genome.fa.s9462.2.7.7.80.10.50.1000.69.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  69  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)
15499872--15499985	12	10.2	10	69	22	52	71	9	15	3	1.27
15499872--15499919	11	3.9	12	79	12	53	75	8	14	2	1.13
15499896--15499937	19	2.2	20	86	4	59	69	9	19	2	1.28
15499877--15499977	22	4.4	25	69	22	76	70	9	15	3	1.29
15501168--15501213	16	2.9	16	83	0	56	47	28	2	21	1.62
15501561--15501698	36	3.9	35	81	7	161	31	18	13	37	1.88
15501564--15501698	71	1.9	72	86	7	195	31	18	13	36	1.89
15501664--15501910	105	2.4	103	82	8	290	29	20	11	38	1.88
15501872--15501975	36	3.0	36	83	4	133	32	19	11	36	1.87
15502217--15502436	28	7.9	28	89	4	295	27	10	15	46	1.79
15502217--15502436	83	2.6	84	87	5	304	27	10	15	46	1.79
15502537--15502605	28	2.5	28	90	4	104	34	7	14	43	1.73
15502556--15502722	67	2.5	67	89	5	268	31	10	11	46	1.74
15502550--15502764	67	3.3	66	85	7	260	30	11	12	45	1.77
15502944--15503068	64	2.0	63	85	1	169	32	14	11	42	1.81
15503050--15503129	40	2.0	40	87	4	117	31	20	11	37	1.87
15503162--15503236	31	2.4	30	84	8	80	32	16	13	38	1.87
15503509--15503604	36	2.7	34	79	10	95	30	16	12	40	1.86
15503530--15503604	35	2.1	36	85	7	100	36	18	10	34	1.86
15503763--15503859	28	3.4	28	80	12	99	24	17	13	44	1.85
15504012--15504124	40	2.7	41	82	11	142	22	36	20	21	1.95
15503867--15504131	134	2.0	134	93	1	451	24	34	19	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15504427--15504464	3	12.3	3	94	5	67	31	0	0	68	0.90
15504429--15504476	22	2.2	22	88	7	71	33	0	2	64	1.05
15507839--15507896	29	2.0	29	86	0	80	51	10	15	22	1.73
15513166--15513365	56	3.6	56	92	0	301	39	16	18	26	1.91
15514713--15514762	20	2.6	19	87	3	64	24	18	28	30	1.97
15518343--15518370	2	14.0	2	100	0	56	50	0	0	50	1.00
15520974--15521148	90	2.0	89	90	1	278	45	6	11	36	1.67
15525833--15525873	2	20.5	2	100	0	82	48	0	0	51	1.00
15532706--15532778	23	3.3	23	80	16	75	28	24	19	27	1.98
15537884--15538036	38	4.1	38	79	5	159	31	12	15	41	1.84
15537902--15538056	38	4.1	37	75	9	127	31	10	14	42	1.81
15544056--15544124	10	7.4	10	81	14	85	0	7	14	78	0.96
15544047--15544106	28	2.2	26	85	5	75	5	5	16	73	1.19
15544056--15544125	28	2.5	28	86	9	90	0	7	14	78	0.95
15544063--15544124	18	3.4	18	95	2	106	0	6	12	80	0.89
15544063--15544124	8	6.9	8	79	20	61	0	6	12	80	0.89
15555422--15555503	40	2.0	40	100	0	164	42	9	23	24	1.84
15557046--15557100	3	19.0	3	81	7	69	34	3	0	61	1.13
15567136--15568049	233	4.0	233	86	5	1271	32	16	17	33	1.92
15567918--15568024	42	2.6	42	77	4	128	25	20	21	32	1.97
15568220--15568257	20	1.9	20	94	0	67	52	10	23	13	1.71
15568300--15568330	3	10.3	3	100	0	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15572069--15572115	25	1.9	24	86	4	67	78	2	4	14	0.99
15573347--15573564	39	5.9	35	78	12	197	44	9	2	44	1.50
15573352--15573631	37	7.6	37	81	6	291	44	9	2	43	1.50
15573363--15573619	108	2.3	109	83	5	295	44	9	2	43	1.50
15583004--15583047	13	3.3	13	81	12	54	75	0	0	25	0.81
15582990--15583054	17	3.6	17	76	17	53	73	3	1	21	1.05
15583022--15583059	19	1.9	19	94	5	67	71	2	0	26	1.00
15583056--15583241	37	5.1	36	79	10	189	48	8	2	40	1.48
15583061--15583241	73	2.5	70	84	8	218	48	8	2	40	1.49
15583091--15583227	35	3.8	36	83	7	145	49	8	2	38	1.49
15584838--15584863	13	2.0	13	100	0	52	61	0	0	38	0.96
15586026--15586066	15	2.6	16	81	18	50	39	0	0	60	0.96
15593459--15593531	20	3.7	20	88	0	101	20	24	20	34	1.97
15593558--15593606	20	2.5	20	79	0	53	34	16	18	30	1.93
15593771--15593918	42	3.3	42	67	18	127	36	18	18	26	1.94
15593704--15593921	93	2.3	93	92	0	355	36	18	17	27	1.94
