genome.fa.s4.2.7.7.80.10.50.1000.98.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  98  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)
30476561--30476631	27	2.6	28	79	2	81	26	8	12	52	1.68
30481004--30481059	25	2.3	25	75	3	60	35	12	7	44	1.70
30486809--30487112	40	7.6	40	90	2	430	24	29	22	24	1.99
30486809--30487112	122	2.5	121	87	3	407	24	29	22	24	1.99
30495441--30495747	40	7.7	40	89	3	433	24	28	22	24	1.99
30495441--30495747	118	2.6	120	86	4	424	24	28	22	24	1.99
30495441--30495747	158	1.9	160	86	3	433	24	28	22	24	1.99
30501304--30501360	30	1.9	30	88	0	87	28	22	8	40	1.84
30509338--30509465	29	4.5	28	88	2	175	32	25	12	28	1.92
30509337--30509465	57	2.3	57	87	2	188	32	26	12	28	1.92
30521953--30521997	20	2.2	20	88	0	63	73	0	20	6	1.05
30521986--30522037	13	3.9	14	73	12	56	61	1	26	9	1.38
30523718--30523895	27	6.6	27	83	3	196	30	27	15	26	1.96
30523739--30523894	82	1.9	81	86	3	224	30	27	15	26	1.96
30523718--30523909	82	2.3	83	76	11	207	30	26	14	28	1.95
30553589--30553695	42	2.4	43	77	13	103	35	26	15	22	1.94
30553592--30553710	44	2.8	41	78	6	121	33	26	16	23	1.96
30557223--30557541	40	8.1	40	73	10	255	31	18	22	27	1.97
30557439--30557540	39	2.6	39	90	1	159	29	17	24	28	1.97
30557849--30557950	7	14.4	7	79	2	96	22	0	28	49	1.50
30557849--30558058	14	14.8	14	69	8	84	22	0	32	43	1.57
30557895--30557938	22	2.0	22	90	0	70	20	0	34	45	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30557883--30557953	29	2.5	29	80	11	85	22	0	30	46	1.52
30557870--30557954	29	3.0	29	74	17	79	23	0	30	45	1.53
30557856--30558030	71	2.5	71	79	5	176	22	0	33	44	1.53
30557854--30558058	7	28.9	7	71	9	67	22	0	33	43	1.57
30558675--30558726	19	2.8	18	85	5	68	9	30	1	57	1.42
30558675--30558729	18	3.0	18	86	5	74	10	30	1	56	1.44
30561543--30561573	15	2.0	16	93	6	55	51	3	6	38	1.44
30565079--30565110	14	2.4	13	94	5	55	78	6	3	12	1.06
30565079--30565124	14	3.6	13	77	22	53	73	6	6	13	1.22
30567218--30567482	40	6.7	40	85	3	311	24	19	28	27	1.98
30567257--30567515	80	3.3	80	84	3	247	25	19	28	26	1.99
30569194--30569250	15	3.7	14	82	13	60	77	1	19	1	0.95
30569298--30569328	12	2.6	12	100	0	62	45	12	16	25	1.83
30569324--30569355	12	2.7	12	95	0	55	71	3	15	9	1.24
30569331--30569412	30	2.7	31	81	5	105	64	1	21	12	1.33
30574674--30574726	24	2.2	25	96	3	99	43	20	16	18	1.88
30577933--30578007	6	11.8	6	76	9	60	70	1	20	8	1.19
30577939--30577999	19	3.3	19	70	21	56	70	0	19	9	1.15
30577971--30578094	60	2.1	60	80	8	137	62	2	25	9	1.38
30594450--30594671	40	5.6	40	84	7	265	24	21	28	25	1.99
30594454--30594694	119	2.0	119	81	7	276	26	20	26	26	1.99
30595445--30595623	85	2.1	85	96	0	331	36	9	27	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30599080--30599406	47	6.7	47	89	5	483	33	7	29	29	1.85
30599080--30599406	149	2.2	143	92	3	546	33	7	29	29	1.85
30600868--30600934	23	3.2	23	61	30	58	23	22	28	25	1.99
30600854--30601203	40	8.8	40	90	1	504	24	20	28	26	1.99
30601382--30601432	25	2.0	25	85	7	68	33	7	29	29	1.85
30604915--30605241	47	6.7	47	89	5	474	33	7	29	29	1.85
30604915--30605241	149	2.2	143	92	3	537	33	7	29	29	1.85
30613573--30613836	40	6.6	40	86	6	340	25	22	27	25	2.00
30613572--30613843	119	2.3	119	84	5	309	25	22	27	25	2.00
30615599--30615862	40	6.6	40	89	2	352	26	27	20	24	1.99
30623477--30623717	39	6.6	35	82	11	213	25	29	19	25	1.98
30629973--30630150	27	6.6	27	85	3	214	26	14	28	30	1.95
30629974--30630129	82	1.9	81	89	3	242	26	14	28	30	1.95
30629970--30630150	82	2.2	81	84	2	238	27	14	27	30	1.95
30638392--30638490	27	3.8	27	77	8	114	40	10	23	26	1.86
30639970--30640102	67	2.0	67	88	5	198	30	22	12	35	1.90
