genome.fa.s1.2.7.7.80.10.50.1000.15.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: A01
Parameters: 2 7 7 80 10 50 1000
Length:  104050246

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   

This is table  15  of  316  ( 37835 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)
4561465--4561502	19	2.0	20	85	15	53	36	0	23	39	1.55
4575591--4575763	46	3.7	46	77	10	190	21	20	27	30	1.98
4575588--4575758	93	1.8	93	91	0	279	21	21	28	29	1.98
4575988--4576025	19	2.0	20	85	15	53	36	0	23	39	1.55
4585468--4585543	38	2.0	38	92	0	125	38	15	6	39	1.74
4588998--4589243	83	2.9	86	86	4	329	30	12	9	47	1.74
4589274--4589323	25	2.0	25	100	0	100	44	0	16	40	1.47
4599123--4599173	18	2.8	18	82	5	59	27	17	0	54	1.43
4600029--4600196	87	1.9	87	81	4	205	25	11	21	41	1.87
4609603--4609664	31	2.0	31	100	0	124	29	9	19	41	1.83
4621046--4621091	21	2.3	20	82	14	51	34	6	0	58	1.24
4623496--4623550	29	2.0	26	83	13	67	63	14	3	18	1.44
4624689--4624743	28	2.0	28	82	13	69	23	14	3	58	1.52
4631074--4631106	17	2.1	16	88	11	50	30	0	0	69	0.88
4631153--4631211	21	2.8	22	80	7	61	22	0	8	69	1.15
4631182--4631231	26	2.0	24	88	7	73	30	0	6	64	1.18
4634141--4634195	28	2.0	28	82	13	69	23	14	3	58	1.52
4640879--4640971	18	5.2	18	90	0	150	32	15	23	29	1.95
4646629--4646658	7	4.3	7	95	0	51	33	0	23	43	1.54
4652816--4652854	18	2.1	19	85	4	53	79	0	15	5	0.90
4654632--4654660	9	3.2	9	100	0	58	20	20	31	27	1.98
4655324--4655371	8	5.8	8	79	15	53	25	0	2	72	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4655316--4655374	18	3.4	17	83	4	73	27	1	1	69	1.07
4655316--4655373	17	3.3	17	82	4	71	25	1	1	70	1.06
4657137--4657164	7	4.0	7	100	0	56	42	0	0	57	0.99
4657153--4657203	20	2.5	22	81	12	72	29	0	1	68	1.00
4658003--4658036	17	1.9	18	88	5	52	50	11	2	35	1.54
4661509--4661536	8	3.5	8	100	0	56	10	10	0	78	0.96
4661506--4661543	16	2.4	16	86	4	60	7	7	0	84	0.79
4661908--4661961	21	2.6	21	90	0	81	35	5	27	31	1.80
4662580--4662607	13	2.2	13	100	0	56	25	25	14	35	1.93
4668423--4668757	171	2.0	171	95	0	598	27	25	17	29	1.98
4676557--4676613	29	2.0	29	96	0	105	33	29	5	31	1.80
4676485--4676685	101	2.0	101	98	0	384	39	26	5	28	1.78
4676586--4676754	72	2.3	72	100	0	338	42	25	5	26	1.76
4676755--4676798	3	14.7	3	100	0	88	68	0	0	31	0.90
4681017--4681200	72	2.6	72	99	0	359	41	23	6	27	1.79
4681201--4681247	3	15.7	3	100	0	94	68	0	0	31	0.90
4682155--4682197	17	2.5	17	96	0	77	48	9	11	30	1.71
4682361--4682398	18	2.1	18	100	0	76	21	15	26	36	1.93
4684952--4684985	17	2.0	17	100	0	68	35	17	5	41	1.74
4689951--4690529	283	2.0	290	82	6	712	23	19	11	45	1.83
4702842--4702876	9	4.0	9	96	3	63	34	0	0	65	0.93
4706171--4707510	120	11.2	120	98	0	2542	43	2	5	48	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4706502--4706535	17	2.0	17	88	0	50	47	2	0	50	1.16
4706621--4706655	18	2.0	17	88	5	52	45	0	0	54	0.99
4707221--4707254	17	2.0	17	88	11	52	44	0	0	55	0.99
4707340--4707374	18	2.0	17	88	5	52	45	0	0	54	0.99
4707459--4707493	18	2.0	17	88	5	52	45	0	0	54	0.99
4707729--4707797	16	4.2	16	92	3	120	36	37	1	24	1.65
4707729--4707797	33	2.1	32	94	2	120	36	37	1	24	1.65
4711218--4711298	18	4.3	18	80	11	83	32	6	1	60	1.29
4711232--4711297	25	2.6	24	76	9	69	33	3	1	62	1.20
4731853--4732974	86	13.0	87	84	6	1189	35	21	22	20	1.96
4732165--4732924	43	17.7	43	68	16	391	35	21	22	19	1.96
4731853--4732964	173	6.5	173	85	5	1185	35	21	22	20	1.96
4732726--4732962	43	5.4	44	73	8	189	37	21	22	18	1.94
4733484--4733569	30	2.9	30	92	0	145	17	52	5	24	1.66
