genome.fa.s4.2.7.7.80.10.50.1000.155.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255   

This is table  155  of  255  ( 30512 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)
50425470--50425537	21	3.4	20	78	12	68	36	10	29	23	1.88
50425480--50425529	18	2.7	18	87	3	64	40	8	32	20	1.81
50426048--50426102	16	3.4	16	85	5	67	36	9	23	30	1.86
50426084--50426177	44	2.1	46	90	7	149	31	5	27	35	1.79
50426373--50426403	12	2.6	12	94	0	53	51	6	3	38	1.44
50426398--50426447	13	3.8	13	75	17	50	52	0	2	46	1.12
50433679--50434083	47	8.6	47	94	1	675	28	29	8	33	1.86
50433729--50433807	25	3.3	25	66	16	76	31	29	5	34	1.79
50433679--50434083	190	2.1	188	94	0	711	28	29	8	33	1.86
50438091--50438603	40	13.0	40	88	5	701	26	28	21	23	1.99
50438091--50438603	80	6.5	80	90	3	790	26	28	21	23	1.99
50438091--50438603	120	4.3	120	90	2	806	26	28	21	23	1.99
50438492--50438557	22	3.2	22	61	22	52	21	30	24	24	1.99
50440019--50440233	47	4.6	47	94	0	340	28	30	7	33	1.86
50440069--50440147	25	3.3	25	66	16	76	31	29	5	34	1.79
50447473--50447522	23	2.2	23	86	13	68	42	20	14	24	1.88
50447558--50447697	27	5.2	27	79	4	122	17	20	20	41	1.91
50447574--50447697	27	4.6	27	81	3	135	17	18	22	41	1.91
50447691--50448004	27	11.8	27	89	2	402	35	14	16	33	1.89
50447723--50447990	104	2.5	106	87	4	369	35	14	16	33	1.89
50449135--50449187	24	2.2	24	80	6	63	18	50	0	30	1.47
50449775--50449907	48	2.8	48	81	4	151	32	15	15	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50453100--50453131	3	10.7	3	93	0	55	65	3	0	31	1.08
50453404--50453470	25	2.6	25	80	4	71	49	0	2	47	1.16
50457603--50457644	22	1.9	22	90	0	66	21	16	45	16	1.86
50458684--50458715	3	10.7	3	100	0	64	31	0	0	68	0.90
50459108--50459171	27	2.4	27	94	0	110	42	9	12	35	1.75
50459988--50460084	21	4.7	20	72	20	58	37	10	3	49	1.53
50461078--50461222	42	3.5	42	84	3	175	42	23	15	18	1.88
50461078--50461252	42	4.2	42	85	2	172	40	24	15	19	1.90
50462967--50462991	13	1.9	13	100	0	50	24	20	8	48	1.76
50468089--50468113	12	2.1	12	100	0	50	84	0	16	0	0.63
50469193--50469454	39	6.7	40	87	7	337	25	22	27	24	2.00
50490046--50490946	207	4.4	207	93	0	1554	31	19	21	27	1.97
50493747--50494074	174	1.9	174	98	0	638	31	24	14	30	1.94
50494034--50494105	29	2.5	30	82	13	96	30	29	12	27	1.93
50509223--50509252	14	2.1	14	93	0	51	30	13	16	40	1.87
50534859--50534883	13	1.9	13	100	0	50	48	8	20	24	1.76
50536337--50536369	16	2.0	17	94	5	59	42	12	9	36	1.74
50536606--50536840	50	4.7	50	84	3	296	30	22	17	30	1.96
50546747--50546922	46	3.8	46	78	10	196	21	21	28	28	1.98
50546744--50546913	93	1.8	93	93	0	295	21	21	28	27	1.99
50549339--50549432	25	3.8	25	81	0	107	29	21	22	26	1.99
50551536--50551580	23	2.0	23	90	0	72	35	28	24	11	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50563176--50563201	12	2.2	12	100	0	52	15	30	30	23	1.95
50565445--50565548	40	2.6	40	78	4	111	24	27	19	28	1.98
50565526--50565696	43	4.0	43	81	7	161	24	28	21	25	1.99
50565527--50565690	86	1.9	85	80	8	190	23	29	21	25	1.99
50566797--50566864	29	2.4	28	81	13	77	39	22	0	38	1.54
50575538--50575592	18	3.1	19	79	10	71	45	12	20	21	1.84
50575917--50576196	27	10.4	27	82	3	296	37	19	16	26	1.92
50575915--50576184	81	3.3	81	88	2	391	38	19	15	27	1.92
50579367--50579478	39	2.9	39	94	0	197	27	21	29	21	1.98
50581217--50581439	39	5.7	40	82	8	239	26	21	26	25	2.00
50581217--50581445	79	2.9	81	82	9	258	27	21	26	24	1.99
50585082--50585109	6	4.7	6	100	0	56	85	0	0	14	0.59
50590620--50590649	15	2.1	14	93	6	51	83	10	0	6	0.81
50594900--50595051	43	3.6	40	77	7	115	23	18	26	30	1.98
50594945--50595051	42	2.5	42	77	7	117	24	18	25	31	1.98
50604634--50604811	27	6.6	27	82	3	196	26	15	28	30	1.96
50604635--50604790	82	1.9	81	86	3	224	26	15	28	30	1.96
