genome.fa.s9462.2.7.7.80.10.50.1000.67.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  67  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)
15099716--15099776	29	2.1	29	84	6	79	50	4	16	27	1.65
15102008--15102618	161	3.7	163	76	10	545	33	18	16	32	1.93
15104051--15104228	2	90.0	2	67	20	81	44	3	4	47	1.40
15104063--15104339	26	10.0	27	66	20	94	45	3	5	45	1.42
15104206--15104341	37	3.6	38	76	15	120	47	2	4	45	1.38
15104274--15104325	15	3.4	15	68	5	50	42	1	7	48	1.43
15104300--15104376	19	4.3	19	73	18	76	44	2	6	46	1.43
15104423--15104850	18	24.4	18	68	19	228	45	6	6	42	1.55
15104463--15104491	11	2.6	11	100	0	58	51	6	0	41	1.28
15104423--15104591	51	3.4	50	85	4	234	46	5	4	43	1.49
15104504--15104850	69	5.1	69	82	7	331	44	6	7	41	1.56
15104573--15104850	51	5.5	51	82	6	257	44	6	7	41	1.57
15104573--15104709	50	2.7	51	87	6	206	45	5	7	40	1.56
15104350--15104814	170	2.7	168	82	6	537	44	6	6	42	1.55
15104231--15104850	33	18.5	33	71	17	313	44	5	6	43	1.54
15105009--15105039	16	2.0	15	93	6	53	51	0	0	48	1.00
15105337--15105364	2	14.0	2	100	0	56	50	0	0	50	1.00
15106592--15106661	18	3.9	18	94	0	122	48	5	5	40	1.51
15106806--15106838	14	2.4	14	94	0	57	57	9	6	27	1.53
15107976--15108004	14	2.1	14	93	6	51	37	0	0	62	0.96
15109481--15109539	28	2.1	27	84	3	73	30	6	0	62	1.21
15110048--15110079	15	2.0	17	88	11	50	43	12	18	25	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15113964--15114028	7	9.1	7	74	15	62	83	0	16	0	0.66
15113965--15114028	18	3.9	16	73	22	62	82	0	17	0	0.66
15113964--15114028	23	2.8	24	88	6	89	83	0	16	0	0.66
15113973--15114028	13	4.3	12	77	16	58	83	0	16	0	0.64
15114479--15114545	32	2.1	32	88	0	98	47	19	13	19	1.82
15119381--15119480	37	2.8	35	73	8	103	31	17	12	40	1.85
15119416--15119525	37	3.0	36	73	7	105	31	17	14	36	1.90
15119541--15119989	123	3.7	121	84	7	538	41	14	18	25	1.89
15119559--15119989	239	1.8	239	86	2	623	41	14	18	25	1.88
15120708--15120750	22	2.0	22	95	0	77	20	48	20	9	1.77
15122662--15122694	3	11.3	3	87	6	50	33	0	0	66	0.92
15122662--15122699	14	2.9	13	85	11	51	36	0	0	63	0.95
15123335--15123380	22	2.1	22	83	0	56	23	15	39	21	1.92
15133882--15134163	137	2.1	138	85	3	381	29	13	16	40	1.87
15139103--15139140	19	2.0	20	89	5	60	55	2	2	39	1.28
15153818--15153989	37	4.8	38	69	23	140	33	15	9	41	1.79
15153803--15154087	103	2.7	103	93	2	462	31	16	10	41	1.82
15154026--15154128	37	2.8	37	79	2	118	32	18	12	36	1.88
15154149--15154275	36	3.5	36	80	8	134	32	19	11	37	1.87
15154256--15154413	74	2.1	75	81	6	187	33	20	6	39	1.79
15154507--15154694	51	3.6	53	76	4	177	31	11	17	38	1.86
15154857--15154911	20	2.8	20	97	0	101	21	29	21	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15161143--15161187	24	2.0	23	86	8	65	33	4	2	60	1.29
15167534--15167578	22	2.0	21	84	16	56	35	0	24	40	1.56
15170828--15171175	54	6.4	54	88	1	491	33	20	18	27	1.96
15171181--15171299	62	1.9	62	98	1	231	34	15	24	25	1.95
15171876--15171978	51	2.0	51	94	0	179	38	10	17	33	1.84
15177323--15177379	13	4.4	13	93	0	96	28	14	21	36	1.92
15177624--15177708	2	42.5	2	100	0	170	49	0	0	50	1.00
15183614--15183655	15	2.8	15	85	0	57	9	23	9	57	1.60
15187376--15187415	20	2.0	20	90	0	62	40	22	2	35	1.68
15190426--15190579	53	2.9	53	89	0	236	20	26	22	30	1.98
15190684--15190805	42	2.9	41	87	1	163	32	20	19	27	1.97
15191049--15191149	42	2.4	41	78	3	112	29	21	20	27	1.98
15199616--15199674	31	2.0	29	87	12	86	42	13	6	37	1.71
15201168--15201261	20	4.8	19	71	12	57	48	1	2	47	1.20
15204610--15204897	102	2.8	100	71	7	233	38	10	12	37	1.78
