genome.fa.s4.2.7.7.80.10.50.1000.125.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  125  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)
39947573--39947695	61	2.0	61	98	0	237	27	30	12	30	1.93
39947526--39947742	108	2.0	108	97	0	407	28	29	10	30	1.90
39947634--39947743	47	2.3	47	100	0	220	28	30	10	30	1.91
39951272--39951612	40	8.5	40	82	3	357	24	27	22	24	2.00
39951924--39951996	29	2.5	29	88	4	103	26	31	16	26	1.96
39953903--39953981	37	2.1	37	90	0	122	25	31	18	24	1.98
39954103--39954336	49	5.0	44	92	4	245	30	30	8	30	1.87
39954099--39954528	47	8.7	47	85	11	549	30	30	8	30	1.87
39954274--39954402	64	2.0	65	96	1	242	31	28	7	31	1.85
39954227--39954449	111	2.0	112	96	0	412	30	30	8	30	1.86
39954324--39954365	18	2.4	18	88	7	61	35	26	2	35	1.70
39954343--39954421	25	3.3	25	64	10	74	34	27	5	32	1.79
39954190--39954496	158	1.9	159	98	0	598	30	29	8	31	1.86
39954141--39954528	205	1.9	206	96	1	715	30	29	8	31	1.87
39957438--39957473	17	2.1	17	89	0	54	27	41	16	13	1.87
39961705--39961769	30	2.2	30	75	5	71	41	0	3	55	1.15
39973359--39973386	12	2.3	12	100	0	56	64	0	0	35	0.94
39976365--39976490	52	2.5	52	85	7	186	27	13	29	29	1.94
39978583--39978734	40	3.8	40	85	2	171	26	27	21	25	1.99
39978583--39978734	80	1.9	80	83	2	198	26	27	21	25	1.99
39986692--39986843	40	3.8	40	86	2	180	26	28	21	24	1.99
39990757--39990840	24	3.5	23	75	6	69	40	5	39	14	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40001574--40001641	29	2.3	29	85	5	93	27	30	13	27	1.94
40001743--40001821	29	2.7	30	82	13	110	29	30	15	25	1.96
40013494--40013665	46	3.7	46	74	9	163	22	18	30	29	1.97
40013486--40013658	93	1.9	93	87	4	260	22	19	30	28	1.98
40016586--40016665	15	5.4	15	77	7	83	11	17	13	57	1.65
40016577--40016664	30	3.0	30	80	11	92	11	17	15	55	1.68
40022585--40022635	20	2.7	19	82	14	54	41	0	21	37	1.54
40023287--40023402	46	2.5	44	85	10	137	31	16	30	22	1.96
40023386--40023413	11	2.5	11	100	0	56	28	10	35	25	1.89
40023340--40023461	57	2.1	57	84	3	154	29	18	29	22	1.97
40023405--40023560	48	3.2	49	76	9	167	30	22	26	21	1.99
40028762--40028831	13	5.0	14	73	20	58	52	2	0	44	1.15
40041248--40041313	30	2.4	28	90	10	100	46	24	4	24	1.71
40042120--40042216	42	2.3	42	80	1	113	32	19	16	30	1.94
40042099--40042220	43	2.8	44	76	4	142	32	21	16	29	1.95
40046938--40046983	23	2.0	23	100	0	92	17	21	21	39	1.93
40047406--40047471	26	2.5	27	80	7	82	31	19	13	34	1.91
40048085--40048132	20	2.4	20	96	0	87	16	0	14	68	1.21
40048469--40048612	43	3.3	44	76	17	140	27	19	22	30	1.98
40058361--40058509	40	3.7	40	89	3	237	24	21	27	26	1.99
40058361--40058532	80	2.2	80	85	5	233	26	21	26	25	1.99
40058361--40058534	40	4.4	40	86	5	174	26	21	26	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40062325--40062373	26	2.0	23	88	8	62	38	20	14	26	1.91
40062330--40062384	26	2.1	26	96	0	101	38	21	10	29	1.88
40062946--40063080	43	3.1	43	73	13	109	32	25	14	26	1.95
40064904--40065074	93	1.8	93	91	0	279	28	26	22	23	1.99
40064899--40065071	46	3.7	46	75	13	174	28	25	21	23	1.99
40067114--40067297	40	4.6	40	91	2	228	23	21	27	27	1.99
40067117--40067324	80	2.6	80	82	2	240	23	20	27	28	1.99
40068892--40068951	30	2.0	30	86	0	84	30	25	6	38	1.81
40074277--40074385	44	2.5	44	81	10	125	28	21	23	26	1.99
40081996--40082020	13	1.9	13	100	0	50	32	16	16	36	1.90
40083797--40083875	25	3.3	25	69	16	85	35	3	29	31	1.75
40083772--40083925	47	3.3	47	93	0	263	33	6	29	29	1.83
40093972--40094048	24	3.2	24	94	0	127	33	5	40	20	1.75
40095260--40095300	21	2.0	21	100	0	82	34	17	19	29	1.94
40095453--40095563	27	4.2	26	88	5	150	16	24	22	36	1.94
