genome.fa.s3.2.7.7.80.10.50.1000.97.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   326   327   328   329   330   331   332   333   

This is table  97  of  333  ( 39894 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)
30852223--30852266	5	9.0	5	87	2	63	2	18	0	79	0.83
30852229--30852294	14	4.8	14	71	15	57	4	25	0	69	1.07
30857636--30857696	26	2.3	27	80	11	72	31	24	13	31	1.93
30857999--30858044	20	2.3	21	82	14	62	26	17	28	28	1.98
30863870--30863984	29	4.0	29	83	6	137	29	28	13	27	1.95
30863861--30863976	57	2.0	57	85	3	153	28	30	14	26	1.95
30864043--30864076	17	1.9	18	88	5	52	20	38	26	14	1.91
30864195--30864245	16	3.2	16	77	8	50	7	19	19	52	1.70
30864200--30864245	24	1.9	24	90	0	74	6	19	21	52	1.69
30870196--30870239	22	2.0	21	86	4	61	68	4	2	25	1.20
30879217--30879334	42	2.8	42	83	2	148	28	21	14	35	1.92
30885299--30885343	21	2.1	21	95	0	81	35	11	24	28	1.90
30887769--30887914	49	2.9	49	80	2	157	27	26	20	25	1.99
30892653--30892821	85	2.0	85	82	2	205	32	14	20	32	1.92
30894493--30894534	16	2.4	18	80	11	52	52	4	4	38	1.44
30906923--30907093	93	1.8	93	94	0	306	27	28	22	21	1.99
30906918--30907090	46	3.7	46	77	13	201	28	27	21	21	1.99
30910169--30910208	21	2.0	20	90	5	62	17	27	40	15	1.89
30911377--30911638	47	5.7	44	78	10	208	24	28	18	29	1.98
30912061--30912107	23	2.0	23	100	0	94	34	25	12	27	1.92
30914586--30914655	20	3.5	20	78	3	61	38	12	15	32	1.86
30914628--30914675	20	2.4	20	89	0	69	31	10	20	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30922148--30922192	20	2.1	22	80	16	58	51	8	15	24	1.72
30922157--30922198	20	2.1	20	100	0	84	47	11	19	21	1.81
30934711--30934749	19	2.0	20	95	5	71	17	0	10	71	1.12
30934711--30934775	19	2.9	23	84	13	66	24	0	9	66	1.21
30942471--30942530	30	2.0	30	87	6	86	15	20	41	23	1.89
30947750--30947839	42	2.1	42	83	0	108	34	27	10	27	1.89
30947860--30948031	48	3.6	48	80	3	202	25	27	18	28	1.98
30951076--30951125	23	2.2	23	100	0	100	20	34	16	30	1.94
30955528--30955699	42	4.0	42	76	10	148	31	25	15	27	1.95
30955490--30955733	132	1.8	132	80	5	287	28	26	16	27	1.97
30955616--30955891	48	5.9	48	81	6	244	27	28	15	28	1.96
30957318--30957519	80	2.5	80	87	4	309	26	26	22	24	2.00
30957318--30957519	40	5.1	40	86	3	266	26	26	22	24	2.00
30976446--30976860	47	8.7	47	92	1	632	33	8	28	29	1.87
30976979--30977057	37	2.1	37	88	0	113	24	20	31	24	1.98
30978272--30978501	40	5.8	40	95	0	388	24	22	28	24	1.99
30982214--30982675	47	9.7	47	92	1	717	33	8	28	29	1.87
30982794--30982872	37	2.1	37	90	0	122	24	18	31	25	1.98
30987689--30987911	79	2.8	78	84	9	283	24	27	22	25	2.00
30987689--30987911	39	5.7	40	87	8	284	24	27	22	25	2.00
30990411--30991010	47	12.5	47	91	3	809	33	9	28	28	1.88
31005997--31006592	47	12.4	47	81	7	676	32	8	30	28	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31005997--31006592	94	6.2	94	88	6	879	32	8	30	28	1.86
31005997--31006592	141	4.1	141	82	7	764	32	8	30	28	1.86
31006261--31006548	155	1.9	155	88	2	445	34	7	29	28	1.84
31006215--31006592	202	1.9	202	89	3	591	34	7	29	28	1.84
31011347--31011401	28	1.9	29	82	10	69	18	21	43	16	1.88
31013001--31013065	29	2.2	29	83	5	87	13	36	24	24	1.92
31017376--31017560	40	4.7	40	80	6	198	24	21	27	26	1.99
31017429--31017593	79	2.1	79	79	6	174	25	20	27	26	1.99
31022745--31022864	56	2.1	56	98	0	231	45	9	23	22	1.81
31023991--31024215	40	5.7	40	86	5	287	24	21	28	25	1.99
31023998--31024248	119	2.1	119	79	7	260	26	20	26	26	1.99
31030685--31030804	56	2.1	56	95	0	222	45	8	23	23	1.80
31031933--31032157	40	5.7	40	82	5	251	26	21	26	25	1.99
31038074--31038375	48	6.6	42	73	16	165	28	29	16	25	1.97
31038161--31038375	48	4.5	49	86	2	168	28	29	16	25	1.96
31038205--31038389	48	3.9	48	91	0	280	27	30	15	26	1.96
31042437--31042486	17	2.9	17	79	5	57	40	22	18	20	1.92
31046513--31046766	55	4.8	53	77	10	216	36	17	22	23	1.94
31046959--31046989	16	1.9	16	93	0	53	41	0	22	35	1.54
31050959--31051117	43	3.7	43	76	10	155	33	24	15	26	1.95
