genome.fa.s8488.2.7.7.80.10.50.1000.44.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  44  of  54  ( 6450 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)
10556095--10556214	11	10.6	11	68	22	54	16	6	3	73	1.18
10556087--10556191	23	4.5	23	70	15	56	18	5	3	72	1.20
10555993--10556416	202	2.1	197	94	4	737	19	8	6	65	1.42
10556297--10556462	5	31.0	5	71	21	81	18	5	3	73	1.15
10556359--10556467	9	11.4	9	70	23	64	21	4	1	72	1.12
10556370--10556431	33	1.9	32	83	9	81	22	3	1	72	1.08
10556347--10556426	27	2.9	27	74	9	72	21	5	1	72	1.11
10557010--10557042	16	2.1	16	100	0	66	33	6	0	60	1.21
10562008--10562077	34	2.1	32	86	5	95	22	30	15	31	1.95
10562360--10562401	21	2.0	21	100	0	84	28	28	19	23	1.98
10562512--10562584	20	3.8	20	65	26	59	20	27	30	21	1.98
10565453--10565533	20	3.8	20	78	12	81	20	22	30	25	1.98
10569286--10569327	21	2.0	21	100	0	84	23	19	28	28	1.98
10569356--10569395	20	1.9	21	85	10	55	37	37	10	15	1.80
10577003--10577036	12	2.8	12	100	0	68	26	26	23	23	2.00
10577500--10577540	6	6.8	6	79	20	50	82	0	14	2	0.76
10578424--10578664	65	3.8	65	85	4	323	37	20	13	28	1.91
10580566--10580642	17	4.4	17	75	16	59	22	2	2	72	1.09
10580770--10580828	2	29.5	2	100	0	118	49	0	0	50	1.00
10580828--10580921	11	8.5	11	76	16	72	12	3	4	79	0.99
10580855--10580926	13	5.9	13	74	21	50	11	1	5	81	0.90
10580834--10580921	46	2.0	46	84	10	121	12	2	4	80	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10580834--10580924	43	2.1	43	84	8	114	13	2	4	80	0.96
10580834--10580927	23	4.0	22	73	14	73	12	2	4	80	0.94
10580828--10580921	6	15.0	6	77	12	66	12	3	4	79	0.99
10580915--10580969	26	2.3	22	84	12	65	21	7	1	69	1.23
10581516--10581546	12	2.6	12	94	0	53	32	0	0	67	0.91
10585206--10585273	28	2.4	30	76	20	74	23	8	10	57	1.60
10588190--10588233	22	2.0	22	81	0	52	27	20	9	43	1.82
10589584--10589690	20	5.6	18	74	14	81	79	4	11	4	1.03
10589584--10589690	9	11.1	9	71	15	72	79	4	11	4	1.03
10589600--10589693	31	3.0	30	80	13	91	78	3	12	5	1.03
10590336--10590391	28	2.0	29	86	10	80	37	28	5	28	1.79
10591679--10592263	54	10.8	55	83	4	641	31	10	16	41	1.82
10591679--10592154	163	2.9	162	86	2	652	31	10	16	41	1.82
10591679--10592263	109	5.4	109	86	2	651	31	10	16	41	1.82
10592146--10592316	54	3.2	54	82	4	168	26	9	18	45	1.80
10591686--10592263	163	3.5	162	83	4	632	31	10	16	41	1.82
10593062--10593832	136	5.6	136	78	7	699	34	16	22	26	1.95
10593063--10593832	275	2.8	272	87	4	1034	34	16	22	26	1.95
10593743--10594132	116	3.4	114	79	8	412	38	14	20	26	1.91
10597671--10597737	31	2.2	31	94	0	116	35	13	2	47	1.58
10597981--10598087	46	2.3	48	76	13	118	44	1	2	50	1.27
10598019--10598078	23	2.6	23	86	0	84	45	1	3	50	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10599615--10599639	2	12.5	2	100	0	50	48	0	0	52	1.00
10601249--10601329	3	27.7	3	90	5	130	34	2	0	62	1.08
10606619--10606663	3	15.3	3	86	4	65	31	0	0	68	0.89
10612037--10612275	110	2.2	110	89	3	369	34	24	17	23	1.95
10612231--10612910	252	2.7	252	88	3	980	31	25	19	23	1.98
10612945--10613086	37	3.9	37	93	1	250	24	23	14	38	1.92
10612943--10613086	73	2.0	73	97	0	270	24	22	13	38	1.91
10615283--10615323	14	2.7	16	77	14	50	60	0	2	36	1.10
10615733--10615810	31	2.5	31	87	0	102	26	28	11	33	1.91
10625423--10625468	22	2.1	22	91	0	74	28	32	17	21	1.96
10625451--10625590	53	2.6	53	82	7	158	30	23	18	27	1.98
10625559--10625612	21	2.6	22	82	8	69	27	29	14	27	1.95
10630223--10630275	22	2.4	22	83	0	70	49	15	13	22	1.79
10630275--10630337	21	3.0	20	90	9	99	23	25	23	26	2.00
10639362--10639410	23	2.2	23	88	3	73	34	24	14	26	1.94
