genome.fa.s4.2.7.7.80.10.50.1000.149.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  149  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)
48331685--48331937	27	9.4	27	86	0	299	35	18	20	24	1.95
48331685--48331937	81	3.1	80	89	2	380	35	18	20	24	1.95
48332078--48332198	54	2.3	52	81	2	125	20	20	20	38	1.94
48332078--48332173	27	3.6	27	82	0	111	20	21	20	36	1.95
48332161--48332208	25	1.9	25	91	0	78	18	16	22	41	1.90
48335922--48335987	34	2.0	34	81	3	80	22	24	24	28	1.99
48341666--48341735	6	11.5	6	90	3	95	77	1	4	17	1.01
48342660--48342689	14	2.1	15	93	6	53	63	13	10	13	1.52
48349292--48349599	40	7.7	40	97	0	553	28	20	28	22	1.98
48357915--48358222	40	7.7	40	97	0	553	28	20	28	22	1.98
48373686--48373853	85	2.1	77	88	11	243	37	7	28	26	1.84
48375019--48375203	40	4.7	40	80	7	200	24	23	27	24	2.00
48375019--48375201	79	2.3	81	82	7	214	24	23	27	24	2.00
48375072--48375226	79	2.0	79	82	7	190	25	21	27	25	2.00
48381394--48381610	40	5.4	40	88	3	314	28	26	23	21	1.99
48390958--48391151	47	4.1	47	89	0	280	33	10	28	26	1.90
48390987--48391058	22	3.1	22	64	24	58	33	13	29	23	1.93
48391032--48391107	23	3.2	25	62	24	63	28	13	34	23	1.92
48391122--48391305	98	1.9	96	89	4	289	35	6	26	31	1.82
48391121--48391305	48	3.8	48	87	5	282	35	6	25	31	1.82
48391451--48391563	37	3.1	37	96	0	199	22	19	30	27	1.98
48392829--48393180	40	8.8	40	93	0	587	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48396275--48396468	47	4.1	47	90	0	289	32	10	29	26	1.90
48396304--48396375	22	3.1	22	64	24	58	33	13	29	23	1.93
48396349--48396424	23	3.2	25	62	24	63	28	13	34	23	1.92
48396439--48396622	98	1.9	96	93	4	316	35	7	26	30	1.83
48396438--48396622	48	3.8	48	90	5	309	35	7	26	30	1.83
48396768--48396876	37	2.9	37	95	0	191	22	19	31	26	1.98
48403582--48403802	40	5.6	40	88	3	313	28	27	22	22	1.99
48407261--48407316	10	5.7	10	74	2	51	19	21	37	21	1.94
48407262--48407316	20	2.8	20	97	2	103	20	21	38	20	1.94
48409281--48409492	47	4.5	47	90	2	309	29	30	8	31	1.87
48412124--48412222	34	2.9	34	79	7	112	22	22	25	30	1.99
48416071--48416195	39	3.2	39	87	1	151	24	28	21	25	1.99
48426637--48426826	96	2.0	96	91	0	308	39	16	33	11	1.84
48433741--48433828	6	14.3	6	75	17	83	50	15	15	18	1.79
48433741--48433828	19	4.8	18	75	18	83	50	15	15	18	1.79
48433750--48433828	31	2.5	31	95	0	140	50	15	16	17	1.78
48433755--48433825	25	2.8	25	81	10	83	49	16	16	16	1.80
48434188--48434250	27	2.3	28	75	8	67	38	26	17	17	1.92
48434231--48434613	27	14.3	27	86	0	482	24	21	19	34	1.96
48434626--48434829	54	3.8	54	83	1	133	33	5	23	37	1.78
48434689--48434883	27	7.2	27	88	2	284	37	6	24	31	1.80
48434660--48434887	81	2.8	81	86	4	273	36	7	22	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48434897--48435046	27	5.6	27	79	3	158	30	8	22	39	1.84
48434897--48435046	54	2.8	54	83	2	185	30	8	22	39	1.84
48440130--48440170	21	2.0	21	90	9	66	43	24	0	31	1.54
48440780--48440814	16	2.2	16	100	0	70	17	17	31	34	1.93
48443269--48443355	45	1.9	45	92	0	147	34	25	14	25	1.94
48445192--48445415	40	5.6	40	80	8	242	26	27	21	25	1.99
48445194--48445416	119	1.9	120	84	6	301	26	26	21	25	1.99
48453020--48453303	40	7.1	40	85	5	344	25	27	22	25	2.00
48461281--48461583	40	7.6	40	91	2	423	27	28	20	24	1.99
48467431--48467693	40	6.6	40	87	3	316	26	27	20	25	1.99
48475381--48475643	40	6.6	40	86	3	309	27	27	19	25	1.99
48477829--48477900	27	2.6	28	77	4	74	29	33	12	25	1.92
48477857--48477921	28	2.3	29	83	2	78	29	33	10	26	1.90
48481563--48481621	26	2.2	26	82	8	75	37	27	8	27	1.85
48481730--48481808	27	2.9	27	84	1	104	20	25	17	36	1.94
48485344--48485448	27	3.9	28	85	3	128	20	25	18	35	1.95
