genome.fa.s23.2.7.7.80.10.50.1000.145.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: At_chr5
Parameters: 2 7 7 80 10 50 1000
Length:  55438857

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   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   

This is table  145  of  167  ( 19959 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)
48133996--48134034	13	3.0	13	80	0	51	33	7	20	38	1.81
48134581--48134658	21	3.6	22	75	11	74	66	14	17	1	1.31
48134711--48134909	99	2.0	99	97	0	371	42	13	12	31	1.81
48136084--48136142	23	2.5	23	86	8	75	28	5	5	61	1.39
48137712--48137740	13	2.2	13	100	0	58	62	6	0	31	1.22
48140572--48140610	11	3.5	11	85	0	51	10	2	5	82	0.93
48141219--48141270	23	2.2	24	82	6	61	36	7	1	53	1.41
48142013--48142073	29	2.2	28	82	11	72	45	3	8	42	1.50
48143075--48143175	51	2.0	51	96	0	184	33	22	12	30	1.92
48145313--48145373	21	2.8	21	80	5	68	32	27	24	14	1.95
48145575--48145669	28	3.6	24	81	13	93	46	33	4	15	1.66
48145589--48145672	28	3.0	28	91	1	132	46	30	3	19	1.66
48146466--48146556	43	2.1	44	97	2	175	39	17	2	40	1.62
48147162--48147373	51	4.2	51	93	0	361	32	22	12	33	1.91
48147159--48147373	102	2.1	102	97	0	403	32	22	12	33	1.91
48155579--48155612	13	2.6	13	85	0	50	38	35	0	26	1.57
48156571--48156609	17	2.3	17	100	0	78	41	10	5	43	1.61
48160465--48160514	25	2.0	25	96	0	91	38	24	10	28	1.87
48161150--48161215	3	21.7	3	96	3	123	66	0	1	31	1.01
48163984--48164041	28	2.1	28	96	0	107	36	12	27	24	1.91
48176560--48176653	44	2.1	44	80	7	102	28	17	21	32	1.95
48176540--48177228	143	4.8	143	84	3	793	27	20	20	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48176957--48177408	44	9.8	44	69	12	192	28	21	19	30	1.97
48177091--48177410	44	7.1	44	71	12	193	30	19	19	30	1.97
48177119--48177453	183	1.8	183	80	3	397	30	21	19	28	1.98
48180223--48180270	16	2.8	18	81	18	66	39	8	22	29	1.83
48189398--48189551	42	3.6	43	84	4	159	24	16	29	30	1.96
48189382--48189546	43	3.8	43	82	6	183	24	16	27	31	1.96
48196297--48196362	21	3.2	20	72	12	53	71	3	4	21	1.18
48197896--48197930	18	2.0	17	94	5	61	45	0	0	54	0.99
48205513--48205722	40	5.3	39	89	4	242	25	21	27	25	1.99
48205460--48205722	120	2.2	120	82	4	309	25	21	27	25	1.99
48205461--48205757	80	3.7	80	81	6	230	26	21	27	24	1.99
48213410--48213592	40	4.6	39	81	6	170	24	20	27	26	1.99
48213446--48213627	79	2.3	80	79	3	190	26	20	27	25	1.99
48215494--48215548	5	10.6	5	92	4	83	38	0	20	41	1.52
48224846--48224887	22	1.9	22	85	0	57	52	21	0	26	1.47
48230828--48230888	20	3.2	20	73	13	56	27	4	3	63	1.30
48233216--48233411	27	7.3	27	78	5	157	40	18	14	26	1.89
48233216--48233433	54	4.1	54	76	7	183	39	18	14	27	1.89
48233417--48233504	27	3.3	27	86	0	86	19	17	20	43	1.88
48243380--48243419	3	13.3	3	94	0	71	65	0	0	35	0.93
48246533--48246743	27	7.8	27	84	2	235	41	16	13	27	1.86
48246782--48246851	27	2.6	27	77	4	70	20	14	15	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48247240--48247285	24	1.9	24	86	0	65	10	21	13	54	1.69
48258539--48258817	99	2.8	99	89	1	425	28	12	24	34	1.92
48259458--48259581	4	31.0	4	100	0	248	25	0	25	50	1.50
48271207--48271240	16	2.1	16	88	0	50	32	0	2	64	1.08
48272995--48273064	32	2.2	32	97	2	131	42	14	7	35	1.73
48277176--48277234	21	2.8	22	80	7	61	22	0	8	69	1.15
48277205--48277254	26	2.0	24	88	7	73	30	0	6	64	1.18
48277536--48277642	54	2.0	54	100	0	214	40	18	7	33	1.79
48277763--48277812	25	2.0	26	88	7	77	54	2	20	24	1.55
48279549--48279595	21	2.3	20	85	7	60	61	12	2	23	1.42
48283158--48283204	3	15.3	3	78	12	51	29	6	0	63	1.19
48283158--48283204	18	2.6	18	83	13	60	29	6	0	63	1.19
48283159--48283210	18	2.9	17	85	8	59	28	5	0	65	1.16
48287138--48287183	19	2.4	18	82	10	56	21	26	10	41	1.86