10639404--10639452	21	2.3	21	96	0	89	34	32	10	22	1.88
10639981--10640026	22	2.1	22	95	0	83	30	26	15	28	1.96
10644311--10644367	2	28.5	2	100	0	114	50	0	0	49	1.00
10645583--10645609	13	2.1	13	100	0	54	22	25	14	37	1.93
10646153--10646177	9	2.8	9	100	0	50	80	0	0	20	0.72
10646151--10646187	16	2.3	17	86	9	51	75	0	2	21	0.92
10647753--10649099	84	16.0	84	87	0	1784	24	18	22	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10649782--10649842	23	2.7	23	80	10	79	27	27	24	19	1.99
10649953--10649988	18	2.0	18	100	0	72	33	33	22	11	1.89
10649849--10650226	121	3.2	120	91	4	631	35	25	14	23	1.93
10650068--10650103	18	2.0	18	100	0	72	33	33	22	11	1.89
10650189--10650224	18	2.0	18	100	0	72	33	33	22	11	1.89
10651402--10651445	21	2.1	21	86	0	61	15	27	27	29	1.96
10655196--10655256	23	2.7	23	89	0	95	26	27	26	19	1.99
10655370--10655406	18	2.1	18	95	5	67	35	35	16	13	1.88
10655375--10655559	59	3.1	59	65	23	159	37	25	14	22	1.92
10655263--10655646	121	3.2	121	96	0	687	36	25	14	24	1.93
10655488--10655523	18	2.0	18	100	0	72	33	33	22	11	1.89
10655609--10655644	18	2.0	18	94	0	63	33	30	22	13	1.93
10656822--10656865	21	2.1	21	86	0	61	15	27	27	29	1.96
10657576--10658105	84	6.3	84	89	1	758	23	18	23	34	1.96
10662523--10662560	20	1.9	20	84	10	51	55	2	13	28	1.51
10670208--10670246	21	1.9	21	85	15	55	46	2	2	48	1.29
10672996--10673091	15	6.7	15	73	17	89	75	6	17	1	1.07
10673001--10673097	32	2.8	34	81	10	108	75	6	17	1	1.07
10673008--10673090	12	7.1	12	75	19	70	77	6	15	1	1.03
10673001--10673088	27	3.0	27	73	21	72	77	5	15	1	1.02
10673016--10673109	26	3.6	25	79	12	84	75	7	15	1	1.08
10674353--10674816	136	3.4	135	85	4	596	28	17	14	39	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10674353--10674816	67	6.8	66	83	5	511	28	17	14	39	1.88
10674825--10675209	131	2.9	131	80	4	425	27	30	16	25	1.97
10676239--10676265	2	13.5	2	100	0	54	0	48	0	51	1.00
10679812--10679856	23	1.9	23	86	4	63	48	8	0	42	1.34
10681256--10681329	38	1.9	38	88	0	112	43	21	13	21	1.87
10681532--10681815	139	2.1	139	90	2	446	33	13	5	47	1.66
10681907--10681965	31	1.9	31	89	6	93	23	18	16	40	1.91
10682484--10682532	2	26.0	2	80	19	61	51	0	2	46	1.12
10682523--10682600	39	2.0	39	92	0	129	35	8	19	35	1.83
10683051--10683826	105	7.4	105	94	0	1266	23	18	24	32	1.97
10694604--10694667	2	33.0	2	87	12	98	51	0	1	46	1.10
10694658--10694736	39	2.0	39	92	0	131	36	10	17	35	1.84
10695409--10695461	3	17.7	3	88	0	79	0	67	0	32	0.91
10695837--10695899	31	2.0	31	87	0	90	41	12	22	23	1.88
10697334--10697366	14	2.3	15	89	5	50	54	0	0	45	0.99
10699897--10699977	30	2.7	30	88	3	110	25	12	8	53	1.67
10703600--10703649	20	2.5	20	90	0	82	44	12	20	24	1.85
10703660--10703811	20	7.6	20	83	5	155	30	25	19	25	1.98
10703654--10703831	40	4.4	41	80	5	132	32	23	19	24	1.97
10703699--10703811	40	2.8	40	87	0	172	26	26	20	26	1.99
10704357--10704405	20	2.5	20	96	0	89	36	26	22	14	1.92
10704431--10704482	14	3.2	16	73	24	54	11	25	19	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10706050--10706140	42	2.1	42	85	4	119	19	14	43	21	1.87
10706080--10706140	21	2.9	21	73	9	70	21	13	42	22	1.87
10706481--10706519	20	2.0	20	94	0	69	33	28	12	25	1.93
10706507--10706579	20	3.7	20	88	0	101	35	24	24	15	1.94
10706582--10706621	14	2.9	14	92	0	62	50	22	15	12	1.77
10707184--10707231	18	2.7	18	93	0	87	14	12	45	27	1.81
10708512--10708570	20	3.0	20	87	0	73	44	22	18	15	1.87
10709064--10709177	20	5.7	20	84	6	131	22	18	27	31	1.97
10709044--10709178	20	6.7	19	80	9	117	22	17	25	33	1.96
10709044--10709179	41	3.3	41	82	6	168	22	17	25	33	1.96

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