genome.fa.s23.2.7.7.80.10.50.1000.38.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  38  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)
11641565--11641625	8	6.9	8	75	17	50	59	1	1	37	1.17
11642188--11642260	28	2.5	30	78	10	80	53	6	2	36	1.42
11644670--11644801	43	3.1	43	85	1	176	30	26	19	23	1.98
11644911--11644940	11	2.6	12	89	10	53	46	13	0	40	1.43
11644911--11644944	11	3.1	11	91	8	52	47	11	0	41	1.40
11645051--11645085	15	2.3	15	90	0	52	60	0	0	40	0.97
11648475--11648526	24	2.2	24	89	0	77	55	9	1	32	1.43
11650445--11650496	24	2.2	24	89	0	77	55	9	1	32	1.43
11651084--11651127	16	2.8	16	80	16	56	25	0	2	72	0.96
11651762--11651797	14	2.5	15	86	13	58	50	30	0	19	1.48
11651789--11651829	21	2.0	21	85	9	57	26	51	2	19	1.59
11651790--11651832	7	6.0	7	81	5	50	27	51	2	18	1.59
11651940--11652035	41	2.4	40	89	1	147	16	26	25	32	1.96
11654640--11654884	87	2.8	87	85	3	303	24	21	23	30	1.99
11654670--11655054	44	8.8	45	71	12	245	25	21	21	32	1.98
11656254--11656363	54	1.9	54	87	8	157	12	13	15	58	1.64
11667494--11667528	3	11.7	3	88	11	54	68	0	2	28	1.04
11674262--11674338	29	2.6	29	82	13	86	23	16	10	49	1.77
11703193--11703245	25	2.2	24	78	15	56	30	3	18	47	1.67
11704140--11704168	12	2.4	12	100	0	58	20	41	27	10	1.85
11705132--11705168	12	3.1	12	100	0	74	24	8	27	40	1.83
11705156--11705202	22	2.1	22	100	0	94	25	8	29	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11705475--11705516	21	2.0	21	85	0	57	33	19	21	26	1.97
11706564--11706664	52	2.0	51	84	2	130	30	26	24	17	1.97
11713527--11713750	104	2.2	104	93	1	378	17	19	31	31	1.95
11713669--11713892	71	3.1	71	94	0	385	23	16	29	30	1.96
11721156--11721379	104	2.2	104	93	1	378	17	19	31	31	1.95
11721298--11721449	71	2.1	72	92	1	252	23	17	29	30	1.97
11732773--11733064	153	1.9	152	88	3	435	31	14	16	37	1.89
11739505--11739556	19	2.8	19	72	13	54	63	1	1	32	1.16
11739782--11739901	29	4.1	28	75	12	91	28	7	3	60	1.40
11739782--11739901	57	2.1	59	82	6	147	28	7	3	60	1.40
11739857--11739922	19	3.4	19	72	17	55	31	4	4	59	1.38
11739936--11739976	21	2.0	21	85	9	57	43	0	4	51	1.23
11740038--11740230	93	2.1	92	84	4	246	35	8	18	37	1.81
11740977--11741026	21	2.4	22	83	6	68	56	10	2	32	1.44
11741011--11741066	31	2.0	30	83	16	75	46	10	8	33	1.70
11744715--11744753	14	2.8	14	100	0	78	28	12	5	53	1.60
11746778--11746885	26	4.2	26	91	0	180	31	7	25	36	1.83
11748330--11748392	28	2.2	28	94	0	108	38	17	11	33	1.85
11748341--11748405	28	2.3	28	97	0	121	32	23	12	32	1.91
11748511--11748651	54	2.6	53	94	2	237	17	24	24	34	1.95
11748511--11748669	27	5.9	27	83	11	193	18	24	22	34	1.96
11749999--11750045	23	2.0	24	87	4	69	55	2	0	42	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11750063--11750112	19	2.6	19	81	9	57	62	0	10	28	1.27
11750169--11750225	29	1.9	30	86	10	82	42	0	0	57	0.98
11750345--11750400	19	2.9	19	82	17	64	33	0	0	66	0.92
11754028--11754105	25	3.1	25	83	0	102	34	14	11	39	1.82
11758718--11758795	25	3.1	25	86	0	102	35	12	10	41	1.77
11762384--11762416	17	1.9	17	100	0	66	48	6	21	24	1.72
11762386--11762424	17	2.4	17	87	8	55	51	7	20	20	1.72
11776676--11776721	22	2.1	22	95	0	83	41	8	8	41	1.67
11778974--11779003	14	2.1	14	93	0	51	20	16	6	56	1.62
11779365--11779604	129	1.8	132	80	9	296	27	20	17	35	1.94
11780483--11780565	32	2.5	33	82	7	87	43	2	4	49	1.37
11780769--11780820	25	2.1	25	100	0	104	48	23	9	19	1.78
11783631--11783668	19	2.0	19	89	0	58	34	28	7	28	1.85
11787990--11788057	17	4.0	17	76	0	64	14	14	32	38	1.87
11795280--11795415	41	3.3	41	80	5	159	34	23	22	19	1.96
