genome.fa.s20.2.7.7.80.10.50.1000.143.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  143  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)
47186302--47186341	20	1.9	22	90	10	66	42	0	5	52	1.23
47195300--47195326	2	13.5	2	100	0	54	48	0	51	0	1.00
47202352--47202387	18	1.9	18	88	5	54	75	0	5	19	1.00
47202534--47202584	21	2.5	21	87	3	68	35	3	0	60	1.15
47209785--47209833	25	2.0	25	83	0	62	32	6	6	55	1.49
47210198--47210269	29	2.5	29	88	4	101	26	31	15	26	1.95
47212176--47212254	37	2.1	37	86	9	108	24	31	18	25	1.98
47212373--47212676	47	6.5	47	89	0	419	28	29	9	32	1.89
47217306--47217380	6	12.2	6	76	16	64	76	0	2	21	0.92
47217306--47217380	19	4.1	18	71	19	64	76	0	2	21	0.92
47224822--47224881	28	2.2	26	77	11	66	26	26	11	35	1.91
47224829--47224907	28	2.8	28	84	0	104	29	24	11	35	1.90
47230136--47230250	58	2.0	58	92	0	194	35	14	17	32	1.90
47241942--47242091	27	5.6	27	83	3	158	29	28	15	27	1.96
47241942--47242090	81	1.8	81	86	2	219	29	28	15	26	1.96
47248850--47248947	6	18.2	5	74	17	74	75	1	5	18	1.04
47248855--47248945	20	4.4	20	80	10	96	75	1	5	17	1.05
47248873--47248939	26	2.7	25	81	6	73	77	1	5	14	1.03
47248855--47248947	35	2.5	37	84	13	111	75	1	5	18	1.05
47257143--47257200	28	2.1	28	100	0	116	32	0	20	46	1.51
47257147--47257208	28	2.2	28	94	0	106	35	0	22	41	1.54
47262774--47262823	25	2.0	25	96	0	91	20	38	12	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47264806--47264948	27	5.3	28	79	3	98	30	25	15	28	1.96
47267171--47267203	13	2.6	13	90	4	50	48	12	0	39	1.40
47267911--47268371	228	2.0	228	99	0	904	25	22	24	27	2.00
47270333--47270391	6	9.7	6	79	3	55	76	1	6	15	1.07
47270311--47270366	18	3.1	18	76	10	60	71	3	5	19	1.21
47273202--47273234	13	2.6	13	90	4	50	48	12	0	39	1.40
47274781--47274836	25	2.2	24	78	9	67	37	16	21	25	1.93
47278181--47278217	10	3.8	10	89	3	58	75	0	8	16	1.02
47278186--47278220	15	2.4	14	86	9	52	74	0	5	20	1.02
47291252--47291313	28	2.2	28	79	0	70	33	24	19	22	1.97
47291351--47291529	40	4.5	40	92	2	297	26	27	21	24	1.99
47291329--47291529	80	2.5	80	87	4	291	26	27	21	24	1.99
47297296--47297346	25	2.0	25	96	0	93	21	7	19	50	1.72
47298176--47298286	46	2.5	44	85	7	125	28	18	28	23	1.98
47300132--47300300	27	6.3	27	74	5	146	39	18	10	31	1.85
47300132--47300288	53	2.9	54	76	6	167	38	19	11	30	1.87
47300126--47300300	80	2.2	81	84	2	217	38	18	10	32	1.85
47300280--47300479	54	3.7	54	86	5	262	26	23	9	41	1.84
47300280--47300479	27	7.4	27	87	0	238	26	23	9	41	1.84
47300469--47300555	27	3.2	28	74	11	83	41	21	9	27	1.84
47300483--47300617	27	4.9	27	76	12	114	41	18	8	31	1.81
47300671--47300762	27	3.4	27	84	0	121	34	18	26	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47301563--47301805	26	9.3	26	83	3	294	26	21	23	28	1.99
47301563--47301792	53	4.4	53	88	2	331	25	22	23	28	1.99
47301563--47301805	52	4.7	52	87	3	330	26	21	23	28	1.99
47307413--47307601	43	4.4	44	86	5	244	33	19	15	31	1.93
47307415--47307601	86	2.2	86	89	3	279	33	19	15	31	1.93
47312105--47312233	46	2.8	46	90	0	195	29	28	21	20	1.98
47312114--47312252	46	3.0	45	84	6	129	28	28	21	20	1.98
47315774--47315828	16	3.7	16	74	18	64	56	14	18	10	1.67
47315763--47315828	28	2.3	28	94	2	114	57	12	19	10	1.63
47322138--47322178	19	2.2	19	100	0	82	39	4	9	46	1.58
47324555--47324606	25	2.1	25	86	10	72	26	1	1	69	1.10
47340217--47340272	26	2.2	26	90	0	85	41	17	21	19	1.91
47340232--47340294	26	2.5	26	84	7	76	41	20	22	15	1.90
47340308--47340352	23	2.0	23	90	0	72	44	31	15	8	1.77
47348017--47348055	21	1.9	20	84	5	51	43	12	7	35	1.72
47349612--47349659	24	2.0	25	87	4	71	39	18	20	20	1.92
