genome.fa.s9462.2.7.7.80.10.50.1000.56.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  56  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)
12804638--12804704	31	2.2	31	97	2	127	59	8	0	31	1.28
12805249--12805287	17	2.2	19	90	9	64	28	17	0	53	1.44
12806640--12806736	10	10.0	9	71	17	61	76	1	16	6	1.04
12806640--12806689	12	4.2	12	78	16	50	78	0	20	2	0.86
12806638--12806711	20	3.7	20	75	20	75	78	1	17	2	0.94
12806930--12807166	116	2.0	116	80	6	257	31	15	13	39	1.87
12808242--12808290	18	2.6	18	83	6	62	57	10	18	14	1.65
12808557--12809435	327	2.7	327	83	6	996	40	14	19	25	1.90
12808511--12809489	220	4.5	218	79	7	867	40	14	19	26	1.89
12808794--12809476	329	2.1	326	83	6	871	40	13	19	26	1.89
12808557--12809503	110	8.7	109	75	7	674	40	14	19	26	1.89
12809553--12809611	30	2.0	30	90	3	93	37	6	13	42	1.71
12811196--12811226	14	2.1	15	94	5	55	64	0	32	3	1.09
12813004--12813062	30	2.0	30	90	3	93	37	6	11	44	1.68
12813142--12813239	21	4.7	20	79	13	99	24	31	18	25	1.97
12813206--12813295	20	4.9	18	72	14	60	28	30	16	24	1.97
12828722--12828767	18	2.6	18	92	0	74	47	13	6	32	1.68
12832356--12832399	17	2.6	18	85	10	65	50	13	6	29	1.68
12832904--12832975	29	2.5	29	88	4	110	38	13	26	20	1.90
12832993--12833079	43	2.0	43	82	4	104	34	21	22	20	1.97
12837115--12837157	22	1.9	23	90	4	70	11	11	6	69	1.35
12838169--12838230	23	2.8	23	90	9	94	40	27	8	24	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12851773--12851818	24	1.9	24	86	0	65	45	19	8	26	1.79
12853740--12854032	118	2.5	116	77	6	279	28	17	14	39	1.89
12855794--12855834	3	13.7	3	100	0	82	31	0	0	68	0.90
12856793--12856833	2	20.5	2	94	0	73	51	46	2	0	1.14
12856833--12856876	2	22.0	2	100	0	88	50	0	0	50	1.00
12863282--12863389	57	1.9	56	88	1	162	30	20	7	41	1.79
12863338--12863514	71	2.5	71	94	0	318	29	22	10	36	1.88
12863338--12863513	34	4.9	37	75	8	193	30	22	10	36	1.88
12865398--12865538	5	28.2	5	66	21	57	37	3	0	58	1.15
12865463--12865527	23	3.0	22	76	8	53	35	3	0	61	1.12
12866603--12866627	4	6.2	4	100	0	50	76	0	0	24	0.80
12869539--12870120	287	2.0	286	98	1	1121	35	13	19	31	1.90
12873722--12873763	2	21.0	2	100	0	84	50	0	0	50	1.00
12875127--12875196	37	1.9	37	88	2	106	34	18	10	37	1.84
12875128--12875205	37	2.1	36	83	6	95	34	19	10	35	1.85
12875220--12875396	37	4.9	36	86	5	232	25	22	12	38	1.90
12875234--12875376	71	2.0	71	90	2	225	25	20	13	39	1.89
12875279--12875333	17	3.2	17	66	19	51	20	21	14	43	1.87
12875259--12875530	130	2.1	129	86	4	370	28	22	11	37	1.89
12875227--12875527	167	1.8	166	89	3	471	27	21	12	38	1.89
12875333--12875459	59	2.2	59	87	4	177	28	23	12	35	1.91
12875389--12875583	36	5.4	36	84	4	259	30	22	11	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12875392--12875583	71	2.7	72	90	3	305	30	21	11	36	1.89
12875600--12875649	21	2.4	21	93	0	82	30	28	8	34	1.86
12876047--12876099	22	2.4	22	90	0	79	37	33	16	11	1.85
12877443--12877489	24	2.0	24	83	8	60	17	2	8	72	1.19
12880092--12880169	34	2.3	34	97	0	147	23	20	11	44	1.84
12898817--12898863	19	2.4	19	83	13	60	46	4	12	36	1.62
12898817--12898864	20	2.5	20	86	10	64	47	4	12	35	1.60
12900005--12900068	2	32.0	2	100	0	128	50	0	0	50	1.00
12906900--12906962	8	8.6	7	81	16	58	26	3	1	68	1.14
12910891--12910928	18	2.1	19	95	5	69	42	10	7	39	1.69
12912430--12912478	20	2.5	20	83	6	64	6	28	34	30	1.82
12912551--12912589	19	2.0	20	90	5	62	69	0	2	28	1.02
12912630--12912726	35	2.6	36	82	12	108	40	9	3	47	1.51
12912630--12912714	35	2.4	35	86	7	109	40	9	2	48	1.48
12912701--12912807	49	2.3	49	90	6	168	47	8	0	42	1.40
12912747--12912873	37	3.3	39	79	13	120	51	10	0	37	1.41
