genome.fa.s23.2.7.7.80.10.50.1000.14.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228   

This is table  14  of  228  ( 27298 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)
5006329--5006395	15	4.4	16	79	9	68	59	1	7	31	1.34
5013653--5013702	25	2.0	26	84	4	66	38	2	4	56	1.30
5013922--5013985	20	3.2	20	69	8	58	45	6	1	46	1.37
5014045--5014088	24	1.9	23	86	9	63	61	2	6	29	1.34
5015330--5015362	12	2.9	12	86	13	52	75	9	6	9	1.18
5017505--5017529	12	2.1	12	100	0	50	64	8	8	20	1.46
5017989--5018047	21	2.8	21	78	0	64	15	27	16	40	1.89
5021893--5021928	18	2.1	18	94	5	65	41	16	19	22	1.90
5041792--5041853	30	2.1	30	100	0	124	48	16	3	32	1.62
5047375--5047428	18	2.9	18	75	2	54	59	0	1	38	1.08
5047614--5047643	3	10.0	3	100	0	60	66	0	0	33	0.92
5050802--5050925	45	2.8	44	81	3	149	39	8	24	27	1.85
5050948--5051222	27	10.2	27	78	0	190	40	16	21	22	1.91
5050943--5051202	54	4.8	54	81	0	223	41	15	20	21	1.89
5057861--5057921	30	2.0	30	87	6	88	3	36	16	44	1.64
5061039--5061086	13	3.7	13	94	0	87	39	27	8	25	1.84
5070653--5070706	20	2.7	20	88	0	81	27	27	12	31	1.93
5071040--5071233	45	4.3	45	91	0	289	41	15	18	24	1.89
5072640--5072701	31	2.0	31	100	0	124	22	12	32	32	1.92
5072906--5072963	30	1.9	30	92	0	98	55	13	5	25	1.59
5076295--5076365	30	2.4	29	80	2	79	30	2	12	53	1.53
5076474--5076532	31	1.9	31	83	13	77	37	8	16	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5078658--5078818	50	3.1	50	81	9	164	29	19	28	22	1.98
5078658--5078844	50	3.7	50	78	7	162	30	20	26	22	1.98
5080930--5081015	38	2.2	39	85	6	120	34	26	13	24	1.93
5080930--5081056	39	3.3	38	83	3	128	33	25	14	26	1.94
5080969--5081089	39	3.1	39	85	1	145	35	19	12	33	1.89
5095742--5097091	454	3.0	454	99	0	2673	39	17	13	29	1.87
5099851--5099901	13	3.9	13	81	0	66	31	7	25	35	1.85
5100390--5100414	13	1.9	13	100	0	50	48	12	8	32	1.69
5101536--5101603	16	4.2	16	96	0	118	27	0	36	35	1.58
5101584--5101678	45	2.1	44	88	1	136	34	5	27	32	1.79
5101816--5101870	25	2.2	25	84	9	69	52	1	0	45	1.11
5102001--5102161	47	3.6	46	69	18	140	48	3	3	45	1.34
5106073--5106102	13	2.3	13	94	0	51	90	0	10	0	0.47
5106072--5106109	10	3.7	10	89	10	51	86	0	10	2	0.66
5114240--5114281	16	2.7	16	79	17	52	73	0	0	26	0.83
5114251--5114284	17	1.9	17	88	5	50	73	0	0	26	0.83
5116612--5116668	24	2.4	24	80	11	64	75	5	0	19	0.99
5118672--5118718	22	2.1	22	88	4	67	80	4	0	14	0.85
5125317--5125373	21	2.5	24	77	11	57	61	5	3	29	1.35
5125429--5125475	18	2.6	18	80	13	51	46	0	2	51	1.13
5125502--5125526	11	2.3	11	100	0	50	32	0	0	68	0.90
5125607--5125647	12	3.3	12	93	3	64	24	0	2	73	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5132743--5132786	22	2.0	22	86	8	63	68	4	0	27	1.09
5137896--5137945	18	2.8	18	81	0	64	40	46	2	12	1.52
5138086--5138161	9	8.4	9	73	5	64	30	6	18	44	1.75
5138092--5138162	18	3.9	18	75	12	74	29	5	18	46	1.72
5138080--5138162	27	3.0	27	80	1	94	28	7	18	45	1.75
5140247--5140317	5	13.4	5	77	14	63	22	1	1	74	0.97
5140443--5140510	12	5.8	11	75	13	55	11	4	4	79	1.02
5145148--5145228	10	8.4	10	75	15	64	58	2	3	35	1.29
5145193--5145245	18	3.1	17	81	8	63	64	0	0	35	0.94
5145184--5145245	10	6.8	9	75	14	56	61	0	1	37	1.06
5145329--5145389	9	6.6	9	72	7	50	67	4	0	27	1.11
5145308--5145400	19	4.9	18	71	13	53	66	4	3	25	1.25
5145751--5145809	21	2.8	20	87	10	75	37	3	1	57	1.25
5145758--5145848	10	9.1	10	70	21	57	35	2	2	60	1.21
5145769--5145848	30	2.7	30	86	5	110	36	1	2	60	1.18
5145751--5145847	20	4.8	20	78	13	76	36	3	2	58	1.25