15593704--15593966	93	2.9	92	87	3	338	36	17	17	28	1.93
15593937--15594036	35	2.8	35	86	1	128	36	16	23	25	1.94
15593970--15594274	119	2.6	119	84	4	393	35	19	18	26	1.95
15594512--15594552	16	2.5	16	88	4	55	51	0	0	48	1.00
15604859--15605013	65	2.4	65	88	4	215	30	18	21	29	1.96
15607188--15607228	19	2.2	19	87	12	59	73	9	0	17	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15607674--15607741	23	3.0	22	71	16	68	26	20	25	27	1.99
15612802--15613016	108	2.0	108	99	0	421	36	22	9	31	1.86
15615592--15615629	16	2.4	16	100	0	76	15	15	10	57	1.64
15616367--15616417	19	2.7	19	87	3	77	43	15	3	37	1.66
15619030--15619070	21	2.0	21	90	0	64	51	0	2	46	1.14
15623396--15623486	45	2.0	45	95	0	164	37	24	8	29	1.85
15624732--15624791	21	3.0	20	76	18	61	48	5	28	18	1.69
15629936--15629960	12	2.1	12	100	0	50	16	16	16	52	1.76
15631406--15631466	29	2.1	29	81	6	70	55	8	3	32	1.45
15631815--15631894	39	2.1	39	85	0	115	31	25	27	16	1.96
15635108--15635148	20	2.0	20	95	0	73	34	7	24	34	1.83
15635566--15635766	45	4.4	45	92	0	321	39	8	20	31	1.82
15636089--15636113	12	2.1	12	100	0	50	24	16	24	36	1.94
15638515--15638573	10	6.1	9	79	11	64	83	1	13	1	0.81
15638515--15638588	22	3.6	19	76	18	60	82	1	12	4	0.87
15638510--15638616	36	3.0	35	74	21	98	77	3	14	4	1.07
15638517--15638588	32	2.2	33	82	12	85	81	1	12	4	0.89
15643543--15643572	15	2.0	15	100	0	60	66	26	0	6	1.16
15648900--15648939	21	1.9	21	85	10	55	35	10	2	52	1.48
15650824--15651009	65	2.9	64	81	7	216	27	18	22	30	1.98
15650850--15651050	65	3.1	63	81	13	196	26	17	23	31	1.97
15651674--15651796	46	2.7	45	92	2	201	37	7	23	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15652200--15652258	21	2.8	21	94	0	109	23	22	28	25	1.99
15652334--15652378	22	2.0	22	86	0	63	22	20	13	44	1.85
15665675--15665748	29	2.6	29	86	0	103	37	14	24	22	1.92
15665737--15665808	29	2.4	30	81	6	85	38	16	27	16	1.90
15677325--15677374	18	2.8	17	77	22	57	8	10	2	80	0.99
15680055--15680129	20	3.7	20	78	7	62	30	20	18	30	1.96
15680077--15680142	20	3.3	20	89	4	71	31	21	19	27	1.97
15680096--15680183	20	4.4	20	88	0	104	26	23	20	29	1.99
15681979--15682019	21	2.0	21	85	0	55	31	7	4	56	1.48
15683311--15683345	18	1.9	18	94	0	61	54	25	2	17	1.57
15683516--15683666	20	7.8	20	82	8	170	32	21	19	26	1.97
15683524--15683706	74	2.5	70	81	10	190	33	22	20	24	1.97
15683516--15683715	94	2.1	94	85	2	260	32	22	20	25	1.97
15683705--15683760	20	2.8	20	80	0	67	10	16	25	48	1.78
15683861--15683922	14	4.3	14	75	6	61	46	14	0	38	1.45
15685325--15685431	42	2.5	42	75	4	108	23	18	36	21	1.95
15685945--15685993	20	2.5	20	96	0	89	30	20	18	30	1.96
15685933--15685998	20	3.3	20	86	0	87	37	18	19	24	1.93
15686041--15686088	20	2.4	20	92	0	78	18	20	27	33	1.96
15687981--15688087	20	5.4	20	82	3	101	45	23	16	14	1.84
15688473--15688515	22	2.0	22	95	0	77	18	16	41	23	1.89
15688678--15688766	20	4.4	20	91	0	115	24	22	25	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15688758--15688843	20	4.3	20	93	0	154	24	19	16	39	1.91
15688695--15688843	40	3.7	40	81	3	124	24	20	20	34	1.97
15688715--15688843	60	2.2	60	80	8	138	24	20	19	35	1.95
15690211--15690236	2	13.0	2	100	0	52	50	0	0	50	1.00
15690519--15690619	39	2.6	39	87	1	132	28	21	28	20	1.98
15702547--15702619	36	2.0	36	86	5	103	31	17	21	28	1.97
15702646--15702677	16	1.9	17	93	6	57	31	15	28	25	1.96
15703971--15704063	48	1.9	48	84	4	125	40	17	12	29	1.86
15703981--15704072	24	3.8	24	81	2	87	41	15	13	30	1.85
15711675--15711726	24	2.2	24	86	10	72	1	5	11	80	0.96

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   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