genome.fa.s12.2.7.7.80.10.50.1000.288.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: A12
Parameters: 2 7 7 80 10 50 1000
Length:  103038859

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   

This is table  288  of  320  ( 38372 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)
92311755--92311810	28	2.0	27	82	6	67	30	8	3	57	1.47
92313030--92313102	35	2.1	35	97	0	137	24	24	16	34	1.95
92317103--92317234	65	2.0	65	100	0	264	27	28	13	30	1.94
92318944--92319123	93	1.9	93	96	0	333	32	15	6	45	1.72
92320395--92320463	21	3.4	21	71	15	72	36	1	7	55	1.37
92320792--92320824	14	2.4	14	85	15	50	72	15	12	0	1.12
92320816--92320858	18	2.4	18	81	14	54	60	13	25	0	1.34
92322405--92322581	47	3.8	47	79	12	202	29	28	20	20	1.98
92330676--92330744	21	3.4	21	67	15	63	34	1	8	55	1.40
92330731--92330761	15	2.1	14	94	5	53	35	3	6	54	1.42
92331126--92331155	12	2.4	13	94	5	53	66	3	30	0	1.07
92335855--92335922	30	2.3	30	84	5	84	48	4	19	27	1.68
92336236--92336269	17	2.0	17	100	0	68	35	11	41	11	1.78
92338360--92338588	46	5.0	46	93	2	370	38	14	24	23	1.92
92338360--92338588	93	2.5	92	92	2	370	38	14	24	23	1.92
92340240--92340356	44	2.7	44	81	2	137	28	17	22	31	1.97
92340323--92340491	89	1.9	89	80	4	198	31	16	22	29	1.96
92340361--92340491	44	2.9	45	79	2	156	30	16	24	28	1.97
92342883--92342939	26	2.2	26	81	6	62	26	21	3	49	1.65
92342925--92342980	28	2.0	27	82	6	67	30	8	3	57	1.47
92344711--92344745	18	1.9	18	88	0	52	48	0	5	45	1.26
92345896--92345939	23	2.0	23	86	4	63	63	4	6	25	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92349891--92350119	3	76.0	3	72	14	152	30	3	2	63	1.25
92354178--92354349	46	3.7	46	85	1	211	20	23	13	41	1.88
92356485--92356552	30	2.3	29	82	12	77	57	2	1	38	1.23
92377734--92377856	40	3.1	40	80	2	131	32	13	19	34	1.90
92377784--92377870	40	2.2	40	82	0	102	32	10	20	36	1.87
92378564--92378591	13	2.2	13	100	0	56	28	17	25	28	1.98
92380705--92380729	12	2.1	12	100	0	50	20	48	16	16	1.82
92383180--92383248	25	2.9	24	85	8	88	53	2	5	37	1.40
92383196--92383248	25	2.2	25	93	3	90	49	3	7	39	1.49
92386215--92386268	16	3.4	16	80	7	65	40	9	12	37	1.76
92387311--92387356	23	2.0	23	86	0	65	67	0	0	32	0.91
92390788--92391273	127	3.8	124	78	9	482	26	15	20	37	1.93
92390788--92391347	127	4.4	124	77	8	479	26	15	20	36	1.93
92402812--92403697	45	19.8	45	68	18	428	32	18	21	27	1.97
92402812--92403738	134	6.9	134	91	1	1396	32	18	21	27	1.97
92402692--92403024	178	1.9	178	81	3	411	30	18	23	28	1.98
92402836--92403737	89	10.1	87	68	20	394	32	18	21	26	1.97
92405712--92406196	127	3.8	123	76	9	465	27	15	19	37	1.92
92405712--92406204	257	1.9	252	82	6	611	27	15	19	37	1.92
92407085--92407192	3	34.3	3	77	12	94	61	5	5	27	1.41
92407250--92407312	31	2.0	31	100	0	126	57	3	15	23	1.53
92407250--92407331	31	2.6	31	90	1	110	58	2	14	24	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92409154--92409186	16	2.1	16	100	0	66	33	30	0	36	1.58
92410784--92410809	12	2.2	12	100	0	52	69	7	7	15	1.35
92411554--92411593	19	2.1	19	85	0	53	62	0	0	37	0.95
92411888--92411930	17	2.6	16	82	10	50	48	0	4	46	1.22
92415413--92415459	21	2.2	21	92	0	76	27	25	25	21	1.99
92422677--92422704	4	7.0	4	100	0	56	25	0	0	75	0.81
92436054--92436132	28	2.6	31	77	16	94	46	2	2	48	1.29
92442154--92442189	16	2.2	16	100	0	72	25	0	36	38	1.56
92442170--92442260	45	2.0	45	85	2	121	27	6	28	37	1.82
92442405--92442459	15	3.4	16	80	16	53	54	1	0	43	1.10
92442411--92442459	16	2.9	18	80	20	61	55	0	0	44	0.99
92442641--92442692	15	3.6	15	80	12	56	53	1	0	44	1.11
92442776--92442816	16	2.5	17	85	14	52	53	0	2	43	1.13
92442408--92442817	120	3.4	120	94	2	702	50	5	1	42	1.36
