genome.fa.s3.2.7.7.80.10.50.1000.128.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: A03
Parameters: 2 7 7 80 10 50 1000
Length:  108673976

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   
          321   322   323   324   325   326   327   328   329   330   331   332   333   

This is table  128  of  333  ( 39894 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)
41290687--41290721	13	2.7	13	95	0	61	82	2	5	8	0.91
41301549--41301603	20	2.8	20	88	0	83	25	29	16	29	1.97
41318937--41319120	40	4.6	41	81	12	208	25	22	27	25	2.00
41318937--41319120	79	2.3	81	82	11	222	25	22	27	25	2.00
41318989--41319153	79	2.1	79	82	8	194	26	21	27	24	1.99
41333522--41333546	13	1.9	13	100	0	50	20	48	16	16	1.82
41333921--41333977	24	2.4	24	100	0	114	31	22	7	38	1.81
41334727--41334756	15	2.0	15	100	0	60	20	33	20	26	1.97
41338631--41338676	24	1.9	24	86	0	65	54	0	6	39	1.26
41338701--41338761	30	2.0	30	84	6	79	62	3	1	32	1.21
41338717--41338752	16	2.2	16	95	0	63	66	0	2	30	1.06
41338807--41338853	13	3.4	14	80	13	53	59	2	8	29	1.39
41347648--41347697	15	3.5	15	79	15	52	42	12	24	22	1.87
41347661--41347697	15	2.5	16	87	12	53	43	10	24	21	1.84
41351588--41351633	24	1.9	24	86	0	65	54	0	6	39	1.26
41351658--41351718	30	2.0	30	84	6	79	62	3	1	32	1.21
41351674--41351709	16	2.2	16	95	0	63	66	0	2	30	1.06
41361864--41362073	40	5.3	40	89	2	291	25	27	24	22	2.00
41366991--41367030	21	1.9	21	89	0	62	25	15	25	35	1.94
41370947--41371052	48	2.2	48	93	0	176	33	5	27	33	1.80
41371186--41371257	37	1.9	37	94	0	126	25	20	31	22	1.98
41380127--41380312	40	4.7	40	86	5	225	26	26	21	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41382080--41382279	39	5.1	39	90	1	303	30	28	20	21	1.98
41383546--41383623	39	2.0	39	100	0	156	38	30	7	23	1.83
41389577--41389639	26	2.4	27	76	10	69	34	6	6	52	1.52
41389770--41389823	24	2.3	24	77	3	65	38	0	1	59	1.08
41392081--41392222	40	3.6	40	92	2	225	23	22	27	26	2.00
41393609--41393649	5	8.8	5	84	10	52	39	0	0	60	0.96
41393947--41393980	17	2.1	16	88	5	50	35	5	0	58	1.22
41395855--41395887	5	6.6	5	92	0	57	18	3	0	78	0.87
41396089--41396200	28	4.0	28	98	0	215	41	10	33	14	1.80
41402711--41402785	36	2.1	36	94	0	132	37	18	10	33	1.86
41410120--41410326	47	4.2	48	78	7	168	30	28	16	25	1.97
41412650--41412746	30	3.2	30	81	10	99	57	14	17	10	1.64
41412658--41412737	15	5.4	15	80	7	92	58	13	17	10	1.62
41412669--41412746	15	5.2	15	78	9	79	56	15	16	11	1.67
41416280--41416486	47	4.2	48	79	7	177	30	28	16	24	1.96
41418854--41418884	13	2.4	13	94	0	53	22	19	32	25	1.97
41422457--41422648	40	4.8	40	88	4	192	27	27	21	23	1.99
41422428--41422647	80	2.8	80	78	7	232	28	26	20	23	1.99
41426755--41426786	16	2.0	16	100	0	64	62	12	6	18	1.50
41428462--41428500	12	3.5	12	86	13	57	61	7	5	25	1.44
41428549--41428578	15	2.0	15	93	0	51	73	0	10	16	1.09
41432691--41432725	18	1.9	18	88	0	52	28	2	20	48	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41433276--41433315	11	3.6	11	82	0	53	57	5	15	22	1.57
41439949--41439983	17	2.1	17	94	0	61	31	37	11	20	1.88
41442776--41442853	37	2.1	37	87	0	111	26	32	16	24	1.96
41442972--41443340	47	7.8	47	94	1	596	28	30	8	32	1.87
41446288--41446330	21	2.0	21	100	0	86	23	18	25	32	1.97
41446317--41446422	25	4.2	25	92	0	176	33	14	32	20	1.92
41451427--41451534	54	2.0	54	100	0	216	29	3	22	44	1.70
41454033--41454066	17	1.9	18	88	5	52	41	0	23	35	1.55
41457644--41457691	24	1.9	26	87	8	73	35	31	12	20	1.90
41462622--41462675	24	2.2	24	96	0	99	25	12	12	48	1.78
41466844--41466878	17	2.1	17	88	0	52	34	0	2	62	1.10
41466934--41466984	20	2.4	22	83	6	70	33	1	0	64	1.05
41466934--41466999	23	2.9	24	78	17	70	33	4	0	62	1.16
41469225--41469581	48	7.4	48	95	0	615	35	7	28	29	1.83