11795420--11795547	45	2.8	45	77	9	141	49	31	0	19	1.49
11797553--11798149	114	5.2	115	80	4	534	25	15	24	35	1.94
11797686--11798136	230	2.0	229	82	3	548	24	14	23	37	1.92
11798227--11798357	60	2.2	59	87	1	181	20	39	3	36	1.68
11799790--11799839	18	2.7	18	84	12	57	60	0	0	40	0.97
11801257--11801364	26	4.2	26	92	0	189	32	6	25	36	1.81
11805351--11805424	21	3.2	24	66	23	59	39	14	6	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11805500--11805530	9	3.4	9	90	0	53	51	19	0	29	1.47
11805533--11805562	13	2.3	13	100	0	60	53	10	0	36	1.35
11805508--11805662	56	2.8	56	91	3	249	49	17	0	32	1.52
11810620--11810716	21	4.6	21	83	10	135	28	17	50	3	1.61
11813318--11813382	20	3.2	20	84	4	78	9	26	23	41	1.84
11813398--11813429	13	2.5	13	100	0	64	50	12	0	37	1.41
11816219--11816571	47	7.6	44	73	14	232	27	21	28	22	1.99
11816219--11816580	93	3.9	94	77	11	298	27	21	28	22	1.99
11816221--11816571	140	2.5	138	77	9	345	27	20	29	22	1.99
11829183--11829212	3	10.0	3	100	0	60	66	0	0	33	0.92
11832630--11832658	13	2.2	13	100	0	58	55	13	0	31	1.39
11835327--11835365	18	2.2	17	86	13	53	33	0	20	46	1.51
11835592--11835665	23	3.3	23	86	3	114	18	21	27	32	1.97
11835593--11835658	22	3.0	22	90	2	105	18	22	27	31	1.97
11842667--11842705	18	2.2	17	86	13	53	33	0	20	46	1.51
11842931--11843028	23	4.3	23	90	2	162	20	21	26	31	1.98
11842933--11843021	45	2.0	45	95	0	160	19	22	26	31	1.97
11845555--11845587	6	5.5	6	96	0	57	81	0	3	15	0.80
11850928--11850956	13	2.2	13	100	0	58	55	13	0	31	1.39
11852613--11852656	16	2.6	17	80	16	56	25	6	11	56	1.58
11854879--11854927	22	2.2	22	96	0	89	28	4	20	46	1.68
11854842--11854990	68	2.2	68	90	2	237	27	8	20	43	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11857455--11857560	15	7.1	15	74	12	56	41	2	2	52	1.30
11857508--11857560	5	10.6	5	95	0	97	37	0	1	60	1.08
11857631--11857669	4	9.5	4	83	5	51	74	0	25	0	0.82
11857637--11857668	17	1.9	17	93	6	57	81	0	18	0	0.70
11857636--11857678	21	2.0	21	90	0	68	74	0	25	0	0.82
11859274--11859333	9	6.7	9	83	7	77	46	21	6	25	1.75
11859273--11859341	9	7.7	9	82	6	68	47	20	5	26	1.72
11859273--11859333	18	3.4	18	82	8	88	47	21	6	24	1.74
11859427--11859474	18	2.7	18	100	0	96	10	0	50	39	1.37
11859426--11859450	13	1.9	13	100	0	50	12	0	48	40	1.40
11864287--11864328	17	2.4	17	84	15	50	71	2	26	0	0.98
11883024--11883088	33	2.0	33	93	0	112	21	9	33	35	1.85
11883034--11883108	33	2.3	31	80	13	87	25	9	30	34	1.87
11883096--11883148	27	2.0	27	96	0	97	30	11	24	33	1.90
11886265--11886303	20	2.0	20	94	0	69	48	0	2	48	1.15
11886324--11886401	33	2.4	32	81	12	88	47	20	6	25	1.74
11889252--11889376	63	2.0	63	93	0	214	33	23	16	27	1.95
11891117--11891298	3	60.3	3	72	14	101	63	2	3	30	1.24
11891172--11891260	35	2.8	29	74	22	79	64	1	4	30	1.21
11891117--11891288	23	7.7	22	73	16	113	63	2	4	30	1.25
11891746--11891799	25	2.2	25	93	0	90	14	3	25	55	1.56
11892043--11892606	132	4.3	131	85	4	759	25	24	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11892261--11892444	44	4.2	45	65	9	128	25	27	18	28	1.98
11892043--11892606	263	2.2	257	89	3	828	25	24	19	29	1.98
11892604--11892829	46	4.9	46	85	0	308	22	26	16	34	1.95
11892901--11892925	12	2.1	12	100	0	50	24	8	32	36	1.84
11899937--11900148	3	70.3	3	75	13	161	62	1	4	31	1.25
11899937--11900148	26	8.0	26	75	12	139	62	1	4	31	1.25
11899937--11900133	23	8.4	23	73	18	126	62	1	4	31	1.24
11900857--11900882	13	2.0	13	100	0	52	46	0	0	53	1.00
11901638--11901691	26	2.1	26	100	0	108	50	0	7	42	1.30
11905408--11905449	21	2.0	21	85	4	57	76	7	14	2	1.10

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