31058170--31058281	43	2.6	42	77	17	113	28	16	24	31	1.96
31066655--31066796	69	2.1	69	98	0	275	33	15	11	39	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31071254--31071396	43	3.4	42	80	8	166	30	23	20	25	1.98
31078789--31078900	42	2.7	42	80	13	131	32	26	16	24	1.96
31086777--31086880	41	2.5	41	77	9	104	30	27	20	21	1.98
31096871--31096920	24	2.0	24	84	7	64	34	0	22	44	1.53
31099381--31099435	13	4.2	13	100	0	110	29	9	7	54	1.58
31101461--31101507	20	2.3	20	88	0	76	29	17	12	40	1.86
31103953--31104009	29	2.1	28	90	9	91	35	0	8	56	1.31
31109709--31109766	3	19.3	3	100	0	116	32	0	0	67	0.91
31111858--31111901	22	2.0	22	100	0	88	36	22	4	36	1.75
31112951--31112998	21	2.2	21	92	3	78	62	8	2	27	1.35
31112949--31112991	21	2.0	21	100	0	86	55	9	0	34	1.32
31124485--31124547	30	2.1	30	93	0	108	26	1	12	58	1.43
31124926--31124964	16	2.3	17	82	13	53	38	7	0	53	1.30
31124931--31124963	16	2.1	16	94	0	57	36	6	0	57	1.23
31125371--31125398	14	2.0	14	100	0	56	14	14	21	50	1.78
31137332--31137391	27	2.3	26	82	2	66	36	20	21	21	1.95
31138067--31138118	25	2.0	25	85	3	68	36	19	23	21	1.95
31138136--31138303	25	6.8	25	82	8	186	23	17	19	39	1.92
31138119--31138303	75	2.5	73	82	8	223	24	18	18	38	1.93
31144863--31144914	27	1.9	27	84	0	68	32	21	25	21	1.98
31145666--31145864	27	7.4	27	86	2	267	24	21	19	34	1.96
31152649--31152832	40	4.6	40	83	6	230	25	22	26	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31152649--31152868	80	2.8	80	84	5	270	24	22	26	25	2.00
31155596--31155779	40	4.6	40	83	2	235	26	23	25	25	2.00
31155596--31155815	80	2.8	80	84	5	261	25	23	25	25	2.00
31162207--31162377	40	4.3	40	86	5	206	26	28	20	25	1.99
31162207--31162377	78	2.2	80	82	6	206	26	28	20	25	1.99
31168722--31168883	45	3.6	45	87	3	213	23	23	27	25	2.00
31171257--31171429	46	3.7	46	80	11	210	21	20	28	29	1.98
31171253--31171424	93	1.8	93	95	2	310	20	20	30	28	1.98
31185561--31185624	24	2.6	25	87	4	87	32	31	15	20	1.94
31185648--31185697	24	2.1	24	85	7	66	32	32	10	26	1.89
31185653--31186122	94	5.0	94	95	0	805	40	19	9	30	1.84
31188994--31189037	17	2.6	17	96	0	79	9	34	38	18	1.82
31191069--31191325	40	6.4	40	83	4	315	28	27	21	22	1.99
31191069--31191325	80	3.2	80	91	2	394	28	27	21	22	1.99
31191082--31191312	120	1.9	120	88	3	349	29	28	20	21	1.98
31194539--31194567	11	2.5	12	88	11	51	24	0	27	48	1.51
31195889--31196042	28	5.5	28	96	0	265	33	28	12	25	1.92
31202094--31202350	40	6.4	40	83	4	333	27	28	21	22	1.99
31202094--31202350	80	3.2	80	93	2	412	27	28	21	22	1.99
31206055--31206110	28	2.0	28	100	0	112	46	7	21	25	1.76
31216446--31216507	32	1.9	32	100	0	124	33	11	12	41	1.79
31217542--31217668	39	3.3	39	78	0	155	43	18	3	33	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31225795--31225825	12	2.6	12	100	0	62	32	19	41	6	1.77
31242781--31242821	21	2.0	21	85	0	55	17	19	36	26	1.94
31245669--31245715	22	2.1	22	96	0	85	34	12	10	42	1.78
31246012--31246079	34	2.0	34	94	0	118	30	10	19	39	1.85
31250424--31250584	43	3.7	43	79	10	186	22	18	26	32	1.97
31256287--31256334	23	2.1	22	85	11	62	25	4	18	52	1.63
31257006--31257162	43	3.7	43	76	10	169	22	15	27	33	1.95
31260132--31260250	27	4.4	27	89	0	166	33	18	21	26	1.96
31260902--31260952	26	2.0	26	84	7	68	15	27	21	35	1.94
31260891--31261020	71	1.9	66	84	7	170	19	29	20	31	1.97

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   256   
          257   258   259   260   261   262   263   264   265   266   267   268   269   270   271   272   
          273   274   275   276   277   278   279   280   281   282   283   284   285   286   287   288   
          289   290   291   292   293   294   295   296   297   298   299   300   301   302   303   304   
          305   306   307   308   309   310   311   312   313   314   315   316   317   318   319   320   
          321   322   323   324   325   326   327   328   329   330   331   332   333