48490284--48490528	40	6.2	40	90	2	361	26	28	22	23	1.99
48492750--48492780	16	1.9	16	93	0	53	9	22	22	45	1.81
48496412--48496476	29	2.2	29	91	0	103	21	29	26	23	1.99
48497700--48497861	43	3.8	43	70	16	122	32	25	17	24	1.97
48501083--48501186	28	3.7	27	82	6	111	27	29	14	27	1.95
48501081--48501188	56	1.9	56	85	7	148	27	29	14	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48501402--48501455	16	3.4	16	85	10	74	11	24	20	44	1.83
48501402--48501454	24	2.2	24	86	0	70	11	24	18	45	1.82
48506786--48506923	46	3.0	46	89	1	204	25	31	8	34	1.86
48506896--48507279	47	8.1	47	90	2	507	25	30	12	32	1.92
48510934--48511065	57	2.3	57	79	8	144	28	29	18	22	1.98
48511097--48511427	40	8.3	40	89	0	500	28	28	19	24	1.98
48511097--48511427	80	4.1	80	95	0	590	28	28	19	24	1.98
48512938--48513075	46	3.0	46	89	1	204	25	31	8	34	1.86
48513048--48513477	47	9.1	47	91	3	603	25	30	12	31	1.92
48517279--48517566	40	7.3	40	84	3	386	27	26	19	26	1.99
48517279--48517566	119	2.4	120	88	1	429	27	26	19	26	1.99
48517297--48517566	79	3.4	78	86	3	364	27	25	19	26	1.99
48519062--48519196	46	3.0	46	86	2	184	25	31	8	34	1.85
48519200--48519596	47	8.4	47	91	4	586	25	30	12	31	1.92
48523238--48523369	57	2.3	57	79	8	144	28	31	18	21	1.97
48523401--48523691	40	7.3	40	84	0	384	27	26	19	27	1.99
48523401--48523691	120	2.4	120	88	0	429	27	26	19	27	1.99
48525200--48525336	46	3.0	46	86	0	184	27	31	7	33	1.84
48525340--48525526	47	4.0	47	93	0	302	26	29	12	31	1.92
48525450--48525601	75	2.0	75	96	0	277	25	30	15	28	1.95
48525497--48525554	28	2.1	28	93	0	98	27	31	13	27	1.94
48525403--48525648	122	2.0	122	95	0	447	25	30	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48525356--48525688	169	2.0	169	93	0	576	24	30	14	30	1.94
48525525--48525738	47	4.5	47	92	3	322	24	30	14	30	1.95
48525525--48525767	94	2.5	96	88	4	330	25	30	12	31	1.93
48525525--48525767	47	5.1	47	90	4	279	25	30	12	31	1.93
48531175--48531352	27	6.6	27	83	5	180	29	28	15	26	1.96
48531196--48531351	82	1.9	81	86	3	224	28	28	16	26	1.97
48534184--48534308	42	2.9	43	83	10	150	31	24	18	25	1.98
48535617--48535705	45	2.0	45	88	0	133	40	23	10	25	1.86
48537157--48537216	30	2.0	30	93	0	102	30	3	20	46	1.66
48537335--48537394	30	2.0	30	100	0	120	23	16	13	46	1.82
48540417--48540717	40	7.5	40	92	0	424	27	28	22	21	1.99
48540383--48540717	80	4.2	80	87	2	435	26	28	22	22	1.99
48541505--48541553	21	2.3	21	100	0	98	24	34	0	40	1.55
48544193--48544290	48	2.0	48	98	0	187	35	13	15	35	1.86
48550577--48550771	49	3.9	49	84	5	257	29	26	18	26	1.98
48550583--48550769	100	1.9	100	94	0	329	29	25	18	25	1.98
48552263--48552422	39	4.1	39	95	0	266	23	30	24	22	1.99
48553908--48553946	14	2.6	16	88	8	55	35	20	2	41	1.66
48558495--48558593	49	2.0	49	98	0	189	32	12	13	42	1.81
48563360--48563392	16	2.1	16	88	11	50	18	21	6	54	1.64
48564469--48564501	11	2.9	12	86	13	52	66	0	0	33	0.92
48564505--48564542	5	7.8	5	85	5	51	0	26	60	13	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48564505--48564543	19	2.1	19	90	0	60	0	28	58	12	1.34
48564505--48564542	14	2.6	15	83	8	51	0	26	60	13	1.33
48578396--48578444	16	2.9	16	82	11	53	20	6	0	73	1.04
48578416--48578459	22	2.0	22	82	8	54	20	4	0	75	0.98
48585603--48585656	6	9.0	6	87	0	63	14	7	1	75	1.09
48585603--48585656	18	3.0	18	83	0	72	14	7	1	75	1.09
48586799--48586845	16	2.9	16	75	12	51	44	19	25	10	1.82
48587056--48587165	29	3.9	28	83	7	123	29	11	27	31	1.92
48588522--48588744	79	2.8	78	82	9	265	24	27	22	25	2.00
48588522--48588744	39	5.7	40	86	8	266	24	27	22	25	2.00

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