47349612--47349689	25	3.2	26	82	8	83	41	23	17	17	1.91
47351178--47351216	18	2.2	18	90	0	60	23	23	7	46	1.78
47367820--47367936	62	1.9	60	81	6	137	36	5	8	49	1.56
47384709--47384886	40	4.5	40	88	3	227	25	28	23	22	1.99
47387133--47387277	40	3.6	40	85	4	184	23	25	24	26	2.00
47388466--47388541	38	2.0	38	97	0	143	32	23	11	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47409049--47409090	5	8.4	5	100	0	84	78	0	0	21	0.75
47409790--47410305	124	4.1	125	80	5	510	30	15	16	37	1.90
47410360--47410494	34	4.0	32	75	9	117	44	14	0	40	1.50
47411614--47413073	270	5.4	270	99	0	2861	40	8	5	45	1.58
47413681--47413728	26	1.9	25	84	16	64	50	0	8	41	1.33
47421200--47421300	24	4.2	24	85	0	130	40	3	34	20	1.71
47421200--47421264	12	5.4	12	70	7	51	38	1	40	20	1.62
47426178--47426258	33	2.4	34	77	8	85	28	19	23	28	1.98
47426184--47426270	32	2.7	32	77	13	79	26	20	26	26	1.99
47430643--47430682	21	1.9	21	89	0	62	45	2	17	35	1.62
47435496--47435551	26	2.3	24	77	19	62	44	3	0	51	1.18
47435501--47435555	24	2.1	26	83	12	69	45	3	0	50	1.19
47435550--47435595	18	2.6	18	78	0	56	47	0	2	50	1.13
47438371--47438465	41	2.3	41	88	0	145	44	2	7	46	1.43
47438572--47438611	22	1.9	20	90	10	62	30	0	7	62	1.23
47440615--47440870	43	6.0	43	83	2	309	31	26	15	27	1.96
47440615--47440873	129	2.0	129	90	0	410	31	25	15	27	1.96
47442261--47442301	17	2.4	17	88	8	57	24	21	31	21	1.98
47454015--47454178	40	4.1	40	94	1	267	24	29	23	23	1.99
47465814--47465983	40	4.3	40	89	0	225	26	27	21	24	1.99
47465814--47465960	79	1.9	80	89	1	233	27	27	20	25	1.99
47465812--47466036	80	2.8	79	82	3	245	26	27	20	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47465812--47466036	40	5.7	40	84	4	204	26	27	20	24	1.99
47465814--47466036	120	1.9	119	81	6	272	26	27	21	25	1.99
47465968--47466045	40	1.9	41	82	10	97	26	28	21	23	1.99
47466289--47466541	127	2.0	127	97	0	479	40	19	11	28	1.86
47474108--47474279	40	4.3	40	87	2	213	25	27	21	25	1.99
47482065--47482329	40	6.7	40	83	5	277	26	27	20	25	1.99
47482067--47482329	120	2.2	119	82	4	307	26	27	20	25	1.99
47482261--47482338	40	1.9	41	82	10	97	26	28	20	24	1.99
47484112--47484304	48	4.0	48	87	2	264	27	19	24	27	1.99
47490717--47491033	56	5.6	56	80	7	309	34	23	16	25	1.95
47490771--47491033	56	4.6	59	84	10	327	33	23	17	25	1.96
47493482--47493654	27	6.4	27	81	0	175	26	20	17	35	1.95
47493501--47493653	81	1.9	81	87	0	225	24	19	18	36	1.95
47499585--47499843	56	4.6	56	88	1	358	34	24	15	25	1.94
47500062--47500314	62	4.3	60	90	6	360	32	23	18	25	1.97
47500062--47500314	118	2.1	116	87	8	352	32	23	18	25	1.97
47500533--47500650	56	2.1	56	100	0	236	33	26	15	25	1.95
47511031--47511060	12	2.4	13	94	5	53	23	0	0	76	0.78
47517638--47517732	47	2.0	47	97	0	181	33	27	13	25	1.93
47527027--47527065	10	3.7	10	83	12	51	35	0	5	58	1.20
47529635--47529739	53	2.0	52	94	0	174	44	19	23	11	1.83
47532057--47532137	40	2.0	40	95	0	144	27	12	23	37	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47533482--47533659	27	6.6	27	83	3	205	26	15	28	29	1.96
47533483--47533638	82	1.9	81	88	3	233	26	15	28	29	1.96
47533479--47533659	82	2.2	81	83	2	229	27	15	27	29	1.96
47544260--47544315	21	2.7	21	94	0	94	16	33	25	25	1.95
47545712--47546614	29	31.2	29	99	0	1772	30	31	13	24	1.94
47546672--47546705	18	1.9	18	88	5	52	20	41	23	14	1.89
47549372--47549558	40	4.7	40	94	0	329	21	28	20	29	1.98
47549795--47549878	42	2.0	42	97	0	159	30	27	13	28	1.94
47552720--47552817	49	2.0	49	100	0	196	24	24	14	36	1.93
47553190--47553278	45	2.0	43	89	4	133	22	33	17	24	1.96

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