41469754--41469856	37	2.8	37	90	0	161	25	20	29	25	1.99
41480459--41480551	40	2.3	40	83	5	100	26	22	26	23	2.00
41483550--41483653	37	2.8	37	89	2	156	25	29	19	25	1.98
41483793--41487676	48	80.9	48	86	7	5151	31	26	7	35	1.83
41485101--41485204	37	2.8	37	89	2	156	25	28	19	25	1.98
41488672--41488967	148	2.0	148	98	0	574	35	18	10	35	1.85
41490276--41490307	11	2.9	11	100	0	64	46	18	6	28	1.73
41491129--41491447	40	8.0	40	95	0	548	26	29	22	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41494103--41494180	29	2.7	28	80	11	95	25	14	30	29	1.94
41502080--41502157	29	2.7	28	80	11	95	25	14	30	29	1.94
41503860--41503967	37	2.9	37	94	0	180	25	31	19	24	1.98
41504108--41504484	48	7.9	48	95	0	655	29	28	6	35	1.83
41505481--41505776	148	2.0	148	97	0	565	35	18	9	35	1.84
41508607--41508813	53	3.8	54	76	3	193	20	24	17	37	1.94
41513153--41513264	58	1.9	58	92	0	188	30	17	21	30	1.96
41519840--41519910	34	2.1	34	100	0	142	49	22	8	19	1.75
41534105--41534199	40	2.4	40	85	0	118	33	24	18	23	1.97
41535484--41535552	33	2.1	33	89	5	104	40	13	27	18	1.88
41536205--41536509	103	3.0	103	81	4	305	32	20	18	29	1.96
41542004--41542108	53	2.0	53	86	0	147	21	23	14	40	1.90
41543340--41543391	25	2.1	25	96	0	95	46	9	5	38	1.61
41549433--41549639	53	3.8	54	78	1	191	19	23	17	39	1.92
41549443--41549627	55	3.4	53	78	2	163	19	22	18	38	1.93
41552638--41552674	17	2.2	17	100	0	74	54	5	21	18	1.64
41570761--41570787	5	5.4	5	100	0	54	18	0	0	81	0.69
41572174--41572206	17	1.9	18	88	11	52	42	9	0	48	1.35
41579572--41579614	18	2.5	17	75	17	52	58	0	11	30	1.34
41587840--41587900	30	2.0	32	83	6	81	60	4	9	24	1.48
41588291--41588338	18	2.6	19	80	12	55	64	6	2	27	1.28
41588501--41588538	20	1.9	20	84	10	51	63	2	2	31	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41590147--41590919	83	9.2	83	86	8	1050	27	19	20	32	1.97
41590576--41590925	184	1.9	184	95	0	628	27	19	19	33	1.96
41602260--41602296	19	2.0	19	85	15	51	59	5	10	24	1.52
41602475--41602556	1	82.0	1	97	0	155	98	0	0	1	0.10
41602545--41602601	28	2.1	27	84	15	73	68	0	3	28	1.06
41602685--41602804	1	120.0	1	84	0	150	91	0	0	7	0.45
41602686--41602821	48	2.6	56	79	11	148	87	0	0	11	0.58
41602697--41602843	71	2.1	70	87	2	213	85	0	0	14	0.59
41602799--41602905	19	5.2	19	67	22	56	68	1	0	28	1.06
41602762--41602908	15	10.5	15	71	21	65	73	1	0	24	0.96
41602801--41602905	23	5.0	21	72	15	83	68	1	0	28	1.06
41602739--41602905	4	42.5	4	74	15	66	74	1	0	23	0.92
41617855--41618032	27	6.6	27	82	5	171	29	28	15	26	1.96
41617876--41618031	82	1.9	81	85	6	217	28	28	15	26	1.96
41617855--41618031	54	3.3	54	80	7	189	29	28	15	26	1.96
41623311--41623417	47	2.3	47	76	9	105	39	8	27	25	1.84
41623618--41623645	1	28.0	1	100	0	56	100	0	0	0	0.00
41624519--41624929	48	8.6	48	82	0	491	27	27	16	27	1.97
41624514--41624929	96	4.3	96	92	0	654	27	27	16	28	1.97
41642637--41642814	27	6.6	27	82	3	178	29	28	14	27	1.95
41642658--41642813	82	1.9	81	86	3	224	29	28	14	27	1.95
41650750--41650927	27	6.6	27	84	3	205	29	28	15	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41650771--41650926	82	1.9	81	88	3	233	29	28	15	26	1.96
41658792--41658968	27	6.6	27	81	5	169	29	28	15	26	1.96
41658792--41658967	54	3.3	53	83	3	199	29	28	15	26	1.96
41664300--41664872	49	11.9	49	94	3	972	32	8	29	29	1.86
41664300--41664872	96	6.0	97	95	2	966	32	8	29	29	1.86
41664300--41664872	145	4.0	145	95	1	996	32	8	29	29	1.86
41665789--41666199	48	8.6	48	82	0	491	27	27	16	27	1.97
41665784--41666199	96	4.3	96	92	0	654	27	27	16	28	1.97
41672529--41672572	22	2.0	22	100	0	88	36	22	13	27	1.92
41689984--41690070	43	2.0	44	95	2	158	36	24	13	25	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   
          321   322   323   324   325   326   327   328   329   330   331   332   333