12913721--12914214	85	5.8	84	81	3	508	26	17	20	35	1.94
12914224--12914259	19	1.9	19	88	5	56	27	13	19	38	1.90
12918962--12919022	24	2.6	24	86	2	79	63	1	11	22	1.36
12919042--12919091	14	3.4	14	84	10	64	76	0	6	18	0.99
12919074--12919138	26	2.5	25	75	22	71	75	4	4	15	1.13
12919082--12919174	44	2.1	46	90	6	147	69	5	8	16	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12919100--12919191	44	2.1	43	82	6	105	65	4	10	19	1.41
12920263--12920310	3	16.3	3	83	16	57	70	0	0	29	0.87
12920262--12920310	19	2.5	20	87	9	75	71	0	0	28	0.86
12920379--12920504	38	3.3	39	78	9	100	50	6	0	42	1.33
12920374--12920502	36	3.5	38	78	11	126	50	6	0	42	1.33
12920374--12920506	37	3.5	38	79	11	139	50	6	0	42	1.32
12920489--12920522	2	17.5	2	93	6	61	50	0	0	50	1.00
12920451--12920560	56	1.9	57	89	5	170	49	6	0	44	1.28
12920370--12920632	132	2.0	129	86	6	361	49	7	0	42	1.36
12920413--12920595	94	2.0	93	85	5	253	50	5	0	43	1.29
12920506--12920632	38	3.3	38	86	3	184	47	8	0	43	1.39
12922672--12922708	16	2.3	16	90	0	65	43	37	0	18	1.51
12922856--12922886	15	2.1	15	93	0	53	54	22	0	22	1.44
12923690--12923738	25	2.0	25	91	0	80	42	16	30	10	1.81
12925493--12925574	29	2.8	29	94	1	137	32	14	9	42	1.79
12926863--12926892	15	2.0	15	93	0	51	56	23	0	20	1.42
12930261--12930342	29	2.8	29	94	1	137	32	14	9	42	1.79
12930709--12930747	20	2.0	20	94	0	69	28	15	25	30	1.96
12930898--12930928	3	10.3	3	92	0	53	70	0	0	29	0.87
12931467--12931568	51	2.0	51	100	0	204	39	17	11	31	1.86
12939585--12939644	19	2.9	20	85	9	68	16	26	35	21	1.95
12949389--12949457	26	2.7	26	83	0	84	21	11	17	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12949400--12949455	19	2.9	19	75	17	53	21	12	17	48	1.80
12949396--12949455	6	9.3	6	75	13	57	20	11	18	50	1.77
12957365--12957413	25	2.0	25	95	0	89	48	12	10	28	1.73
12965215--12965319	49	2.1	51	80	7	117	21	23	16	38	1.93
12965522--12965769	54	4.6	54	88	2	336	36	17	14	31	1.90
12968008--12968167	65	2.5	65	84	7	202	28	17	24	30	1.97
12968550--12968598	20	2.8	17	77	19	55	32	14	24	28	1.94
12968459--12968656	95	2.1	96	82	6	233	34	14	22	28	1.93
12969006--12969512	55	9.3	55	84	3	569	29	19	19	31	1.96
12969023--12969512	213	2.3	217	84	2	628	30	18	19	31	1.96
12972705--12972792	41	2.2	41	81	2	106	35	22	14	27	1.93
12974032--12974121	14	6.4	14	71	13	51	25	1	26	46	1.60
12974042--12974122	28	2.8	30	82	10	82	27	0	23	49	1.50
12974196--12974262	7	9.7	7	81	3	73	19	2	37	40	1.67
12977808--12977859	20	2.5	20	85	14	63	38	11	25	25	1.89
12977825--12978013	95	2.0	94	85	5	256	33	16	22	27	1.95
12978376--12978862	55	8.9	55	87	2	620	29	18	20	31	1.96
12985319--12985383	26	2.5	26	87	0	94	32	18	18	30	1.95
12985319--12985383	13	5.0	13	73	0	58	32	18	18	30	1.95
12990393--12990536	74	1.9	74	94	0	252	25	20	17	36	1.94
13001765--13001811	24	2.1	23	84	11	62	31	8	23	36	1.85
13001813--13001877	30	2.2	30	88	0	94	46	10	16	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13004265--13004307	22	2.0	22	95	0	77	39	6	13	39	1.72
13024577--13024741	90	1.8	89	90	1	267	39	8	7	44	1.64
13029683--13029860	90	2.0	90	92	0	293	44	7	11	35	1.69
13031063--13031239	95	1.9	96	82	1	230	31	11	26	30	1.92
13031086--13031269	95	1.9	95	80	2	208	32	12	25	30	1.92
13031633--13031769	59	2.3	58	86	6	188	32	12	18	36	1.88
13032097--13032251	68	2.3	68	85	0	229	30	14	23	30	1.95
13032290--13032523	81	2.9	81	88	0	317	37	13	23	26	1.91
13032560--13032599	2	20.0	2	100	0	80	50	0	0	50	1.00
13036420--13036475	22	2.7	20	79	15	60	30	16	28	25	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   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