genome.fa.s23.2.7.7.80.10.50.1000.37.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  37  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)
11377706--11377748	23	1.9	22	85	4	59	48	30	6	13	1.69
11383812--11383921	54	2.0	54	96	0	202	33	30	11	24	1.91
11385690--11385723	17	1.9	18	88	5	52	38	5	5	50	1.51
11385743--11385967	126	1.8	124	87	6	339	46	7	4	41	1.51
11397029--11397071	23	1.9	22	85	4	59	48	27	6	16	1.71
11400595--11400685	21	4.0	21	69	11	65	46	24	2	27	1.64
11400864--11400893	14	2.1	14	93	0	51	46	0	6	46	1.29
11401412--11401568	75	2.1	72	81	10	176	33	19	15	32	1.93
11401432--11401568	74	1.9	72	83	8	179	31	17	16	34	1.93
11401350--11401816	187	2.5	187	91	0	763	34	18	16	30	1.93
11401350--11401869	187	2.8	184	85	5	704	33	18	16	31	1.93
11402884--11403104	27	8.2	27	80	7	157	39	21	9	29	1.84
11402884--11403068	54	3.4	54	78	6	189	39	21	9	29	1.85
11403017--11403115	27	3.7	26	76	10	83	40	23	7	29	1.81
11403100--11403212	27	4.2	27	91	2	174	35	16	20	27	1.94
11403107--11403240	27	5.0	26	85	8	162	33	19	22	24	1.97
11403805--11403912	27	4.0	26	86	5	135	19	23	21	36	1.95
11404030--11404108	6	12.8	6	72	15	63	18	20	12	48	1.81
11404033--11404096	25	2.6	25	92	0	101	18	21	14	45	1.85
11404130--11404195	35	2.0	33	82	11	82	25	19	25	28	1.99
11407980--11408177	64	3.1	64	98	0	387	38	12	3	45	1.59
11408225--11408295	24	3.0	24	91	0	115	28	16	8	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11408469--11408542	29	2.6	29	93	0	121	44	1	1	52	1.17
11408469--11408553	15	5.8	15	72	25	83	43	1	1	54	1.15
11408666--11409165	9	56.4	9	81	3	541	48	11	2	37	1.53
11408666--11409130	53	8.9	54	82	7	498	47	11	2	37	1.54
11408666--11409165	62	8.1	62	85	8	633	48	11	2	37	1.53
11414799--11414877	21	3.8	21	89	0	122	27	18	50	2	1.60
11415262--11415358	43	2.3	43	92	3	160	27	28	19	23	1.98
11415262--11415390	43	3.0	43	87	4	154	29	27	19	23	1.98
11424655--11424701	24	2.0	24	95	0	85	44	17	25	12	1.84
11441691--11441747	30	1.9	30	85	7	80	22	28	26	22	1.99
11444047--11444094	20	2.4	20	96	0	87	22	18	29	29	1.98
11445211--11445260	25	2.1	23	82	14	57	68	8	8	16	1.38
11469129--11469244	59	2.0	59	91	0	187	31	12	25	30	1.93
11475039--11475087	19	2.6	18	75	9	53	63	2	4	30	1.24
11475036--11475135	38	2.6	36	80	16	105	64	1	3	32	1.16
11475082--11475123	16	2.5	17	88	7	59	64	0	2	33	1.07
11475077--11475145	13	4.8	15	73	20	67	63	0	2	33	1.09
11475258--11475296	10	3.9	10	80	12	53	66	0	0	33	0.92
11488316--11488809	44	11.2	44	90	0	727	30	14	26	28	1.95
11490447--11490503	14	4.2	13	82	10	53	33	7	1	57	1.36
11490449--11490514	15	4.6	15	78	16	68	30	6	3	60	1.36
11490479--11490551	3	23.3	3	74	18	60	32	2	1	63	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11490480--11490548	21	3.3	21	81	4	77	33	2	1	62	1.19
11491467--11491793	80	4.1	80	98	0	609	31	10	14	43	1.79
11491672--11491793	40	3.1	37	64	24	97	32	9	13	44	1.76
11499674--11499725	21	2.4	22	81	12	63	40	3	0	55	1.18
11500802--11500853	20	2.8	19	82	8	63	53	0	1	44	1.11
11514128--11514201	31	2.4	31	93	0	121	13	28	35	22	1.92
11519401--11519454	27	2.0	27	100	0	108	51	25	0	22	1.48
11530700--11530743	6	7.2	6	87	10	54	18	0	11	70	1.16
11534531--11534903	74	5.0	73	80	13	424	58	15	2	24	1.49
11534531--11534908	112	3.4	112	99	0	747	58	14	2	24	1.49
11542183--11542215	16	2.1	16	94	0	57	18	21	12	48	1.80
11557641--11557702	23	2.8	22	75	15	65	70	0	17	11	1.15
11559897--11559923	6	4.5	6	100	0	54	14	33	33	18	1.92
11560982--11561079	19	5.2	19	90	7	155	36	10	16	36	1.82
11560972--11561079	36	2.9	35	75	20	103	37	10	15	37	1.82
11564190--11564222	2	17.0	2	93	6	59	51	0	48	0	1.00
