genome.fa.s9462.2.7.7.80.10.50.1000.74.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  74  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)
16786352--16786397	18	2.6	18	96	0	83	26	19	30	23	1.98
16786762--16786790	13	2.1	14	93	6	51	41	10	3	44	1.55
16788151--16788195	12	3.7	12	93	3	72	44	6	11	37	1.66
16788241--16788281	19	2.2	19	91	8	66	73	7	0	19	1.07
16797134--16797201	31	2.2	31	84	7	86	36	5	19	38	1.76
16804617--16804668	21	2.5	21	87	0	86	23	25	23	28	1.99
16820184--16820208	6	4.2	6	100	0	50	84	0	0	16	0.63
16828467--16828493	2	13.5	2	100	0	54	51	0	0	48	1.00
16834606--16834656	27	1.9	27	92	4	86	47	19	13	19	1.83
16837504--16837546	14	3.1	14	82	0	59	23	32	20	23	1.98
16842551--16842615	30	2.2	30	100	0	130	46	9	15	29	1.77
16843009--16843066	27	2.1	27	87	12	84	50	18	12	18	1.78
16846737--16846955	58	3.8	58	90	2	332	36	21	10	32	1.86
16847286--16847342	22	2.7	21	84	12	73	28	21	14	36	1.92
16847380--16847430	20	2.5	20	96	0	93	31	15	35	17	1.92
16853554--16853753	58	3.5	58	86	1	285	37	19	9	34	1.84
16853543--16853757	115	1.9	115	88	1	315	36	20	9	33	1.84
16854186--16854235	20	2.5	20	90	0	82	22	32	14	32	1.93
16855927--16856127	69	2.9	68	80	5	210	30	21	19	27	1.98
16857899--16857942	16	2.5	17	85	14	54	81	0	6	11	0.86
16857898--16857942	19	2.4	19	76	0	54	82	0	6	11	0.84
16859598--16859628	3	10.7	3	93	6	55	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)
16861925--16861982	28	2.1	27	87	6	82	34	5	0	60	1.19
16861925--16861984	30	2.1	30	85	11	83	33	5	0	61	1.17
16862457--16862487	4	7.8	4	100	0	62	22	0	0	77	0.77
16868918--16868954	13	2.8	13	91	0	56	13	18	51	16	1.76
16871116--16871157	18	2.3	18	100	0	84	33	0	16	50	1.46
16874619--16875134	113	4.6	113	88	4	739	36	14	19	28	1.92
16874956--16875008	17	3.2	17	74	15	65	47	9	22	20	1.79
16875063--16875337	121	2.3	119	76	10	283	42	14	18	25	1.88
16877983--16878023	7	5.9	7	100	0	82	73	0	0	26	0.84
16877982--16878030	21	2.3	21	89	0	80	69	4	2	24	1.17
16880754--16880795	19	2.1	20	82	8	50	50	21	0	28	1.49
16881223--16881268	22	2.1	22	88	11	69	43	30	13	13	1.81
16883385--16883430	19	2.4	19	100	0	92	41	19	17	21	1.90
16892338--16892380	21	2.0	21	86	0	59	23	16	20	39	1.92
16893884--16893930	20	2.4	19	86	13	60	51	8	14	25	1.71
16907516--16907666	75	2.0	75	94	2	268	32	15	17	35	1.91
16911591--16911677	38	2.3	38	82	4	104	47	2	25	25	1.64
16911614--16911674	20	3.2	19	75	15	63	44	0	29	26	1.55
16912604--16912654	24	2.3	21	87	12	68	33	0	11	54	1.37
16912598--16912647	24	2.1	24	100	0	100	38	0	16	46	1.47
16915877--16915934	19	3.1	19	94	0	98	48	5	15	31	1.67
16915877--16915953	38	2.0	38	82	0	91	46	5	15	32	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16915996--16916054	13	4.8	12	77	12	57	52	1	20	25	1.56
16917619--16917673	26	2.2	24	83	9	65	67	0	23	9	1.19
16920138--16920606	236	2.0	236	96	0	866	24	18	19	37	1.94
16920793--16920870	36	2.2	36	81	6	88	43	21	2	32	1.66
16921106--16921152	24	2.0	25	83	8	62	46	8	8	36	1.65
16921368--16921660	148	2.0	147	91	2	480	48	9	6	35	1.62
16921819--16921914	34	2.8	34	84	7	106	31	1	23	43	1.61
16927187--16927228	20	2.1	20	86	8	59	45	28	0	26	1.54
16942208--16942258	21	2.3	22	83	6	68	23	27	19	29	1.98
16942967--16943154	32	5.9	32	89	1	256	36	18	18	27	1.94
16942972--16943154	96	1.9	95	92	3	305	37	17	18	27	1.93
16948214--16948385	31	5.5	31	78	12	188	31	18	18	31	1.95
16948214--16948380	63	2.7	63	94	1	282	32	17	17	31	1.94
16957764--16958673	227	4.0	227	95	0	1597	37	7	20	34	1.81
16960595--16960660	17	3.8	17	76	7	53	37	7	15	39	1.75
