genome.fa.s12.2.7.7.80.10.50.1000.17.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  17  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)
4728785--4728913	50	2.5	51	88	5	190	35	15	22	26	1.94
4728889--4729068	31	5.8	31	88	2	263	28	20	26	25	1.99
4729097--4729251	42	3.6	42	84	5	159	30	13	26	29	1.94
4730985--4731078	47	2.0	47	97	0	179	46	3	27	22	1.67
4738059--4738128	31	2.4	29	75	11	79	47	4	5	42	1.47
4738877--4738945	31	2.2	31	87	5	95	36	10	11	42	1.75
4739247--4739278	3	10.7	3	93	0	55	0	31	0	68	0.90
4743248--4743292	23	2.0	23	95	0	81	37	0	2	60	1.09
4743502--4743568	31	2.2	31	83	0	80	47	14	14	22	1.81
4745289--4745323	17	2.1	17	89	10	54	54	5	8	31	1.54
4745436--4745567	23	5.8	22	66	23	60	54	4	7	33	1.49
4745525--4745567	11	3.9	11	81	0	50	60	4	0	34	1.17
4745451--4745590	71	2.0	70	81	8	158	55	5	8	30	1.51
4746272--4746322	17	3.0	16	86	11	66	74	0	5	19	1.02
4747017--4747053	17	2.1	18	90	5	58	62	0	13	24	1.31
4748297--4748359	29	2.3	27	75	19	67	47	0	3	49	1.17
4748449--4748525	39	2.0	39	87	5	111	38	2	6	51	1.41
4748441--4748528	39	2.4	35	72	18	90	38	2	5	53	1.37
4748676--4748721	15	3.1	15	70	17	51	23	10	10	54	1.67
4750127--4750343	89	2.4	88	82	9	246	40	18	7	33	1.79
4750127--4750346	91	2.5	89	82	10	254	39	19	7	33	1.80
4750420--4750464	18	2.5	18	82	7	56	51	0	2	46	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4750674--4750726	18	3.1	18	81	10	65	26	0	3	69	1.05
4750674--4750726	16	3.1	16	86	10	61	26	0	3	69	1.05
4750684--4750777	9	10.4	9	75	15	70	26	2	2	69	1.11
4750666--4750787	55	2.2	54	83	11	142	31	1	2	64	1.16
4750868--4751019	82	1.9	82	81	5	191	37	6	18	37	1.77
4751421--4751466	3	15.3	3	100	0	92	0	32	0	67	0.91
4760635--4761192	263	2.1	266	80	6	652	40	8	12	39	1.72
4762147--4762459	126	2.4	127	84	3	378	39	18	15	26	1.91
4762783--4762953	3	56.3	3	67	11	80	60	2	8	28	1.41
4762793--4762895	52	2.0	52	84	7	138	62	1	7	28	1.34
4762878--4762946	28	2.4	27	79	13	77	56	4	8	30	1.49
4762905--4762941	16	2.4	15	90	4	56	59	5	8	27	1.48
4764378--4765269	84	10.4	84	83	5	972	19	22	21	37	1.95
4764825--4765040	44	5.1	44	60	20	109	17	22	22	37	1.94
4764471--4765269	84	9.4	84	84	4	987	18	22	21	37	1.94
4765339--4765463	64	2.0	64	95	0	223	38	14	15	32	1.87
4777975--4778329	127	2.8	126	80	5	311	39	18	15	26	1.91
4778015--4778329	127	2.4	128	85	2	389	40	19	14	25	1.90
4778688--4778863	3	57.3	3	69	10	97	60	1	8	29	1.33
4778703--4778863	24	6.2	25	76	19	116	59	1	8	30	1.35
4778795--4778851	16	3.9	16	76	17	61	57	3	8	29	1.45
4779617--4779649	16	1.9	17	88	11	50	75	3	18	3	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4786900--4786924	10	2.5	10	100	0	50	64	8	8	20	1.46
4787501--4787581	34	2.4	34	83	4	92	43	16	8	32	1.78
4792001--4792109	53	2.1	53	100	0	218	47	12	7	32	1.69
4797999--4798038	21	1.9	21	84	0	53	62	10	5	22	1.46
4808845--4808894	21	2.3	22	82	3	57	64	4	6	26	1.35
4809151--4809243	45	2.1	45	100	0	186	34	2	12	50	1.53
4812450--4812486	18	2.1	18	89	0	56	59	13	8	18	1.58
4818611--4818648	3	12.7	3	100	0	76	68	0	0	31	0.90
4820593--4820627	18	1.9	18	88	11	54	60	0	11	28	1.32
4822127--4822166	20	2.0	21	85	14	57	7	5	20	67	1.34
4822597--4822751	45	3.5	45	76	8	163	27	24	18	29	1.98
4822900--4823294	44	9.0	42	63	17	126	27	21	24	26	1.99
4822797--4823337	88	6.2	88	86	1	683	29	20	23	27	1.99
4845008--4845038	15	2.1	15	94	5	55	64	6	6	22	1.40
4855183--4855291	54	2.0	54	96	0	200	25	16	13	44	1.85
