genome.fa.s20.2.7.7.80.10.50.1000.16.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_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   

This is table  16  of  186  ( 22216 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)
4914323--4914405	31	2.7	31	86	0	103	39	9	14	36	1.79
4915157--4915302	37	4.0	37	93	1	242	24	21	16	36	1.94
4915266--4915534	46	5.6	46	84	10	340	28	22	14	34	1.93
4915309--4915528	52	4.3	52	85	8	299	27	22	14	35	1.93
4915266--4915534	98	2.7	98	93	0	457	28	22	14	34	1.93
4924511--4924638	64	2.0	64	93	0	220	32	25	14	26	1.95
4926666--4926711	13	3.5	13	80	16	51	21	0	2	76	0.90
4926660--4926711	18	2.8	19	80	13	65	23	1	1	73	1.04
4929223--4929253	3	10.3	3	100	0	62	32	0	0	67	0.91
4933028--4933079	24	2.2	24	89	0	77	50	9	3	36	1.54
4938804--4938832	3	9.7	3	100	0	58	31	0	0	68	0.89
4939434--4939736	106	2.8	105	87	3	408	28	16	20	35	1.94
4951408--4952003	46	13.6	45	74	10	452	27	22	23	27	1.99
4951404--4951779	130	2.9	130	97	0	698	26	22	23	27	1.99
4951450--4952003	174	3.2	173	82	4	618	28	22	23	26	1.99
4953528--4953556	3	9.7	3	100	0	58	31	0	0	68	0.89
4954158--4954460	106	2.8	106	89	1	435	27	16	21	35	1.94
4955259--4955334	23	3.3	23	94	0	134	25	21	25	28	1.99
4959588--4959626	19	2.1	18	85	9	51	5	25	2	66	1.25
4962564--4962611	22	2.2	22	88	0	69	31	31	10	27	1.90
4962905--4962956	24	2.2	24	89	0	77	50	9	3	36	1.54
4970480--4970517	17	2.2	18	86	13	53	65	2	2	28	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4986346--4986382	14	2.4	16	91	8	60	70	0	2	27	1.01
4986366--4986402	19	1.9	20	88	5	58	67	0	2	29	1.04
4986351--4986392	14	2.9	15	77	22	54	69	0	4	26	1.08
4988317--4988341	8	3.1	8	100	0	50	12	52	12	24	1.72
4992557--4992658	51	2.0	51	94	0	177	37	14	31	16	1.89
5001830--5002124	87	3.3	87	76	6	315	29	20	23	27	1.99
5001743--5002158	177	2.4	178	85	4	540	29	19	22	28	1.98
5001609--5002563	44	21.9	44	73	11	533	30	19	22	27	1.98
5001556--5002570	395	2.6	395	89	3	1503	30	19	22	27	1.98
5002582--5002690	46	2.4	46	81	3	130	22	21	23	32	1.98
5002764--5002876	41	2.8	40	93	2	190	29	23	21	26	1.99
5003246--5003270	8	3.1	8	100	0	50	12	52	12	24	1.72
5006679--5006726	25	1.9	25	82	0	60	68	4	8	18	1.31
5007259--5007295	19	1.9	19	88	0	56	35	2	0	62	1.10
5009858--5009890	17	1.9	17	100	0	66	60	0	27	12	1.32
5021918--5021993	6	12.7	6	77	13	50	18	1	6	73	1.11
5025322--5025347	13	2.0	13	100	0	52	15	7	23	53	1.67
5025778--5025839	30	2.1	30	100	0	124	51	25	3	19	1.62
5026224--5026269	22	2.1	22	91	0	74	50	8	4	36	1.53
5032535--5032582	24	2.0	24	88	8	71	27	0	2	70	0.98
5050043--5050119	41	1.9	40	83	2	100	49	25	0	24	1.51
5050991--5051070	29	2.8	28	87	12	101	61	1	1	36	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5051306--5051358	26	2.0	28	85	7	74	39	0	1	58	1.09
5051397--5051576	88	2.0	88	89	2	272	34	7	19	38	1.81
5051407--5051624	88	2.5	87	81	5	253	30	8	18	42	1.80
5051719--5051757	19	2.0	20	85	14	55	53	2	5	38	1.37
5053198--5053278	36	2.2	36	91	0	126	33	6	7	53	1.54
5059905--5059939	4	8.8	4	93	0	61	48	22	0	28	1.51
5073913--5073937	13	1.9	13	100	0	50	60	8	8	24	1.52
5074107--5074172	33	2.0	33	84	0	87	46	24	18	10	1.80
5074444--5074493	24	2.1	24	100	0	100	34	38	8	20	1.82
5075903--5075932	6	5.0	6	100	0	60	66	0	0	33	0.92
5076565--5076601	19	1.9	19	88	0	56	62	0	8	29	1.24
5076945--5077009	27	2.4	28	92	2	105	40	10	0	49	1.38
5077049--5077116	27	2.5	27	87	0	91	30	22	30	16	1.95
5077058--5077119	27	2.3	27	91	0	97	29	19	35	16	1.93
5078297--5078423	28	4.5	28	89	0	182	30	11	26	30	1.92