16966236--16966291	26	2.2	26	93	0	94	42	5	3	48	1.43
16966236--16966299	26	2.5	26	87	5	76	40	6	3	50	1.43
16974568--16974601	2	17.0	2	88	11	52	50	0	2	47	1.16
16974652--16974693	2	21.0	2	100	0	84	50	0	0	50	1.00
16974714--16974873	85	1.9	85	82	7	200	29	17	20	33	1.95
16974854--16974915	13	4.8	13	87	0	79	33	14	22	29	1.94
16980048--16980143	42	2.3	42	88	0	138	36	19	15	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
16981496--16981524	8	3.8	8	90	9	51	24	0	0	75	0.80
16981495--16981524	15	2.0	15	100	0	60	26	0	0	73	0.84
16981496--16981676	12	16.3	11	65	21	51	18	6	2	72	1.18
16981561--16981699	33	4.0	33	72	22	106	17	6	2	72	1.18
16981615--16981677	16	4.1	15	74	9	56	17	3	3	76	1.05
16981577--16981762	42	4.6	41	71	18	122	20	5	4	69	1.26
16985920--16986071	36	4.2	36	97	0	277	27	21	14	36	1.92
16985950--16986050	21	5.4	21	65	26	82	24	21	12	40	1.89
16986138--16986209	21	3.7	21	70	21	75	22	19	12	45	1.83
16986148--16986403	36	7.2	36	78	9	267	26	19	13	40	1.88
16985989--16986461	159	2.9	159	88	6	644	27	20	13	39	1.89
16986245--16986403	37	4.4	36	84	3	194	24	20	13	41	1.88
16986253--16986403	73	2.1	73	86	2	205	25	21	13	39	1.89
16986506--16986691	81	2.3	81	81	5	207	32	23	17	26	1.97
16987711--16987792	41	2.0	41	83	9	105	15	9	1	73	1.16
16987736--16987849	34	3.5	33	72	18	96	19	7	2	70	1.24
16987736--16987858	66	1.9	65	83	11	164	19	7	2	70	1.22
16987834--16987939	15	6.9	15	72	21	62	20	3	2	72	1.13
16987736--16987899	33	4.8	32	70	18	109	18	6	2	72	1.18
16987830--16987917	20	4.6	18	76	19	72	18	4	3	73	1.14
16987845--16987932	33	2.7	30	78	19	79	19	4	2	73	1.11
17003001--17003057	2	28.5	2	100	0	114	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17004728--17004904	90	2.0	89	90	1	282	38	10	6	44	1.63
17009567--17009740	89	2.0	88	94	2	303	36	11	6	45	1.66
17015949--17016885	134	7.0	133	81	4	949	31	24	15	28	1.96
17017057--17017104	3	16.0	3	91	0	69	37	2	0	60	1.09
17021465--17021493	9	3.2	9	100	0	58	31	0	0	68	0.89
17022334--17022396	31	2.1	30	88	5	92	15	15	11	57	1.66
17022840--17022912	28	2.6	28	84	6	76	13	17	15	53	1.73
17024228--17024370	24	6.2	24	71	16	72	78	0	18	2	0.92
17024257--17024369	7	15.9	7	75	17	92	82	0	15	1	0.76
17024257--17024366	8	13.2	8	80	13	93	82	0	15	1	0.75
17024257--17024369	15	7.4	16	74	16	96	82	0	15	1	0.76
17024250--17024368	44	2.8	42	80	16	129	81	0	16	1	0.77
17024249--17024381	38	3.5	38	77	14	130	80	0	17	2	0.81
17024294--17024366	1	73.0	1	75	0	65	87	0	12	0	0.54
17024249--17024371	48	2.5	49	82	11	137	81	0	17	1	0.77
17025368--17025424	27	2.1	27	100	0	114	29	17	19	33	1.95
17034075--17034109	16	2.2	17	90	10	56	28	17	0	54	1.43
17036706--17036768	22	3.1	21	78	10	62	17	1	4	76	1.04
17046836--17047031	40	4.9	40	91	0	293	25	18	27	29	1.98
17050937--17051284	41	7.4	48	70	14	199	27	19	19	33	1.96
17050939--17051060	48	2.5	49	90	1	192	26	20	19	33	1.97
17051030--17051204	92	1.9	91	90	3	280	30	17	21	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17051163--17051280	47	2.4	48	77	8	123	27	21	18	32	1.97
17051072--17051366	136	2.1	138	81	1	333	30	19	18	31	1.96
17053953--17053986	15	2.1	17	89	10	54	11	23	0	64	1.26
17058048--17058098	20	2.5	21	80	3	59	64	1	3	29	1.22
17058767--17058796	14	2.1	15	93	6	53	63	3	0	33	1.11
17062180--17062256	31	2.5	31	84	2	100	31	28	23	16	1.96
17065934--17066025	32	3.0	32	75	10	93	27	29	28	15	1.96
17068401--17068478	24	3.2	24	92	0	129	44	15	17	21	1.86
17069785--17069994	82	2.5	83	83	0	242	34	21	14	28	1.93
17069865--17070004	42	3.4	42	70	9	124	36	23	14	25	1.93

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