genome.fa.s5.2.7.7.80.10.50.1000.138.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: A05
Parameters: 2 7 7 80 10 50 1000
Length:  100714657

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   

This is table  138  of  318  ( 38109 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)
42795430--42795464	17	2.1	16	89	10	52	65	0	2	31	1.07
42797034--42797058	13	1.9	13	100	0	50	32	20	16	32	1.94
42797608--42797785	27	6.6	26	83	6	187	26	15	28	29	1.96
42797609--42797764	82	1.9	81	86	3	224	26	15	28	29	1.96
42797608--42797785	82	2.2	81	83	3	223	26	15	28	29	1.96
42808719--42808780	21	3.0	21	75	0	61	46	14	22	16	1.83
42808750--42808811	21	3.0	21	82	0	79	51	14	17	16	1.76
42811054--42811181	50	2.6	50	82	6	154	26	28	17	27	1.98
42811054--42811211	50	3.2	48	79	11	144	24	29	18	27	1.98
42811099--42811219	50	2.5	50	83	2	156	22	31	19	26	1.98
42812917--42812943	2	13.5	2	100	0	54	51	0	0	48	1.00
42813959--42814005	24	2.0	23	84	16	60	59	6	0	34	1.23
42833205--42833235	16	1.9	16	93	0	53	35	22	0	41	1.54
42833202--42833241	20	2.0	20	85	0	53	37	22	0	40	1.54
42833428--42833682	55	4.8	54	76	12	226	22	25	16	35	1.94
42833473--42833675	108	1.9	110	84	4	277	24	25	16	33	1.96
42837817--42840470	332	8.0	332	99	0	5227	35	20	4	40	1.72
42840840--42841029	97	2.0	97	100	0	380	25	15	7	51	1.69
42845464--42845589	47	2.7	47	78	10	125	25	27	17	29	1.97
42845466--42845618	47	3.3	46	73	17	120	24	28	18	28	1.98
42853504--42853560	29	2.0	28	83	12	73	33	5	26	35	1.79
42855657--42855715	30	2.0	30	86	0	82	30	23	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42856034--42856058	12	2.1	12	100	0	50	60	16	8	16	1.58
42860691--42860717	7	3.9	7	100	0	54	74	0	0	25	0.83
42866785--42866996	43	5.0	42	77	6	167	33	25	15	26	1.95
42872712--42872756	21	2.1	21	87	0	63	53	13	2	31	1.52
42877510--42877542	2	16.5	2	100	0	66	0	0	48	51	1.00
42884576--42884759	90	2.0	90	98	0	359	41	10	11	36	1.76
42890298--42890451	77	2.0	77	88	0	227	28	7	7	56	1.54
42891309--42891365	28	2.0	30	82	6	73	33	0	8	57	1.29
42891856--42891891	16	2.2	16	90	9	56	30	0	16	52	1.44
42893719--42893878	41	3.9	41	91	0	257	31	24	23	20	1.98
42893895--42893996	53	1.9	52	82	5	125	51	28	1	17	1.56
42894080--42894118	14	2.8	14	88	0	51	12	0	46	41	1.42
42895266--42895308	22	2.0	22	100	0	86	27	18	20	32	1.96
42899540--42899660	43	2.8	43	87	2	172	23	15	32	28	1.95
42899636--42899687	27	1.9	27	96	0	95	23	21	36	19	1.95
42909618--42909642	13	1.9	13	100	0	50	40	4	8	48	1.51
42909770--42909818	24	2.0	24	96	0	89	40	4	2	53	1.32
42910398--42910632	41	5.7	41	84	3	260	22	22	23	30	1.99
42910794--42910833	19	2.1	19	100	0	80	15	20	10	55	1.68
42916663--42916702	22	1.9	22	85	10	57	40	5	17	37	1.72
42920839--42920872	11	3.0	12	87	12	54	35	8	14	41	1.77
42930100--42930156	25	2.3	25	100	0	114	40	3	7	49	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42930847--42930904	18	3.4	18	81	6	68	55	0	44	0	0.99
42930851--42930904	15	3.4	15	87	10	72	55	0	44	0	0.99
42930847--42930903	12	5.0	12	81	12	66	54	0	45	0	0.99
42930903--42930931	3	9.7	3	100	0	58	34	0	34	31	1.58
42932863--42932893	3	10.7	3	93	6	55	70	0	29	0	0.87
42934829--42935012	50	3.7	50	80	1	208	29	26	19	25	1.99
42934829--42935012	101	1.8	99	84	2	251	29	26	19	25	1.99
42940811--42940840	15	2.0	15	93	0	51	30	13	26	30	1.94
42943100--42943136	17	2.1	18	90	5	58	35	5	2	56	1.36
42943717--42943804	42	2.1	43	82	2	106	32	25	21	20	1.97
42946752--42946829	33	2.4	33	76	8	86	30	17	24	26	1.97
42948679--42948724	17	2.6	17	89	3	65	67	10	0	21	1.21
42952837--42952861	10	2.5	10	100	0	50	40	0	8	52	1.31
42965494--42966264	77	9.9	75	73	14	523	28	16	21	32	1.96
