genome.fa.s9.2.7.7.80.10.50.1000.116.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: A09
Parameters: 2 7 7 80 10 50 1000
Length:  81831061

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   

This is table  116  of  259  ( 31025 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)
37766206--37766284	31	2.5	31	84	8	106	31	17	24	26	1.97
37767870--37767904	17	2.1	17	100	0	70	45	42	0	11	1.40
37771200--37771234	18	2.0	18	88	5	54	20	0	2	77	0.90
37774648--37774711	30	2.2	29	97	2	119	34	23	17	25	1.96
37787100--37787128	12	2.3	13	94	5	51	48	0	0	51	1.00
37789213--37789242	15	2.0	15	100	0	60	40	20	26	13	1.89
37798751--37798995	27	9.1	27	84	2	244	21	17	19	41	1.91
37799860--37800227	27	13.7	27	86	0	459	25	13	20	40	1.89
37800582--37800641	18	3.3	18	83	0	84	23	18	16	41	1.90
37809960--37810137	40	4.5	40	87	2	234	24	21	28	24	1.99
37818042--37818258	40	5.5	40	87	3	280	23	23	28	24	2.00
37818042--37818258	79	2.7	79	88	4	296	23	23	28	24	2.00
37823806--37823974	47	3.6	47	91	0	257	36	9	27	26	1.87
37823818--37824319	47	11.1	43	87	7	139	34	12	28	25	1.92
37823806--37824404	141	4.4	141	85	6	807	34	11	28	25	1.91
37823940--37824006	32	2.1	32	97	0	125	35	11	25	26	1.91
37823972--37824404	47	9.2	47	93	0	670	33	12	28	25	1.92
37824051--37824126	22	3.3	22	65	28	59	31	13	30	25	1.93
37824378--37824496	46	2.6	46	94	0	211	34	10	31	24	1.88
37828180--37828407	46	5.0	46	92	1	332	40	14	23	21	1.90
37829053--37829096	22	2.0	22	95	0	79	25	9	40	25	1.84
37836068--37836096	8	3.6	8	100	0	58	27	0	34	37	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37851012--37851096	28	3.0	28	81	3	100	30	28	15	25	1.96
37856315--37856349	17	2.1	17	100	0	70	34	0	34	31	1.58
37867921--37867984	32	2.0	32	100	0	128	43	9	18	28	1.81
37868161--37868185	12	2.1	12	100	0	50	16	24	32	28	1.96
37872953--37873022	25	2.8	25	91	2	104	24	24	24	27	2.00
37877483--37877530	25	1.9	25	91	0	78	33	22	14	29	1.94
37877663--37877733	25	2.8	25	89	2	106	26	25	22	25	2.00
37877953--37878036	31	2.7	31	94	1	143	33	17	25	23	1.97
37883798--37883841	21	2.0	22	87	12	65	29	15	4	50	1.64
37884108--37884374	56	4.8	56	92	1	403	32	23	16	26	1.96
37887756--37887900	40	3.6	39	84	6	173	25	24	26	24	2.00
37895767--37895911	40	3.6	40	85	4	193	25	24	26	23	2.00
37897290--37897431	38	3.7	38	81	6	153	28	22	23	26	1.99
37897311--37897431	39	3.2	39	80	12	135	26	23	24	25	2.00
37899630--37899785	46	3.4	46	76	15	176	21	20	28	28	1.98
37907006--37907126	43	2.8	43	82	12	151	16	20	32	30	1.95
37921950--37922023	26	2.8	26	93	0	121	31	17	12	39	1.86
37925907--37925959	26	2.0	26	82	7	63	26	15	20	37	1.92
37927448--37927503	26	2.2	26	93	0	94	37	25	7	30	1.82
37936885--37937099	45	4.9	44	85	2	279	26	28	21	23	1.99
37943685--37943722	19	2.0	20	85	15	53	39	21	0	39	1.53
37943952--37944122	93	1.8	93	92	0	288	29	28	20	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37943947--37944119	46	3.7	46	77	10	190	30	27	20	22	1.98
37944544--37944603	30	2.0	30	86	0	84	30	25	6	38	1.81
37947901--37947953	26	2.0	26	96	0	97	37	20	11	30	1.88
37961631--37961666	18	2.1	18	89	5	56	66	0	2	30	1.06
37961919--37961976	22	2.6	22	84	7	73	43	17	3	36	1.66
37961967--37962037	35	2.0	36	94	2	126	36	14	9	39	1.79
37961955--37962045	19	4.9	19	88	8	143	37	15	8	38	1.78
37962164--37962204	21	2.0	21	85	0	55	12	2	12	73	1.20
37963196--37963249	21	2.6	20	77	8	54	35	29	22	12	1.91
37963988--37964035	10	4.8	10	79	7	53	75	8	10	6	1.20
37965407--37965452	18	2.5	18	82	13	58	32	2	2	63	1.19
37970131--37970265	29	4.6	28	73	5	90	24	27	10	37	1.88
37987498--37987526	15	2.0	15	93	6	51	6	0	27	65	1.18
37987962--37987996	18	1.9	18	88	0	52	17	37	0	45	1.48