5079169--5079534	23	15.6	22	72	16	215	27	13	17	41	1.86
5079169--5079540	70	5.3	66	70	16	234	27	12	17	41	1.86
5079162--5079544	93	4.1	93	91	1	631	27	12	17	42	1.86
5079996--5080260	19	15.1	18	67	18	114	40	8	3	47	1.51
5080004--5080091	18	4.7	19	80	4	99	37	11	0	51	1.38
5079996--5080091	37	2.6	37	96	0	183	38	10	0	51	1.37
5080183--5080246	18	3.5	18	82	4	92	40	12	0	46	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5080167--5080260	37	2.5	37	96	0	170	36	11	2	50	1.51
5079988--5080326	171	2.0	173	94	1	592	43	7	3	46	1.48
5080300--5080467	37	4.5	37	96	0	300	51	0	10	37	1.41
5080300--5080467	18	9.1	19	78	7	175	51	0	10	37	1.41
5081019--5081077	27	2.2	27	87	0	82	15	28	25	30	1.96
5081127--5081186	25	2.3	27	91	8	97	50	0	8	41	1.33
5083074--5083210	43	3.2	43	84	2	168	20	31	28	19	1.97
5088525--5088585	31	2.0	31	90	0	95	27	14	21	36	1.93
5110167--5110206	21	1.9	21	90	10	64	22	60	0	17	1.37
5113441--5113513	24	3.0	24	85	0	110	13	46	4	35	1.63
5114314--5114338	8	3.1	8	100	0	50	0	16	24	60	1.36
5116308--5116374	34	1.9	35	84	3	91	43	13	10	32	1.78
5121570--5121599	15	1.9	16	93	6	53	33	0	0	66	0.92
5123799--5123850	22	2.3	23	80	12	63	53	1	0	44	1.11
5128188--5128241	16	3.4	16	86	0	63	31	0	31	37	1.58
5128220--5128314	45	2.1	44	86	1	127	34	5	26	33	1.79
5128476--5128510	18	2.0	17	88	5	52	54	0	0	45	0.99
5128434--5128506	27	2.7	27	76	8	76	52	2	0	45	1.15
5128623--5128657	18	2.0	17	88	5	52	54	0	0	45	0.99
5128395--5128669	147	1.9	149	95	1	500	46	3	2	47	1.35
5128725--5128777	16	3.4	17	73	21	53	56	0	0	43	0.99
5128651--5128837	60	3.1	59	66	13	157	49	6	2	41	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5128603--5128897	119	2.5	120	93	2	495	50	4	2	43	1.35
5132776--5132837	27	2.4	25	79	12	72	27	3	0	69	1.04
5133647--5133680	15	2.3	15	89	0	50	26	14	0	58	1.36
5142364--5142440	31	2.6	29	72	13	68	32	5	6	55	1.47
5143639--5143672	15	2.3	15	89	0	50	26	14	0	58	1.36
5144093--5144148	27	2.1	28	83	12	73	58	0	3	37	1.15
5149705--5149730	7	3.7	7	100	0	52	84	0	0	15	0.62
5149910--5149950	21	1.9	21	85	14	57	48	4	4	41	1.46
5151159--5151197	20	1.9	21	89	5	62	30	0	2	66	1.05
5151159--5151201	21	2.0	21	86	8	61	30	0	2	67	1.03
5151164--5151208	20	2.2	20	84	0	54	28	2	4	64	1.25
5152554--5152582	2	14.5	2	100	0	58	48	0	0	51	1.00
5159677--5159720	21	2.1	21	91	0	70	29	20	29	20	1.98
5165926--5167499	831	1.9	829	97	0	2995	36	16	15	31	1.91
5168697--5168920	112	2.0	112	99	0	439	28	15	23	33	1.95
5170116--5170350	117	2.0	118	99	0	463	40	4	7	47	1.52
5170487--5170672	93	2.0	93	96	0	345	30	18	12	39	1.87
5176292--5176325	15	2.3	15	89	0	50	26	14	0	58	1.36
5176746--5176801	27	2.1	28	83	12	73	58	0	3	37	1.15
5181281--5181312	16	1.9	17	93	6	57	46	6	9	37	1.61
5194501--5194563	29	2.2	29	83	11	76	55	1	3	39	1.25
5194587--5194644	22	2.7	21	78	19	57	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5194587--5194642	23	2.5	21	77	11	58	62	0	0	37	0.95
5213896--5213973	18	4.3	17	74	11	57	61	3	1	33	1.22
5214097--5214123	12	2.2	12	100	0	54	59	0	0	40	0.98
5221945--5221997	23	2.4	22	76	20	56	9	18	1	69	1.25
5230282--5230338	30	1.9	30	88	0	87	17	31	33	17	1.93
5232039--5232075	19	1.9	19	88	0	56	40	5	0	54	1.24
5234006--5234051	3	15.3	3	86	8	67	32	4	0	63	1.14
5238186--5238252	34	2.0	33	88	2	98	73	7	11	7	1.26
5238258--5238300	6	7.3	6	80	15	54	79	0	20	0	0.74
5238187--5238300	18	6.3	17	69	19	63	75	4	14	5	1.14

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   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186