40100239--40100303	21	3.3	21	62	16	57	26	15	40	18	1.90
40100231--40100308	38	2.1	38	100	0	156	24	12	38	24	1.90
40103540--40103568	14	2.0	15	93	6	51	17	6	0	75	1.01
40109773--40110223	226	2.0	226	96	0	839	28	27	21	23	1.99
40110998--40111148	42	3.5	43	77	8	139	25	25	20	28	1.99
40114591--40114767	40	4.4	40	84	4	225	26	27	22	23	1.99
40116555--40116588	15	2.3	15	89	0	50	55	11	23	8	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40123922--40124060	73	1.9	74	82	7	176	51	4	3	41	1.39
40128673--40128714	17	2.5	16	85	11	57	45	23	11	19	1.83
40134023--40134067	20	2.2	20	88	0	63	48	2	13	35	1.54
40137812--40137884	37	2.0	37	100	0	146	32	2	23	41	1.69
40140050--40140273	40	5.6	40	82	7	247	24	23	25	26	2.00
40140054--40140273	83	2.7	80	83	6	250	24	24	25	25	2.00
40148218--40148411	47	4.1	47	90	0	289	32	10	29	26	1.90
40148247--40148318	22	3.1	22	64	24	58	33	13	29	23	1.93
40148292--40148367	23	3.2	25	62	24	63	28	13	34	23	1.92
40148382--40148565	98	1.9	96	93	4	316	35	7	26	30	1.83
40148381--40148565	48	3.8	48	90	5	309	35	7	26	30	1.83
40148711--40148782	37	1.9	37	94	0	126	23	19	29	27	1.98
40150052--40150243	40	4.8	40	90	1	269	24	21	28	25	1.99
40154271--40154464	47	4.1	47	90	0	289	32	10	29	26	1.90
40154300--40154371	22	3.1	22	64	24	58	33	13	29	23	1.93
40154345--40154420	23	3.2	25	62	24	63	28	13	34	23	1.92
40154306--40154601	94	3.1	95	83	9	322	33	10	28	27	1.90
40154435--40154617	97	1.9	96	93	5	316	35	7	26	30	1.83
40154434--40154617	47	3.8	48	89	7	300	35	7	26	30	1.83
40154763--40154834	37	1.9	37	91	0	117	23	19	29	27	1.98
40162719--40162754	10	3.6	10	88	0	54	11	8	19	61	1.54
40165295--40165333	19	2.1	19	90	0	60	48	23	5	23	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40167256--40167295	21	1.9	21	84	0	53	27	27	7	37	1.84
40172923--40173019	40	2.4	40	84	3	124	26	31	14	26	1.95
40178055--40178381	43	7.6	43	95	0	591	31	33	24	10	1.89
40178379--40178497	38	3.1	38	88	2	157	29	25	21	23	1.99
40184450--40184543	40	2.3	40	87	3	136	26	30	15	26	1.96
40191817--40191894	40	2.0	40	86	0	111	29	29	14	26	1.95
40196581--40196685	43	2.4	43	79	0	120	31	23	16	28	1.96
40198652--40198687	18	1.9	19	88	5	56	30	11	8	50	1.67
40201697--40201765	21	3.1	21	67	18	59	17	10	28	43	1.81
40203942--40204075	47	3.0	47	77	14	174	23	20	27	28	1.99
40203989--40204110	40	3.1	39	82	5	147	25	20	27	26	1.99
40211966--40212192	40	5.5	40	85	9	289	23	22	28	25	2.00
40212022--40212155	47	3.0	47	80	14	192	23	20	28	27	1.99
40211982--40212155	87	2.0	87	92	2	287	22	21	28	27	1.99
40217280--40217526	125	2.0	125	92	0	413	37	15	21	25	1.93
40221311--40221419	37	2.9	37	93	0	182	26	29	19	24	1.98
40221568--40221748	50	3.7	50	86	7	271	30	25	7	37	1.83
40221565--40221748	98	1.9	98	97	0	350	30	25	7	36	1.83
40221721--40221914	47	4.1	47	88	0	271	26	29	11	32	1.91
40230495--40230732	49	4.8	50	84	3	266	29	26	18	26	1.98
40230495--40230740	99	2.5	99	83	3	316	28	26	18	26	1.98
40232391--40232456	15	4.5	15	75	16	57	60	15	16	7	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40232391--40232456	30	2.2	30	81	7	82	60	15	16	7	1.56
40232403--40232459	15	3.8	15	79	4	62	57	17	15	8	1.63
40235412--40235684	49	5.5	49	88	2	359	29	26	18	25	1.98
40235412--40235684	97	2.8	98	88	4	363	29	26	18	25	1.98
40235412--40235684	99	2.8	97	87	4	359	29	26	18	25	1.98
40243495--40243555	23	2.7	23	84	0	68	6	27	18	47	1.73
40245074--40245269	29	6.8	29	81	5	218	18	27	14	39	1.90
40245075--40245313	87	2.7	87	84	2	293	18	26	15	38	1.91
40246069--40246147	37	2.1	37	90	0	122	25	31	18	24	1.98
40246266--40246726	49	9.6	49	90	2	677	28	29	9	32	1.89

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