genome.fa.s9462.2.7.7.80.10.50.1000.54.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  54  of  91  ( 10815 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)
12200914--12200948	2	17.5	2	100	0	70	51	0	0	48	1.00
12200944--12201018	17	4.1	18	71	21	57	62	2	6	28	1.34
12200905--12201019	22	5.5	19	71	14	61	60	1	4	33	1.27
12200965--12201019	18	2.8	19	81	8	58	63	3	3	29	1.28
12201153--12201181	2	14.5	2	100	0	58	51	0	0	48	1.00
12201226--12201330	22	4.8	22	71	15	83	62	1	5	29	1.29
12202055--12202142	21	4.2	21	82	5	106	36	10	25	28	1.88
12204653--12204717	30	2.2	30	88	0	94	41	7	13	36	1.74
12208374--12208431	25	2.3	25	93	0	98	32	12	24	31	1.91
12208571--12208626	15	3.7	15	83	6	60	78	0	16	5	0.92
12208579--12208629	18	2.7	19	80	17	61	78	0	15	5	0.93
12210190--12210251	28	2.2	28	94	0	106	41	8	14	35	1.75
12210231--12210303	30	2.4	30	81	4	85	41	8	19	31	1.81
12212447--12212617	46	3.8	46	92	2	267	37	7	22	32	1.81
12214268--12214371	45	2.3	46	88	5	149	29	20	21	28	1.98
12216916--12217129	111	2.0	110	83	4	272	29	12	25	32	1.92
12221501--12221533	13	2.5	13	95	0	57	21	18	21	39	1.93
12221698--12221781	2	42.0	2	100	0	168	50	0	0	50	1.00
12242082--12242187	51	2.1	51	90	0	167	45	20	2	31	1.66
12245186--12245217	16	2.0	16	93	0	55	43	3	0	53	1.16
12247107--12247176	34	2.1	34	100	0	140	31	25	0	42	1.55
12247535--12247588	23	2.3	23	90	0	90	38	24	11	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12255140--12255841	51	13.8	52	76	7	550	43	17	7	31	1.76
12255105--12255837	102	7.2	102	79	4	681	44	17	7	31	1.76
12255089--12255841	153	4.9	152	78	5	696	43	17	7	31	1.76
12255832--12256003	51	3.4	51	82	8	181	37	17	18	27	1.93
12273551--12273592	14	3.0	14	100	0	84	14	28	7	50	1.69
12275255--12275280	13	2.0	13	100	0	52	15	7	38	38	1.76
12281370--12281586	46	4.7	46	86	2	283	23	20	11	44	1.85
12282151--12282196	18	2.6	18	100	0	92	32	30	13	23	1.93
12284989--12285057	2	34.5	2	94	0	120	52	0	0	47	1.00
12286895--12287342	46	9.7	46	87	0	617	22	21	14	41	1.89
12287948--12288013	21	3.2	21	91	4	109	31	24	10	33	1.89
12291825--12291874	22	2.3	22	78	0	55	26	38	12	24	1.90
12293639--12293688	20	2.4	21	80	12	59	58	6	8	28	1.51
12296149--12296189	20	2.0	20	90	0	64	0	9	4	85	0.73
12299402--12299478	3	24.7	3	72	21	52	33	1	2	62	1.17
12299403--12299476	10	7.1	10	71	17	53	32	1	2	63	1.17
12299445--12299504	24	2.4	24	83	10	68	31	1	3	63	1.20
12301386--12301421	17	2.1	17	100	0	72	22	36	16	25	1.94
12303981--12304011	2	15.5	2	93	0	53	51	0	0	48	1.00
12315687--12315727	13	3.0	14	78	7	57	14	17	19	48	1.81
12317115--12317162	22	2.2	22	100	0	96	41	12	22	22	1.88
12317589--12317619	15	2.1	15	93	0	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12318617--12318648	15	2.1	16	94	5	57	46	6	6	40	1.54
12319894--12319938	20	2.3	20	88	3	65	33	0	24	42	1.55
12329680--12329716	17	2.2	17	95	0	65	51	0	5	43	1.24
12333023--12333078	6	9.3	6	80	7	51	46	0	30	23	1.53
12333027--12333060	12	2.8	12	90	0	59	50	0	23	26	1.50
12336606--12336759	85	1.8	83	84	6	204	31	20	19	27	1.97
12336743--12336810	13	5.2	13	85	0	73	36	14	19	29	1.91
12336743--12336810	26	2.6	26	80	0	82	36	14	19	29	1.91
12339268--12339304	19	2.0	18	89	5	56	21	13	5	59	1.54
12339288--12339392	52	2.0	52	98	0	201	33	20	6	39	1.79
12339699--12339726	4	7.0	4	100	0	56	75	0	0	25	0.81
12341145--12341220	21	3.6	21	78	7	64	26	22	13	38	1.91
12345470--12345503	15	2.2	16	89	5	52	20	14	0	64	1.28
12352658--12352695	19	2.0	19	85	10	51	52	15	13	18	1.74
12361659--12361703	23	2.0	23	81	0	54	35	40	0	24	1.56
12382692--12382789	45	2.2	45	88	0	142	19	22	8	50	1.74