30641874--30642103	40	5.8	40	86	2	313	24	21	29	24	1.99
30641874--30642123	119	2.1	118	85	4	342	24	20	28	26	1.99
30641874--30642103	79	2.9	79	90	1	345	24	21	29	24	1.99
30674081--30674132	26	2.0	26	88	7	79	36	0	15	48	1.45
30679536--30679710	46	3.8	46	77	7	192	28	29	20	21	1.98
30679544--30679717	93	1.9	93	91	0	285	28	29	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30679587--30679730	46	3.1	46	71	14	134	29	29	19	21	1.98
30681199--30681246	22	2.2	22	96	0	87	41	27	8	22	1.82
30682074--30682162	30	3.0	30	80	8	101	56	15	17	10	1.67
30682074--30682153	15	5.4	15	80	7	92	57	13	18	10	1.64
30682085--30682162	15	5.2	15	78	9	79	56	15	16	11	1.67
30685076--30685219	46	3.1	46	73	14	143	29	29	19	21	1.98
30687583--30687671	30	3.0	30	80	8	101	56	15	17	10	1.67
30687583--30687662	15	5.4	15	80	7	92	57	13	18	10	1.64
30687594--30687671	15	5.2	15	78	9	79	56	15	16	11	1.67
30688743--30688886	46	3.1	46	73	14	143	29	29	19	21	1.98
30697955--30698175	48	4.7	48	77	8	177	27	26	19	26	1.99
30698047--30698181	48	2.8	48	90	0	198	26	24	22	26	2.00
30705114--30705190	37	2.1	37	97	0	145	25	10	25	37	1.88
30705754--30705937	40	4.6	40	83	6	230	25	23	26	24	2.00
30705754--30705937	80	2.3	80	86	3	255	25	23	26	24	2.00
30710422--30710477	19	3.2	19	61	23	50	28	10	7	53	1.62
30710410--30710477	33	2.1	33	100	0	136	26	11	8	52	1.67
30713098--30713234	56	2.4	56	90	3	222	27	15	24	32	1.95
30715544--30715774	96	2.5	90	81	10	236	29	25	19	26	1.99
30715544--30715774	48	4.9	48	73	13	210	29	25	19	26	1.99
30717036--30717074	21	1.9	20	85	15	53	38	23	10	28	1.87
30725273--30725304	12	2.7	12	95	0	55	9	12	12	65	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30726090--30726121	6	5.3	6	92	0	55	15	81	3	0	0.82
30727548--30727596	22	2.3	22	79	10	57	53	2	0	44	1.12
30727766--30727798	17	1.9	17	93	0	57	42	0	12	45	1.41
30734708--30734769	26	2.4	27	94	5	110	37	29	6	27	1.82
30735235--30735331	38	2.6	37	78	3	95	54	2	2	41	1.23
30737991--30738033	21	2.1	21	86	4	61	25	2	23	48	1.62
30741053--30741101	23	2.1	23	100	0	98	42	12	12	32	1.79
30744999--30745086	39	2.3	39	100	0	176	32	21	22	22	1.98
30744999--30745141	39	3.7	39	86	3	155	30	20	25	23	1.99
30746752--30746783	13	2.5	13	100	0	64	25	34	28	12	1.92
30748797--30748848	27	1.9	27	100	0	104	26	21	15	36	1.93
30751126--30751397	40	6.8	40	92	1	445	26	21	29	23	1.99
30751118--30751397	122	2.3	122	91	1	458	26	21	28	23	1.99
30759121--30759392	40	6.8	40	92	1	445	26	21	29	23	1.99
30759113--30759392	122	2.3	122	92	1	458	26	21	28	23	1.99
30761916--30761957	21	2.0	22	86	13	61	35	2	26	35	1.70
30764642--30764865	40	5.6	40	85	6	292	26	26	22	24	2.00
30764642--30764865	83	2.8	80	86	4	299	26	26	22	24	2.00
30767687--30767825	37	3.8	37	97	0	251	26	30	18	23	1.98
30767944--30768442	47	10.6	47	94	0	836	29	29	8	33	1.86
30776896--30777119	40	5.6	40	84	6	283	26	26	22	24	2.00
30776896--30777119	83	2.8	80	86	4	290	26	26	22	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30785406--30785580	46	3.8	46	76	14	180	29	29	20	21	1.98
30785413--30785584	93	1.8	93	90	2	274	29	29	20	21	1.98
30805172--30805435	85	3.1	85	99	0	519	37	8	27	26	1.85
30807615--30807711	47	2.1	47	92	0	158	35	10	28	25	1.89
30807685--30807775	46	2.0	46	84	0	119	32	9	31	25	1.89
30809226--30809353	40	3.2	40	92	1	204	28	27	21	23	1.99
30813603--30813657	28	2.0	28	96	3	103	36	23	10	29	1.89
30834758--30834907	40	3.7	40	95	0	255	30	20	26	22	1.98
30843329--30843476	40	3.7	40	91	3	228	30	20	25	23	1.98
30849982--30850125	49	2.9	48	83	6	173	26	20	26	27	1.99

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