4734056--4734138	3	27.3	3	70	20	50	30	6	1	62	1.27
4734060--4734142	18	4.4	18	81	13	87	31	6	1	61	1.28
4734213--4734266	12	4.5	13	73	21	55	31	0	7	61	1.24
4734178--4734358	92	1.9	92	81	13	219	27	9	4	58	1.48
4746755--4746794	20	2.0	20	85	0	53	55	20	10	15	1.68
4749285--4749314	13	2.4	13	94	5	53	43	0	0	56	0.99
4752040--4752257	39	5.6	39	89	0	328	37	23	27	12	1.90
4762542--4762860	3	106.7	3	65	16	103	62	2	6	28	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4762541--4762597	25	2.3	24	82	11	71	61	1	1	35	1.17
4762898--4762926	15	1.9	15	100	0	58	82	0	13	3	0.79
4765055--4765141	18	4.8	18	85	0	120	27	21	16	34	1.95
4765052--4765141	36	2.5	36	88	0	144	26	21	17	34	1.95
4771301--4771354	22	2.4	23	81	6	76	46	0	0	53	1.00
4780374--4780514	24	5.8	24	72	8	106	17	26	21	34	1.95
4780912--4780955	19	2.3	19	100	0	88	15	13	25	45	1.83
4789099--4789280	46	4.0	46	90	1	249	39	14	24	21	1.91
4791440--4791567	40	3.3	38	80	6	123	32	26	20	21	1.97
4794199--4794369	85	2.0	85	98	0	333	26	29	14	29	1.95
4803075--4803126	21	2.5	21	81	6	61	26	36	21	15	1.93
4806636--4806722	19	4.7	19	94	5	160	36	11	14	36	1.83
4806626--4806722	36	2.6	35	77	20	108	37	11	14	37	1.82
4806717--4806760	22	2.0	21	86	4	61	34	6	15	43	1.74
4819498--4819602	44	2.4	43	82	4	113	38	21	20	20	1.94
4819981--4820139	44	3.6	44	76	5	178	35	19	23	21	1.96
4819972--4820177	87	2.4	87	95	0	367	36	19	21	22	1.95
4819981--4820270	131	2.2	131	82	6	347	36	20	21	21	1.95
4820027--4820221	43	4.5	42	79	10	214	36	20	20	22	1.95
4820027--4820265	44	5.5	41	77	7	190	36	21	20	21	1.95
4820778--4820827	22	2.3	22	100	0	100	26	54	8	12	1.64
4820909--4820944	9	3.8	9	86	13	54	0	0	16	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4820909--4820946	20	1.9	20	100	0	76	0	0	21	78	0.74
4821274--4821367	3	31.3	3	72	19	65	28	3	1	67	1.13
4821274--4821362	18	5.1	18	78	15	89	28	3	1	67	1.14
4821573--4821623	16	3.1	17	75	11	52	31	0	7	60	1.25
4822910--4822948	13	3.0	13	100	0	78	38	15	7	38	1.76
4822910--4822961	26	2.0	26	81	7	61	38	17	9	34	1.82
4822946--4822978	17	1.9	17	100	0	66	48	18	15	18	1.81
4823421--4823484	13	4.9	13	72	14	60	39	17	6	37	1.75
4828582--4828656	18	4.2	18	89	0	105	33	12	24	30	1.91
4833979--4834020	18	2.3	18	84	8	50	59	11	4	23	1.51
4834197--4834346	3	50.3	3	70	13	71	62	2	3	31	1.25
4834265--4834342	41	1.9	39	82	10	95	64	2	2	30	1.21
4842544--4842585	16	2.6	16	77	11	50	19	0	4	76	0.96
4847691--4847796	54	2.0	54	96	0	194	43	16	20	18	1.88
4860060--4860128	34	2.0	34	100	0	138	40	14	20	24	1.90
4860436--4860465	6	5.0	6	100	0	60	33	50	16	0	1.46
4877053--4877158	54	2.0	54	96	0	194	43	16	20	18	1.88
4889966--4890004	6	6.5	6	93	0	60	43	38	17	0	1.50
4889970--4890007	18	2.1	18	95	0	67	42	42	15	0	1.47
4897938--4897970	16	2.1	16	88	11	50	42	0	9	48	1.35
4903997--4904036	20	2.0	20	100	0	80	25	10	10	55	1.64
4904764--4904974	52	4.2	50	79	9	216	23	15	29	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4905920--4905958	20	2.0	20	94	0	69	15	41	25	17	1.89
4906338--4906375	18	2.1	18	100	0	76	44	10	18	26	1.82
4907247--4907318	22	3.4	21	70	12	58	56	1	1	40	1.16
4907588--4907626	19	2.1	19	85	0	51	51	0	0	48	1.00
4915125--4915209	3	28.7	3	81	13	97	30	3	1	64	1.17
4917860--4917889	15	1.9	15	93	6	51	50	3	0	46	1.18
4946955--4947123	93	1.8	93	94	0	302	28	28	21	21	1.99
4946946--4947165	46	4.8	46	82	10	270	28	28	21	21	1.98
4949811--4949863	16	3.2	16	94	5	97	24	0	37	37	1.56
4949844--4949934	45	2.0	45	85	2	121	27	6	28	37	1.82

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