50604631--50604811	82	2.2	81	82	2	220	26	15	27	30	1.96
50614482--50614516	17	2.1	17	100	0	70	54	0	17	28	1.43
50629507--50629643	40	3.5	40	91	3	224	21	23	30	24	1.99
50629870--50629913	22	2.0	22	82	8	54	31	11	13	43	1.80
50637560--50637736	40	4.4	40	91	2	286	21	22	30	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50637963--50638006	22	2.0	22	82	8	54	31	11	13	43	1.80
50649276--50649376	51	2.0	51	96	0	184	31	23	23	20	1.98
50652181--50652218	20	2.0	18	90	10	58	55	0	39	5	1.23
50659411--50659584	87	2.0	87	91	0	285	45	12	22	19	1.84
50672290--50672417	46	2.7	48	82	4	179	22	31	21	25	1.98
50672293--50672468	47	3.7	46	73	18	148	22	30	20	26	1.98
50672290--50672465	94	1.9	94	86	4	257	23	30	19	26	1.98
50682609--50682651	23	1.9	22	95	0	68	34	23	23	18	1.96
50688569--50688605	17	2.2	17	95	0	65	32	8	0	59	1.27
50695519--50695556	12	3.2	12	85	3	51	78	0	21	0	0.74
50695559--50695614	6	9.2	6	98	2	103	33	16	0	50	1.45
50696170--50696228	29	2.0	30	83	9	77	49	15	6	28	1.70
50696669--50696704	13	2.9	12	92	8	63	33	0	0	66	0.92
50697356--50697399	18	2.4	18	80	0	52	31	9	15	43	1.79
50700218--50700356	37	3.8	37	94	0	233	25	31	19	23	1.98
50700475--50700793	47	6.7	47	92	1	521	29	29	8	32	1.86
50700475--50700793	143	2.2	141	92	1	521	29	29	8	32	1.86
50700535--50700814	96	3.0	90	89	6	307	32	27	7	32	1.85
50702651--50702770	56	2.1	56	98	0	231	22	23	9	45	1.81
50705384--50705419	13	2.8	13	100	0	72	33	36	22	8	1.84
50708308--50708336	5	5.8	5	100	0	58	79	0	0	20	0.74
50715353--50715395	20	2.2	20	87	8	61	39	11	0	48	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50732293--50732401	53	2.1	53	100	0	218	42	12	19	25	1.87
50740476--50740515	19	2.1	19	100	0	80	20	30	10	40	1.85
50744202--50744339	43	3.2	42	76	12	129	35	21	14	28	1.93
50747032--50747127	20	4.8	19	81	7	86	41	22	26	9	1.84
50747029--50747127	40	2.5	40	80	9	121	42	22	26	9	1.83
50752411--50752598	38	5.0	38	78	6	168	38	17	14	29	1.89
50754029--50754282	39	6.5	39	78	4	217	16	29	19	34	1.94
50754107--50754163	19	2.9	20	73	2	62	14	29	15	40	1.87
50754026--50754283	78	3.3	78	79	1	275	16	29	19	34	1.93
50756539--50756633	42	2.2	43	85	5	122	25	17	27	29	1.98
50761650--50761769	43	2.8	41	78	10	118	24	20	27	27	1.99
50773237--50773413	40	4.4	40	83	4	225	25	27	22	24	2.00
50773237--50773401	80	2.1	79	89	3	251	26	27	22	23	2.00
50773912--50774086	50	3.5	50	85	2	208	33	26	16	24	1.96
50777148--50777369	67	3.4	64	76	9	223	31	15	29	22	1.95
50781355--50781509	42	3.7	42	82	3	168	29	23	17	30	1.97
50788629--50788789	44	3.5	44	87	11	241	31	16	22	29	1.96
50788636--50788786	51	3.1	50	84	13	215	31	16	23	28	1.96
50789971--50790125	42	3.7	41	81	5	166	28	23	16	31	1.96
50791428--50791519	17	5.4	17	67	27	52	41	5	2	51	1.37
50793232--50793409	27	6.6	27	82	3	178	28	29	15	26	1.96
50793253--50793408	82	1.9	81	85	3	215	28	29	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50801265--50801442	27	6.6	27	82	3	178	28	29	15	26	1.96
50801286--50801441	82	1.9	81	85	3	215	28	29	15	26	1.96
50803729--50803807	27	2.9	27	80	0	86	17	24	18	39	1.92
50804336--50804436	50	2.0	50	100	0	202	15	37	0	46	1.47
50807819--50807932	61	1.9	58	87	5	165	50	2	5	42	1.39
50807905--50807973	12	5.7	12	72	24	56	53	2	1	42	1.24
50807905--50807971	17	3.8	17	80	18	82	53	2	1	41	1.25
50809060--50809113	22	2.5	22	84	3	65	22	37	27	12	1.91
50814455--50814510	23	2.4	23	93	0	94	51	16	5	26	1.65
50817776--50817826	23	2.2	23	96	0	93	29	13	25	31	1.94

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   229   230   231   232   233   234   235   236   237   238   239   240   
          241   242   243   244   245   246   247   248   249   250   251   252   253   254   255