37988195--37988223	9	3.2	9	100	0	58	20	0	0	79	0.74
37988195--37988244	17	2.9	18	82	8	59	28	0	2	70	0.99
37994202--37994229	14	2.0	14	100	0	56	21	21	35	21	1.96
38031586--38031672	45	1.9	45	92	0	147	37	24	12	25	1.90
38042322--38042414	45	2.1	45	95	0	168	21	30	29	19	1.97
38048154--38048218	28	2.3	28	91	0	103	32	27	7	32	1.85
38048324--38048386	28	2.2	29	88	8	94	22	22	23	31	1.98
38048334--38048397	28	2.2	28	86	2	83	25	25	18	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38048850--38048888	19	2.1	19	85	0	51	15	5	7	71	1.26
38056133--38056218	43	2.0	43	100	0	172	41	9	20	27	1.83
38061313--38061419	43	2.5	43	83	3	126	23	15	28	32	1.95
38065655--38065732	40	2.0	40	89	0	120	41	15	14	29	1.86
38075358--38075486	47	2.7	49	87	8	171	30	19	27	22	1.98
38076141--38076230	45	2.0	45	100	0	180	26	20	26	26	1.99
38076671--38076711	22	1.9	22	85	14	59	12	46	24	17	1.82
38083283--38083394	43	2.6	43	87	4	156	24	18	25	31	1.98
38085467--38085621	43	3.7	43	80	6	190	29	27	18	25	1.98
38086215--38086246	15	2.1	15	94	0	55	53	25	0	21	1.46
38088147--38088275	47	2.7	47	84	0	159	33	27	17	22	1.96
38101658--38101725	29	2.3	29	85	5	93	27	30	13	27	1.94
38101547--38101874	174	1.9	174	96	0	611	30	24	14	29	1.95
38101827--38101905	29	2.7	30	80	13	101	30	30	13	25	1.94
38108853--38109102	47	5.3	47	92	0	392	32	8	30	28	1.87
38111325--38111597	40	6.8	40	89	2	397	24	22	27	25	2.00
38114914--38115162	47	5.3	47	91	0	383	32	8	30	28	1.87
38114914--38115162	93	2.7	93	90	0	381	32	8	30	28	1.87
38116745--38116978	49	4.9	48	75	13	193	26	19	29	23	1.98
38116799--38116977	96	1.8	98	84	8	249	26	20	29	24	1.99
38120135--38120253	38	3.1	38	80	4	132	22	19	25	32	1.97
38122049--38122205	29	5.5	28	65	13	86	21	18	28	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38122022--38122214	58	3.4	58	89	3	279	23	16	29	30	1.96
38122071--38122232	29	5.7	28	69	7	101	22	17	30	29	1.97
38124480--38124649	41	4.2	40	74	18	143	29	27	20	22	1.99
38139604--38139660	10	5.7	10	72	15	55	28	28	14	29	1.95
38139604--38139662	20	3.0	20	87	5	84	27	27	13	32	1.94
38140993--38141027	11	3.2	11	91	0	52	74	5	5	14	1.19
38141010--38141084	25	2.9	26	78	13	75	69	5	16	9	1.33
38141956--38141990	18	1.9	18	88	11	54	57	0	20	22	1.41
38144009--38144066	10	5.7	10	76	11	64	29	27	13	29	1.94
38144009--38144069	20	3.0	20	83	9	79	27	26	13	32	1.93
38145945--38145991	20	2.3	20	81	0	58	29	34	12	23	1.92
38147476--38147509	11	2.8	12	91	8	52	79	8	2	8	1.03
38147477--38147511	12	2.8	13	86	4	54	80	5	2	11	1.00
38147477--38147555	41	1.9	42	85	12	110	72	3	7	16	1.23
38147543--38147580	16	2.4	16	86	4	51	71	7	13	7	1.31
38147477--38147566	43	2.2	42	82	13	107	73	4	7	14	1.22
38147476--38147603	55	2.3	56	80	8	127	69	6	10	14	1.35
38148430--38148470	17	2.5	17	88	11	59	73	0	21	4	1.02
38150005--38150051	20	2.3	20	81	0	58	29	34	12	23	1.92
38156570--38156602	12	2.6	13	95	4	59	78	6	9	6	1.08
38163091--38163184	49	1.9	49	97	0	179	37	21	24	17	1.94
38165177--38165230	23	2.2	25	78	15	60	62	1	22	12	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38173725--38173787	21	3.0	21	88	2	81	33	31	4	30	1.78
38174611--38174698	30	2.9	30	74	0	104	28	27	15	28	1.96
38176411--38176465	11	5.1	11	79	16	53	72	7	10	9	1.27
38177378--38177448	37	1.9	37	86	11	101	76	0	18	5	0.98
38177388--38177437	6	8.2	6	83	14	50	76	0	20	4	0.95
38177392--38177450	27	2.5	23	75	21	59	76	0	18	5	0.97
38177498--38177528	12	2.6	12	100	0	62	45	12	16	25	1.83
38179402--38179432	12	2.6	12	100	0	62	25	16	12	45	1.83
38179480--38179538	27	2.5	22	75	21	57	5	18	0	76	0.97
38179493--38179542	6	8.2	6	81	16	50	4	20	0	76	0.95

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