42966202--42966592	88	4.4	88	86	5	556	29	15	20	34	1.94
42965496--42966895	476	2.8	473	81	11	1412	27	16	21	34	1.95
42966432--42966459	14	2.0	14	100	0	56	14	14	7	64	1.48
42966644--42966789	73	2.0	73	87	2	213	26	18	25	30	1.98
42966769--42966799	14	2.2	14	100	0	62	12	12	6	67	1.40
42966769--42966969	109	1.9	105	83	6	260	23	16	16	42	1.88
42968964--42968988	10	2.5	10	100	0	50	40	0	8	52	1.31
42971551--42971602	26	2.0	26	96	0	95	28	11	17	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42978797--42978841	19	2.2	20	84	7	56	44	0	6	48	1.29
42979263--42979289	6	4.5	6	100	0	54	85	0	14	0	0.61
42979894--42979960	31	2.2	31	94	0	116	46	2	8	41	1.50
42980524--42980565	22	2.0	22	85	4	59	59	14	11	14	1.61
42981498--42981546	3	16.3	3	95	0	89	32	2	0	65	1.04
42986932--42986975	5	8.6	5	85	14	63	20	0	0	79	0.73
42986923--42986971	19	2.6	19	78	12	64	18	0	0	81	0.69
42986926--42986975	26	1.9	26	88	8	75	20	0	0	80	0.72
42986932--42986975	14	2.9	15	86	13	63	20	0	0	79	0.73
42986933--42986963	9	3.3	9	95	4	53	19	0	0	80	0.71
43002852--43003636	44	17.5	45	71	8	287	32	17	19	29	1.95
43002852--43003413	133	4.2	133	79	3	475	33	17	19	30	1.94
43003473--43003700	89	2.6	89	76	4	217	31	18	23	26	1.98
43005443--43005497	3	18.3	3	77	7	58	34	3	1	60	1.25
43005452--43005493	18	2.3	18	91	0	66	38	4	0	57	1.20
43006034--43006072	18	2.2	18	95	0	69	20	17	12	48	1.80
43007251--43007303	23	2.3	22	78	18	54	0	26	3	69	1.05
43009256--43009304	25	2.0	25	87	0	71	36	8	18	36	1.81
43015561--43015605	23	1.9	24	86	4	65	20	2	51	26	1.59
43016726--43016818	45	2.0	46	85	2	125	47	15	6	31	1.70
43017414--43017451	3	12.7	3	100	0	76	0	34	0	65	0.93
43028575--43028641	34	2.0	34	82	5	82	50	13	8	26	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43028892--43028970	27	2.9	27	80	3	86	60	5	10	24	1.48
43028900--43029000	27	3.7	27	74	13	91	59	3	12	23	1.50
43032220--43032263	17	2.7	16	82	6	52	25	9	4	61	1.45
43032787--43033117	131	2.5	130	77	2	338	29	17	18	34	1.94
43033067--43033309	132	1.8	132	80	2	292	28	18	17	35	1.93
43034232--43034352	50	2.4	50	87	2	163	26	26	32	14	1.95
43034227--43034390	50	3.3	50	82	0	150	23	25	35	16	1.95
43049371--43049465	48	2.0	49	97	2	183	46	5	15	32	1.69
43050920--43051092	92	1.9	91	84	7	233	31	21	23	24	1.98
43053104--43053272	92	1.8	91	84	3	232	39	19	8	31	1.83
43053293--43053343	18	2.6	20	78	12	61	60	0	5	33	1.21
43053287--43053373	37	2.3	38	78	9	99	59	0	4	35	1.18
43053376--43053414	19	2.0	19	90	5	60	61	2	0	35	1.10
43055144--43055271	38	3.4	38	87	2	159	36	13	17	32	1.88
43056903--43056937	18	1.9	18	94	0	61	20	0	25	54	1.45
43057567--43057618	17	3.1	17	78	10	63	57	0	1	40	1.10
43058124--43058166	22	2.0	22	81	9	52	34	2	6	55	1.39
43059065--43059108	3	14.7	3	100	0	88	31	0	0	68	0.90
43059405--43059448	21	2.0	22	82	8	54	34	6	11	47	1.66
43061876--43061918	21	2.0	21	86	8	61	37	6	0	55	1.27
43066274--43066307	16	2.1	17	88	5	52	38	0	0	61	0.96
43066436--43066493	23	2.6	22	81	8	64	56	0	1	41	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43068257--43068312	21	2.7	21	88	0	85	25	7	37	30	1.82
43071695--43071720	13	2.0	13	100	0	52	69	7	7	15	1.35
43072043--43072074	12	2.7	12	95	0	55	18	18	6	56	1.62
43072213--43072272	25	2.5	26	75	22	67	56	3	35	5	1.37
43074971--43075097	62	2.0	62	100	0	254	32	26	7	33	1.85
43079733--43079775	18	2.4	18	92	0	68	41	0	0	58	0.98
43081915--43081990	22	3.7	21	76	15	68	40	17	6	35	1.75
43081944--43082041	35	2.7	37	87	12	150	35	16	10	37	1.82
43081951--43082041	19	4.9	19	92	8	161	36	15	10	37	1.83
43082161--43082199	21	1.9	20	84	5	51	10	2	15	71	1.23

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