4863426--4863490	31	2.1	30	86	8	87	35	6	4	53	1.46
4864156--4864207	27	1.9	28	84	7	72	19	13	13	53	1.72
4867039--4867119	36	2.2	36	85	12	112	39	1	2	56	1.20
4870077--4870222	37	4.0	37	93	1	242	24	21	16	36	1.94
4870186--4870454	46	5.6	46	84	10	340	28	22	14	34	1.93
4870229--4870448	52	4.3	52	85	8	299	27	22	14	35	1.93
4870186--4870454	98	2.7	98	93	0	457	28	22	14	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4874035--4874114	39	2.1	39	90	0	124	40	31	12	16	1.85
4877355--4877438	36	2.3	36	83	6	116	35	27	13	23	1.92
4877930--4877956	9	3.0	9	100	0	54	22	11	0	66	1.22
4884652--4884693	6	7.0	6	100	0	84	33	0	66	0	0.92
4886100--4886158	22	2.8	20	79	18	59	71	0	10	18	1.14
4886401--4886476	27	2.8	26	78	9	71	51	3	18	26	1.63
4896153--4896185	17	1.9	17	93	0	57	39	18	18	24	1.92
4897664--4897820	43	3.7	43	80	7	185	24	17	26	31	1.97
4899620--4899651	16	1.9	17	93	6	57	50	6	15	28	1.68
4905447--4905483	3	12.3	3	100	0	74	32	0	0	67	0.91
4905696--4905740	19	2.2	20	81	18	58	68	0	26	4	1.08
4907989--4908044	28	2.1	26	86	6	76	51	1	1	44	1.22
4915844--4915981	40	3.5	40	74	4	118	31	11	18	37	1.87
4915946--4916097	78	1.9	78	97	0	286	32	14	21	31	1.93
4916899--4916971	29	2.5	29	77	6	76	32	13	17	35	1.89
4917383--4917409	13	2.1	13	100	0	54	11	51	14	22	1.73
4918365--4918437	27	2.7	27	79	14	71	38	2	4	54	1.34
4919460--4919492	4	8.2	4	93	0	57	27	0	21	51	1.48
4925029--4925133	52	2.0	52	96	0	192	48	15	9	26	1.75
4934116--4934143	5	5.6	5	100	0	56	60	0	0	39	0.97
4941735--4941793	30	2.0	30	89	0	91	27	1	11	59	1.42
4942772--4942824	26	2.0	26	100	0	106	35	11	22	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4950221--4950330	26	4.2	26	94	2	177	34	4	24	36	1.76
4951948--4952087	27	5.2	27	85	2	165	18	23	22	35	1.96
4951948--4952087	54	2.6	55	87	2	185	18	23	22	35	1.96
4966807--4966856	2	25.0	2	95	0	91	0	48	2	50	1.12
4972046--4972189	55	2.5	57	84	5	202	27	7	11	54	1.63
4972077--4972271	55	3.7	52	81	8	225	22	7	13	55	1.63
4982610--4982658	15	3.3	15	88	5	82	34	0	14	51	1.43
4983049--4983165	21	5.5	21	88	2	153	15	23	26	35	1.94
4985525--4985576	26	2.0	26	100	0	104	46	11	19	23	1.82
4986419--4986483	21	3.2	21	73	20	75	40	23	26	10	1.87
4986401--4986501	39	2.6	39	93	0	166	36	23	26	12	1.91
5000800--5000852	22	2.5	22	85	11	67	64	13	0	22	1.28
5001043--5001076	17	2.0	17	100	0	68	29	29	5	35	1.81
5001922--5001966	20	2.4	18	88	7	63	68	8	8	13	1.38
5001920--5001968	19	2.6	18	81	9	62	65	12	10	12	1.48
5009516--5009576	30	2.0	30	83	0	77	31	22	8	37	1.84
5010627--5010658	16	2.0	16	93	0	55	59	9	0	31	1.29
5019379--5019417	19	2.1	19	100	0	78	38	20	15	25	1.92
5019543--5019596	26	2.1	26	100	0	108	25	11	18	44	1.83
5021772--5021822	19	2.7	18	85	11	66	9	9	1	78	1.04
5038321--5038552	49	4.7	49	78	5	241	30	26	16	26	1.97
5038799--5038852	27	2.0	27	85	0	72	38	14	5	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5052159--5052184	5	5.2	5	100	0	52	80	0	0	19	0.71
5053329--5053362	10	3.2	10	91	8	50	61	0	38	0	0.96
5053331--5053362	6	5.7	6	85	14	50	62	0	37	0	0.95
5058452--5058514	28	2.2	28	91	0	99	31	6	30	31	1.83
5062782--5062811	12	2.5	12	94	0	51	20	53	26	0	1.46
5063863--5063925	28	2.2	28	88	0	90	33	6	28	31	1.82
5064043--5064089	24	1.9	25	82	4	60	65	6	21	6	1.38
5067433--5067479	21	2.2	22	88	3	69	21	36	19	23	1.95
5078336--5078368	2	16.5	2	100	0	66	0	48	0	51	1.00
5086181--5086251	35	2.0	35	100	0	142	26	22	14	36	1.92

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