0	150	34	15	22	27	1.95
6208450--6208536	10	8.9	9	73	21	61	8	13	0	78	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6208511--6208557	22	2.2	22	84	3	60	14	4	0	80	0.85
6208491--6208557	30	2.2	31	81	7	75	13	7	0	79	0.94
6208596--6208881	83	3.5	82	80	4	279	35	20	17	26	1.95
6208760--6208877	41	2.8	43	72	18	115	34	18	16	29	1.94
6208926--6209069	76	1.9	76	88	0	216	43	15	9	32	1.78
6211980--6212147	79	2.1	79	85	0	228	41	11	22	25	1.87
6212111--6212414	45	6.8	45	83	4	364	43	9	17	29	1.81
6214905--6214963	2	29.5	2	100	0	118	50	0	0	49	1.00
6217217--6217241	13	1.9	13	100	0	50	32	8	32	28	1.86
6217278--6217338	22	2.9	21	80	7	79	31	11	29	27	1.92
6217738--6217905	79	2.1	79	87	0	237	38	10	23	27	1.87
6217869--6218168	45	6.7	45	84	2	379	40	10	19	30	1.84
6218813--6218856	2	22.0	2	100	0	88	50	0	0	50	1.00
6227014--6227043	2	15.0	2	100	0	60	50	0	0	50	1.00
6227351--6227403	22	2.4	22	96	0	97	56	11	3	28	1.51
6231964--6232007	24	1.9	24	90	9	74	52	9	0	38	1.33
6232281--6232918	55	11.6	55	89	2	935	32	18	11	36	1.87
6239009--6239052	22	1.9	24	86	9	65	52	6	4	36	1.49
6239444--6239959	55	9.4	55	87	3	711	32	18	11	37	1.86
6240301--6240371	19	3.5	19	76	12	70	29	25	14	30	1.94
6240398--6240442	19	2.3	20	88	3	65	20	33	13	33	1.91
6253127--6253226	27	3.7	27	80	7	114	53	7	20	20	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6253119--6253225	54	2.0	54	87	3	153	52	5	22	19	1.67
6253128--6253238	27	4.1	27	79	6	82	53	7	19	19	1.68
6257901--6257930	15	1.9	16	93	6	53	6	6	26	60	1.47
6260085--6260228	64	2.2	64	84	6	175	25	18	23	33	1.97
6260191--6260228	20	1.9	20	94	0	67	18	15	34	31	1.92
6260576--6260606	16	2.0	16	93	6	55	25	45	0	29	1.54
6262867--6262992	24	5.6	24	72	16	101	29	20	24	25	1.99
6262910--6263010	44	2.3	44	98	0	193	30	16	25	26	1.97
6262941--6263010	20	3.3	20	75	21	79	31	17	25	25	1.97
6268772--6268896	65	1.9	65	85	7	175	28	20	19	32	1.97
6269597--6269896	55	5.5	55	88	3	433	37	17	15	30	1.91
6271001--6271058	29	2.0	29	96	0	107	20	12	34	32	1.90
6273000--6273035	15	2.4	15	100	0	72	27	44	16	11	1.82
6275610--6275773	41	3.9	42	83	10	194	39	7	23	28	1.83
6282525--6282711	41	4.4	43	79	10	190	41	6	21	30	1.78
6283972--6284088	52	2.3	50	95	4	209	41	9	15	33	1.79
6288152--6288436	43	6.7	43	78	4	238	33	19	20	27	1.96
6288561--6288607	23	2.1	22	84	4	58	59	4	0	36	1.17
6290294--6290388	42	2.3	40	82	12	111	30	22	21	26	1.98
6290334--6290674	83	4.2	82	80	6	383	31	18	19	30	1.96
6290322--6290464	42	3.4	42	77	9	157	29	18	20	31	1.96
6292008--6292036	2	14.5	2	100	0	58	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6292097--6292173	36	2.1	36	85	4	102	18	35	9	37	1.82
6294841--6294871	16	1.9	16	93	0	53	41	0	3	54	1.16
6300197--6300238	2	21.0	2	100	0	84	50	0	0	50	1.00
6300054--6300364	171	1.8	173	96	1	581	43	8	5	42	1.58
6302214--6302521	45	7.0	44	90	2	406	34	18	7	39	1.78
6302214--6302520	86	3.5	87	85	6	395	34	18	7	39	1.79
6302655--6302817	60	2.7	60	84	8	185	27	24	12	35	1.91
6302675--6302817	60	2.4	60	87	4	200	27	25	13	33	1.93
6302838--6303175	59	5.6	59	74	10	227	28	23	11	37	1.89
6302763--6303062	118	2.5	118	81	6	324	28	22	11	37	1.89

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   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56