5145825--5145895	30	2.4	29	86	11	92	26	8	2	61	1.38
5160193--5160239	14	3.4	14	77	11	51	23	0	6	70	1.10
5160675--5161016	19	16.7	19	66	26	127	32	0	14	53	1.44
5160762--5161016	27	10.0	27	63	25	108	31	0	14	53	1.45
5160903--5161064	19	8.1	20	71	20	108	31	0	15	52	1.47
5160933--5161042	8	12.4	8	69	19	58	34	0	15	49	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5161057--5161178	60	2.0	60	87	3	174	31	0	13	54	1.46
5161211--5161289	37	2.2	37	90	2	124	55	1	1	41	1.16
5161326--5161367	16	2.7	15	85	7	57	38	2	2	57	1.25
5161498--5161663	27	7.2	21	75	19	95	53	14	0	31	1.45
5161525--5161633	8	12.4	8	68	21	58	49	15	0	33	1.51
5161551--5161664	19	6.1	19	71	19	89	53	13	0	33	1.40
5161551--5161633	27	3.1	27	92	1	141	51	13	0	34	1.41
5161604--5161671	19	3.5	20	83	15	81	55	13	0	30	1.38
5161551--5161689	67	2.0	71	80	14	157	55	13	0	30	1.39
5162685--5162754	25	2.7	27	75	16	76	57	7	5	30	1.49
5162667--5162754	29	3.0	29	71	18	74	55	7	5	30	1.52
5164005--5164037	17	1.9	17	88	11	50	57	3	0	39	1.14
5166426--5166536	23	5.0	23	89	3	129	37	23	20	18	1.94
5166426--5166537	46	2.5	43	81	9	143	37	23	20	18	1.94
5170484--5170623	45	3.0	46	82	4	176	50	17	5	26	1.66
5172013--5172136	37	3.2	40	74	12	130	33	25	16	24	1.96
5173295--5173343	24	2.0	24	100	0	98	12	42	8	36	1.72
5176127--5176225	51	2.0	51	94	6	175	45	17	8	29	1.77
5176176--5176284	33	3.3	34	82	11	111	43	16	8	32	1.78
5179631--5179900	137	2.0	135	88	2	398	47	4	4	44	1.42
5179679--5179891	67	3.2	66	64	19	150	46	3	3	45	1.38
5179783--5179817	18	2.0	17	88	5	52	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5179669--5179883	70	3.1	69	66	18	167	46	3	4	46	1.40
5179833--5180046	50	4.2	51	62	20	122	46	5	3	44	1.43
5179668--5180086	156	2.9	145	84	8	473	46	5	3	43	1.45
5179759--5180086	156	2.1	156	95	0	602	46	6	3	42	1.46
5179929--5179987	18	3.3	18	75	20	54	47	0	3	49	1.18
5180139--5180229	45	2.0	45	85	2	121	38	27	6	27	1.81
5180210--5180277	16	4.2	16	96	0	127	39	35	0	25	1.56
5183553--5183597	18	2.4	19	92	3	74	37	13	0	48	1.42
5189206--5189283	19	3.8	19	72	18	59	60	1	1	37	1.13
5189216--5189263	23	2.1	23	84	7	62	64	0	0	35	0.94
5189256--5189300	19	2.4	19	84	0	54	62	4	4	28	1.34
5189845--5189896	24	2.2	23	86	10	70	30	3	1	63	1.23
5197745--5197840	47	2.0	47	97	0	183	45	13	4	36	1.63
5197745--5197819	24	3.2	24	60	17	57	45	13	4	37	1.62
5200064--5200146	33	2.4	36	76	10	82	54	4	4	36	1.43
5200078--5200173	29	3.1	29	73	20	88	58	4	3	34	1.33
5200065--5200143	35	2.3	35	82	4	90	54	5	3	36	1.41
5200313--5200356	17	2.6	17	85	3	63	47	0	11	40	1.39
5202611--5202682	20	3.7	20	88	7	103	34	0	5	59	1.21
5206983--5207009	12	2.2	12	100	0	54	18	7	29	44	1.77
5212636--5212673	18	2.1	18	90	0	58	44	34	13	7	1.72
5212633--5212685	27	2.0	27	85	7	72	43	33	13	9	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5212609--5212673	15	4.1	15	73	11	58	43	36	15	4	1.67
5217058--5217195	68	2.0	67	95	1	249	43	7	6	42	1.60
5223518--5223551	16	2.1	16	88	0	50	50	14	17	17	1.79
5226351--5226391	21	2.0	21	90	0	64	29	21	29	19	1.98
5228295--5228328	16	2.1	16	88	0	50	50	14	17	17	1.79
5234092--5234152	3	20.3	3	86	0	77	31	4	1	62	1.26
5239368--5239451	30	2.9	28	76	13	80	60	1	7	30	1.31
5244733--5244811	11	7.3	10	77	14	68	25	2	1	70	1.07
5244738--5244817	3	28.7	3	77	16	75	26	2	1	70	1.08
5244787--5244825	17	2.3	17	86	0	60	35	0	0	64	0.94

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   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   227   228