15204530--15205429	203	4.4	201	77	7	639	36	11	13	38	1.81
15204610--15205431	101	8.1	100	71	8	430	36	11	13	38	1.81
15204978--15205322	103	3.4	100	75	10	304	35	12	13	38	1.83
15204936--15205410	204	2.3	203	81	6	516	36	12	13	38	1.82
15206978--15207025	21	2.3	21	92	0	78	8	29	39	22	1.83
15208885--15208945	22	2.8	21	82	5	68	27	19	6	45	1.75
15211191--15211263	22	3.5	22	69	14	73	35	12	28	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15211168--15211257	40	2.2	40	96	0	162	36	8	28	25	1.86
15217420--15217463	21	2.2	20	88	12	63	31	4	27	36	1.77
15218075--15218128	27	2.0	27	85	3	72	37	1	20	40	1.63
15218090--15218130	14	3.0	14	80	16	50	39	0	19	41	1.52
15218281--15218406	23	5.4	23	80	4	119	20	24	24	30	1.99
15218272--15218399	46	2.7	47	85	2	168	21	25	22	30	1.99
15227039--15227093	14	3.9	14	83	4	67	14	10	14	60	1.60
15227046--15227144	24	4.1	24	82	0	90	15	12	15	57	1.65
15227094--15227144	14	3.9	14	75	19	56	15	13	15	54	1.71
15227298--15227344	24	2.0	24	91	0	76	14	12	14	57	1.66
15227366--15227392	14	1.9	14	100	0	54	14	14	11	59	1.62
15227633--15227737	39	2.7	39	94	2	178	46	3	7	41	1.50
15229308--15229344	18	2.1	18	100	0	74	43	35	0	21	1.53
15231582--15231645	21	3.0	21	81	4	74	15	23	35	25	1.94
15238488--15238538	26	2.0	24	81	7	57	19	9	0	70	1.14
15238573--15238599	12	2.2	12	100	0	54	37	7	0	55	1.28
15239454--15239513	2	30.0	2	100	0	120	50	0	0	50	1.00
15239501--15239553	25	2.0	25	85	7	70	35	13	9	41	1.76
15239981--15240129	60	2.5	60	83	0	181	34	24	1	39	1.64
15242406--15242515	31	3.7	30	71	14	84	37	3	0	58	1.22
15243117--15243174	27	2.1	28	90	3	91	34	3	6	55	1.44
15243800--15243861	25	2.5	26	76	15	67	61	3	1	33	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15243782--15243863	34	2.5	34	73	11	80	62	2	1	34	1.16
15244330--15244434	52	2.0	52	94	0	183	33	6	8	51	1.59
15244331--15244412	26	3.2	26	61	13	60	34	8	7	50	1.61
15245894--15246058	74	2.2	76	90	4	255	26	20	24	29	1.99
15246621--15246673	18	2.7	19	82	8	54	58	24	0	16	1.38
15248064--15248142	23	3.5	23	91	3	117	36	17	21	24	1.94
15253922--15254098	74	2.4	73	86	4	230	22	19	27	31	1.98
15254381--15254432	20	2.6	20	84	6	61	36	17	28	17	1.92
15254458--15254510	19	2.6	21	73	14	56	33	15	20	30	1.93
15254571--15254622	22	2.5	22	87	6	72	34	15	19	30	1.93
15254948--15255406	54	8.5	54	88	0	630	29	18	19	32	1.95
15256001--15256046	23	2.0	23	95	0	83	47	4	10	36	1.58
15256561--15256603	12	3.6	12	80	0	59	46	16	11	25	1.80
15256558--15256607	24	2.1	24	100	0	100	40	16	12	32	1.84
15259394--15259423	2	15.0	2	92	0	51	0	46	0	53	1.00
15260595--15260625	2	15.5	2	100	0	62	51	0	0	48	1.00
15262693--15262737	2	23.0	2	95	4	83	51	0	0	48	1.00
15263490--15263546	19	3.1	19	82	10	82	36	12	14	36	1.83
15263499--15263546	17	2.6	19	87	9	73	39	10	14	35	1.80
15269451--15269532	20	3.9	22	73	16	68	28	19	13	39	1.89
15271395--15271477	41	2.0	41	88	9	125	33	2	0	63	1.07
15271419--15271487	22	3.3	22	73	20	67	33	2	0	63	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15271491--15271528	17	2.2	17	90	0	58	18	7	5	68	1.34
15271498--15271544	22	2.1	22	84	7	60	17	8	2	72	1.19
15271578--15271619	22	1.9	22	100	0	84	21	14	7	57	1.61
15272017--15272058	18	2.3	18	100	0	84	16	30	19	33	1.94
15274837--15274911	37	2.0	37	82	10	91	49	2	2	45	1.30
15277538--15277620	19	4.3	19	80	4	69	49	2	13	34	1.55
15277557--15277628	19	3.8	19	70	17	51	51	2	12	33	1.54
15277831--15277865	18	1.9	18	88	0	52	28	0	8	62	1.24
15283241--15283293	26	2.0	26	96	0	97	35	5	24	33	1.79
15287642--15287733	30	3.0	30	88	1	121	25	18	22	33	1.97

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