92445174--92445219	22	2.0	23	83	4	58	60	28	4	6	1.40
92445278--92445390	42	2.9	38	80	10	122	41	28	7	22	1.81
92445735--92445875	38	4.0	38	74	17	140	60	9	26	4	1.46
92445742--92445891	66	2.3	66	94	2	257	62	8	26	3	1.38
92445749--92445912	66	2.6	62	85	8	224	59	9	27	3	1.45
92445854--92445898	23	2.0	23	86	0	63	57	8	31	2	1.41
92446465--92446531	34	2.0	32	88	11	100	53	1	0	44	1.09
92446464--92446529	15	4.1	16	75	17	66	56	1	0	42	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92451207--92451278	30	2.4	29	77	11	83	54	2	12	30	1.52
92451386--92451445	18	3.2	18	81	9	75	60	0	8	31	1.27
92457219--92457280	27	2.3	27	80	0	70	37	1	9	51	1.45
92462136--92462182	20	2.3	20	78	7	51	29	2	6	61	1.32
92462093--92462190	50	1.9	51	87	2	144	30	6	6	57	1.48
92475605--92475695	33	2.8	33	94	0	164	17	9	42	29	1.82
92477929--92477979	18	2.9	18	77	14	61	27	33	0	39	1.57
92493385--92493444	18	3.3	18	83	2	75	31	0	0	68	0.90
92493357--92493459	40	2.6	36	80	18	109	37	0	0	61	1.03
92496833--92496895	31	2.0	31	90	0	99	17	26	31	23	1.97
92497222--92497265	21	2.1	21	83	8	54	38	6	6	47	1.57
92506349--92506669	46	7.0	47	87	4	395	20	24	16	38	1.92
92508800--92508851	11	4.7	11	79	9	61	65	1	0	32	1.04
92512891--92513001	24	4.7	24	78	14	113	37	29	13	18	1.90
92512891--92513001	47	2.3	48	87	4	163	37	29	13	18	1.90
92516779--92516911	42	3.2	42	75	17	102	42	17	18	21	1.90
92516857--92516935	20	3.9	20	77	8	70	37	16	20	25	1.93
92526787--92526826	21	1.9	21	85	10	55	27	0	2	70	1.01
92527076--92527111	10	3.5	10	85	7	54	33	8	2	55	1.44
92528102--92528171	35	2.0	35	97	0	131	45	12	17	24	1.83
92529473--92529527	20	2.8	20	88	0	83	25	29	16	29	1.97
92529860--92530053	45	4.3	45	90	0	280	41	14	18	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92531798--92531838	6	7.3	6	86	10	52	68	0	19	12	1.21
92533362--92533555	45	4.3	45	91	0	289	41	15	18	24	1.89
92540612--92540646	12	2.8	12	91	4	52	0	20	0	80	0.72
92540700--92540728	12	2.3	13	94	5	51	10	6	0	82	0.83
92549658--92549789	44	3.0	43	73	12	151	32	24	22	20	1.98
92549726--92549846	57	2.1	57	96	0	224	33	22	24	19	1.97
92549656--92549919	145	1.8	145	95	1	476	33	23	24	18	1.97
92550046--92550174	44	3.0	44	79	3	136	28	22	24	24	1.99
92561146--92561298	76	2.0	76	94	2	272	45	16	11	26	1.80
92562349--92562374	3	8.7	3	100	0	52	30	0	0	69	0.89
92570801--92570830	14	2.1	14	93	0	51	46	36	0	16	1.47
92571466--92571598	54	2.4	54	83	11	153	33	24	17	25	1.96
92575547--92575579	17	1.9	17	88	11	50	42	0	6	51	1.26
92575728--92575763	17	2.0	18	89	10	56	80	0	19	0	0.71
92575728--92575757	14	2.1	14	93	0	51	83	0	16	0	0.65
92581590--92581647	24	2.5	23	83	5	64	48	5	10	36	1.60
92582778--92582896	51	2.3	54	82	4	145	18	19	19	42	1.89
92615430--92615468	12	3.2	12	81	0	51	58	0	38	2	1.12
92620233--92620267	15	2.4	15	90	4	54	25	0	8	65	1.21
92620307--92620368	28	2.2	28	82	5	72	50	0	1	48	1.10
92620461--92620505	23	2.0	23	82	8	56	35	11	2	51	1.50
92620560--92620602	20	2.2	20	83	8	52	55	0	2	41	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92636123--92636251	37	3.5	37	96	0	231	25	20	17	36	1.94
92636215--92636483	46	5.6	46	84	10	340	28	22	14	34	1.93
92636258--92636477	52	4.3	52	85	8	299	27	22	14	35	1.93
92636215--92636483	98	2.7	98	93	0	457	28	22	14	34	1.93
92639609--92639812	49	4.0	50	83	10	241	32	29	13	24	1.94
92639693--92639811	58	2.0	59	98	1	231	31	31	13	23	1.93
92639702--92639792	28	3.2	28	66	22	80	27	31	15	25	1.95
92641082--92641210	37	3.5	37	96	0	231	25	20	17	36	1.94
92641174--92641442	46	5.6	46	84	10	340	28	22	14	34	1.93
92641217--92641436	52	4.3	52	85	8	299	27	22	14	35	1.93

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