11567464--11567682	88	2.5	88	98	0	420	30	19	24	25	1.98
11567552--11567814	132	2.0	132	95	0	472	30	17	24	26	1.97
11567459--11567902	220	2.0	220	95	0	789	31	18	23	26	1.97
11567573--11567895	132	2.5	131	83	4	375	32	18	23	26	1.97
11567684--11567992	88	3.5	88	97	0	564	32	18	22	26	1.97
11567982--11568565	206	2.8	206	95	0	1033	31	17	21	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11568369--11568901	267	2.0	267	95	0	967	31	17	23	27	1.97
11569220--11569427	19	11.2	19	89	7	329	36	10	15	37	1.82
11569220--11569427	36	5.6	36	88	7	239	36	10	15	37	1.82
11569220--11569427	55	3.7	55	98	1	398	36	10	15	37	1.82
11571921--11571963	21	2.0	21	100	0	86	46	4	4	44	1.45
11573316--11573376	28	2.2	28	97	2	115	44	6	14	34	1.72
11574679--11574730	3	17.3	3	87	0	77	63	3	1	30	1.23
11576791--11576847	29	1.9	30	85	3	80	28	1	15	54	1.52
11577847--11577898	18	2.7	18	79	8	50	32	5	0	61	1.20
11578382--11578427	14	3.5	13	82	11	58	52	4	2	41	1.33
11587826--11587891	4	16.8	4	71	20	50	21	3	3	72	1.11
11587842--11587914	22	3.4	22	77	9	78	20	5	4	69	1.25
11587825--11587918	43	2.2	44	90	3	147	21	4	3	71	1.18
11590941--11590995	27	2.0	27	100	0	110	43	7	23	25	1.79
11591626--11591659	16	2.1	16	89	10	52	76	2	11	8	1.12
11593962--11594033	35	2.1	35	100	0	144	43	11	16	29	1.82
11598842--11598951	50	2.2	50	85	6	143	28	13	26	31	1.94
11606619--11606648	5	6.2	5	92	7	53	0	60	40	0	0.97
11607960--11608033	32	2.3	32	83	0	94	22	17	28	31	1.97
11608230--11608283	23	2.4	22	72	9	54	31	5	1	61	1.30
11608858--11608909	26	2.0	26	100	0	104	38	15	15	30	1.88
11611142--11611192	21	2.4	21	81	12	61	64	1	0	33	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11613730--11613790	26	2.3	26	82	0	68	27	18	13	40	1.87
11613839--11613895	26	2.2	26	81	6	71	17	22	19	40	1.91
11614854--11615111	36	7.2	34	96	3	383	38	10	14	35	1.82
11614860--11615112	72	3.5	72	98	1	488	38	11	14	35	1.81
11614860--11615112	108	2.3	108	98	1	488	38	11	14	35	1.81
11614854--11615112	19	14.1	21	89	10	252	38	10	14	35	1.81
11615323--11615417	48	2.0	49	95	2	174	14	16	4	64	1.44
11617783--11617815	2	17.0	2	87	6	50	48	0	51	0	1.00
11617959--11618001	2	22.0	2	85	4	61	55	0	44	0	0.99
11617706--11618076	186	2.0	187	97	1	708	39	14	24	22	1.91
11620523--11620569	21	2.3	21	92	3	78	89	0	8	2	0.57
11620523--11620569	22	2.2	21	88	11	69	89	0	8	2	0.57
11620523--11620569	17	2.8	16	81	15	51	89	0	8	2	0.57
11621525--11622291	44	17.5	43	71	16	375	28	15	26	29	1.96
11621520--11621870	132	2.7	130	88	4	517	28	15	26	29	1.96
11621656--11622266	176	3.5	176	91	0	947	29	15	26	29	1.96
11621525--11622310	132	6.0	132	75	11	446	29	15	25	29	1.96
11622457--11622643	44	4.2	44	73	13	159	29	17	24	27	1.97
11622363--11622641	134	2.1	134	91	0	450	31	17	23	27	1.97
11622491--11622582	46	2.0	47	82	2	114	32	19	23	23	1.97
11622714--11622859	45	3.3	45	84	1	177	33	13	27	25	1.94
11623212--11623328	19	6.2	19	91	6	184	38	9	15	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11623212--11623328	36	3.1	38	90	7	184	38	9	15	36	1.80
11623218--11623328	55	2.0	56	92	3	188	38	9	14	36	1.79
11625733--11625771	18	2.2	17	86	13	53	33	0	20	46	1.51
11625997--11626094	23	4.3	23	90	2	162	20	21	26	31	1.98
11625999--11626087	45	2.0	45	95	0	160	19	22	26	31	1.97
11634356--11634439	42	2.0	42	100	0	168	45	16	19	19	1.86
11635691--11635736	3	15.3	3	100	0	92	67	0	32	0	0.91
11636438--11636486	25	1.9	26	84	12	66	51	8	4	36	1.51
11638885--11638933	17	3.2	16	77	13	50	42	2	0	55	1.11
11641580--11641625	9	5.2	9	78	5	58	58	0	0	41	0.98

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