48291968--48292021	25	2.2	25	82	0	63	37	20	27	14	1.92
48293477--48293560	28	3.0	28	91	1	132	19	3	30	46	1.66
48293481--48293574	28	3.6	24	78	18	91	15	4	34	45	1.66
48293765--48293809	22	2.0	23	91	4	74	20	17	20	42	1.90
48295145--48295346	100	2.0	100	99	0	395	18	11	22	47	1.81
48302151--48302250	52	1.9	52	81	6	121	44	21	27	8	1.80
48303050--48303450	44	8.8	45	70	9	206	30	17	23	27	1.97
48303133--48303417	143	2.0	143	82	0	345	31	17	22	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48303281--48303535	44	5.8	44	76	5	174	31	19	21	27	1.97
48303377--48303537	88	1.8	88	82	2	207	32	19	19	28	1.96
48305219--48305254	14	2.5	14	90	4	54	22	5	0	72	1.05
48306417--48306466	21	2.4	21	89	0	73	60	22	8	10	1.55
48307774--48307853	3	27.0	3	74	14	60	25	3	1	70	1.12
48308820--48308925	47	2.2	48	75	11	112	53	0	3	41	1.25
48317304--48317420	44	2.7	44	83	9	134	23	18	23	35	1.96
48317316--48317477	43	3.8	43	77	12	138	24	17	24	33	1.96
48322433--48322483	23	2.1	25	85	7	70	68	1	5	23	1.22
48324024--48324191	89	1.9	90	82	3	214	31	25	12	30	1.92
48324297--48324525	96	2.4	97	83	5	286	32	16	15	35	1.90
48324303--48324483	52	3.6	51	74	13	180	33	14	14	37	1.87
48324452--48325064	89	6.8	89	77	8	538	29	21	16	32	1.95
48324453--48324795	183	1.9	183	83	2	456	30	21	16	31	1.96
48323991--48325064	44	23.5	44	73	10	663	30	20	15	32	1.94
48327906--48328013	40	2.7	40	89	2	146	31	25	19	23	1.98
48327939--48328025	40	2.2	40	85	0	111	33	27	20	18	1.96
48335819--48335939	51	2.3	51	90	2	179	35	13	23	28	1.92
48335804--48335929	51	2.3	57	73	18	138	35	14	23	26	1.93
48340163--48340973	44	18.2	45	67	11	206	24	26	19	29	1.98
48340193--48341244	178	5.9	177	87	2	1421	25	26	18	28	1.98
48342437--48342494	20	2.8	21	74	12	57	36	6	0	56	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48348316--48348410	25	3.8	25	91	0	154	25	21	26	27	1.99
48348633--48348861	27	8.5	27	85	3	282	26	18	18	36	1.94
48348633--48348890	81	3.2	81	83	2	315	26	17	18	37	1.93
48348849--48349214	27	13.6	27	80	8	372	29	8	21	41	1.82
48348875--48349214	81	4.2	81	100	0	680	29	8	21	41	1.82
48349208--48349387	27	6.7	27	86	2	256	38	9	25	27	1.86
48349212--48349387	53	3.3	53	90	0	262	38	9	24	27	1.86
48349208--48349387	80	2.2	80	90	1	272	38	9	25	27	1.86
48351319--48351404	18	4.7	18	79	1	91	40	12	10	36	1.78
48351319--48351407	36	2.4	37	81	5	119	39	13	11	35	1.80
48351532--48351648	47	2.5	47	88	5	166	42	23	17	16	1.88
48351679--48351703	12	2.1	12	100	0	50	40	20	24	16	1.91
48353400--48353485	18	4.7	18	82	1	100	40	13	9	36	1.77
48353400--48353488	36	2.4	37	83	1	126	39	14	10	35	1.80
48353613--48353729	47	2.5	47	88	5	166	42	23	17	16	1.88
48353760--48353784	12	2.1	12	100	0	50	40	20	24	16	1.91
48353910--48353967	20	2.8	21	74	12	57	36	6	0	56	1.26
48355375--48355422	20	2.3	20	79	10	53	6	14	0	79	0.92
48355692--48355733	5	8.2	5	89	10	59	57	0	0	42	0.99
48357747--48357786	21	2.0	20	85	5	53	12	10	2	75	1.15
48362132--48362162	12	2.6	12	94	0	53	41	29	22	6	1.78
48363019--48363056	14	2.6	16	84	16	55	57	2	7	31	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48364840--48364883	20	2.2	20	100	0	88	25	18	45	11	1.82
48364951--48365012	21	2.9	22	68	22	60	24	37	24	14	1.93
48367970--48368004	17	2.1	17	100	0	70	11	22	11	54	1.68
48369556--48369612	22	2.7	22	76	15	66	71	0	0	28	0.86
48369562--48369603	13	3.1	13	89	6	57	73	0	0	26	0.83
48369574--48369627	18	2.9	19	75	22	53	72	3	0	24	1.01
48369556--48369642	15	6.0	14	80	12	72	68	2	2	26	1.13
48369599--48369645	9	5.2	9	86	0	58	65	4	4	25	1.29
48379855--48379879	13	1.9	13	100	0	50	16	36	0	48	1.46
48379640--48379917	77	3.6	78	77	11	222	23	38	3	35	1.71

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   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167