12384192--12384217	8	3.2	8	100	0	52	11	11	38	38	1.78
12394651--12394764	26	4.4	26	94	0	183	45	8	18	27	1.78
12395921--12396200	37	7.4	37	82	8	325	46	2	7	43	1.42
12396127--12396187	11	5.1	11	75	24	61	45	0	8	45	1.33
12396184--12396219	2	17.5	2	94	5	63	50	2	0	47	1.15
12396146--12396258	57	2.0	55	89	6	174	47	0	6	45	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12396202--12396315	39	3.0	36	73	14	106	48	2	5	43	1.39
12396072--12396315	132	1.9	130	81	10	300	47	2	6	43	1.42
12396233--12396287	28	2.0	28	89	7	85	50	3	5	40	1.43
12396176--12396333	85	1.9	85	84	7	214	47	2	5	44	1.38
12396109--12396293	95	1.9	95	85	8	252	48	2	5	43	1.39
12396035--12396347	169	1.9	169	82	6	402	47	2	6	43	1.41
12396351--12396400	5	10.8	5	91	6	63	32	0	0	68	0.90
12396342--12396401	10	6.7	9	81	11	54	31	0	1	66	1.01
12396345--12396415	18	3.8	19	78	15	62	26	1	1	70	1.04
12397572--12397612	6	7.0	6	81	13	50	17	0	0	82	0.66
12397576--12397628	15	3.4	15	82	12	63	16	1	0	81	0.79
12397572--12397637	20	3.1	21	82	10	64	18	3	0	78	0.87
12405803--12405879	32	2.4	32	77	10	86	29	19	14	36	1.91
12407586--12407619	12	2.9	12	86	4	52	44	0	23	32	1.54
12409549--12409606	20	2.7	20	81	10	62	32	18	20	27	1.97
12412188--12412246	17	3.4	16	73	13	55	22	13	3	61	1.47
12412188--12412259	35	2.1	35	86	0	99	22	16	4	56	1.57
12414850--12414944	45	2.1	45	84	3	120	45	12	23	18	1.84
12416361--12416412	2	27.0	2	88	7	81	51	1	0	46	1.12
12416393--12416757	37	9.9	38	82	10	336	47	2	5	44	1.39
12416393--12416763	74	5.0	74	83	10	413	47	2	5	44	1.39
12416661--12416715	26	2.0	28	86	13	80	49	1	5	43	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12416649--12416732	28	2.9	28	80	3	87	46	3	5	44	1.45
12416678--12416766	37	2.3	37	84	5	97	46	3	3	47	1.36
12416801--12416868	13	5.5	12	77	16	59	25	0	0	75	0.81
12416801--12416877	29	2.5	29	84	16	86	23	0	1	75	0.88
12416803--12416868	20	3.5	19	85	12	91	24	0	0	75	0.80
12416816--12416869	9	6.2	8	79	14	54	22	0	0	77	0.76
12424326--12424375	20	2.5	20	86	0	82	38	10	28	24	1.87
12435631--12435695	19	3.4	19	89	0	94	20	30	13	35	1.91
12441264--12441293	13	2.2	14	94	5	53	80	13	0	6	0.91
12447871--12447906	18	2.0	18	88	0	54	33	5	27	33	1.80
12460872--12460933	2	31.5	2	96	3	117	48	0	0	51	1.00
12466848--12466890	2	21.5	2	100	0	86	51	0	0	48	1.00
12469189--12469213	2	12.5	2	100	0	50	48	0	0	52	1.00
12485569--12486067	56	8.9	56	90	3	709	33	18	10	37	1.85
12497115--12497150	19	1.9	19	94	5	65	61	8	11	19	1.54
12508017--12508067	12	4.1	12	74	18	50	68	9	7	13	1.38
12510362--12510426	14	4.6	14	84	3	78	69	0	13	16	1.20
12510362--12510417	5	12.0	5	80	14	66	67	0	14	17	1.22
12510372--12510551	4	43.8	4	72	18	63	70	0	7	21	1.16
12510363--12510426	28	2.3	28	86	5	94	70	0	12	17	1.17
12510414--12510449	11	3.2	11	88	7	54	75	0	5	19	1.00
12510487--12510555	22	3.2	22	76	13	72	75	1	7	15	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12510367--12510586	70	3.2	69	70	15	161	71	0	8	19	1.15
12510573--12510613	16	2.4	16	88	8	55	78	0	9	12	0.98
12510490--12510610	43	2.7	44	80	12	113	75	0	9	14	1.09
12510623--12510649	2	13.5	2	100	0	54	51	0	0	48	1.00
12510757--12510818	21	3.0	20	81	6	63	77	6	0	16	0.97
12510792--12510825	15	2.2	16	89	5	52	76	0	0	23	0.79
12510791--12510824	9	3.9	9	92	3	52	76	0	0	23	0.79
12510846--12510871	2	13.0	2	100	0	52	50	0	0	50	1.00
12524197--12524363	90	1.9	90	93	0	289	46	5	10	36	1.63
12531006--12531183	90	2.0	90	95	0	320	44	6	11	37	1.67

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   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91