genome.fa.s5.2.7.7.80.10.50.1000.87.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  87  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)
29552911--29552958	21	2.3	21	88	0	69	4	58	16	20	1.55
29558502--29558611	9	11.6	9	75	14	96	31	0	20	47	1.56
29558502--29558600	30	3.4	28	78	6	101	32	1	21	45	1.59
29558504--29558594	39	2.3	39	96	0	164	30	1	21	46	1.59
29559299--29559327	10	2.9	10	100	0	58	31	20	0	48	1.50
29559516--29559846	183	1.8	182	95	0	599	42	13	15	28	1.85
29560855--29561149	148	2.0	146	97	1	554	35	16	14	33	1.89
29571898--29571970	21	3.4	21	74	14	60	47	4	1	46	1.30
29571934--29571976	21	2.0	21	82	8	52	48	2	0	48	1.14
29572666--29572723	26	2.3	25	80	11	64	37	12	3	46	1.58
29575417--29575446	12	2.5	12	94	0	51	30	43	20	6	1.77
29579325--29579355	14	2.2	14	94	0	53	64	0	9	25	1.24
29579360--29579399	14	2.9	14	88	0	62	72	0	2	25	0.97
29579403--29579461	30	1.9	30	82	6	73	55	5	0	38	1.22
29579687--29579736	15	3.4	16	76	18	63	64	0	6	30	1.18
29580962--29581450	135	3.6	134	89	2	714	26	22	20	29	1.99
29584482--29584568	33	2.6	33	78	7	88	20	42	9	27	1.82
29586075--29586143	18	3.8	18	78	0	75	40	13	8	37	1.75
29586075--29586163	36	2.4	37	83	1	117	40	13	8	37	1.76
29586288--29586394	47	2.3	47	90	0	160	41	21	19	17	1.91
29586281--29586400	47	2.4	49	79	10	145	41	20	19	18	1.90
29586576--29586612	20	1.9	20	94	5	67	37	2	0	59	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29586573--29586621	20	2.5	20	80	6	64	32	4	0	63	1.13
29587137--29587168	15	2.0	17	88	11	50	50	3	3	43	1.33
29587640--29587686	22	2.0	24	88	8	71	38	14	4	42	1.66
29595407--29595893	241	2.0	241	95	0	884	33	17	14	33	1.91
29596074--29596240	9	17.6	9	76	10	154	46	21	0	31	1.56
29596091--29596207	39	3.0	39	98	0	225	46	22	0	31	1.52
29596085--29596240	48	3.3	47	80	3	186	45	22	0	31	1.57
29596074--29596238	57	2.9	57	83	7	192	46	21	0	30	1.56
29596074--29596225	39	4.1	37	90	6	202	46	21	0	30	1.56
29602110--29602333	43	5.3	43	83	2	290	25	20	21	33	1.97
29602110--29602333	85	2.6	86	85	2	308	25	20	21	33	1.97
29603195--29603251	27	2.1	27	86	0	78	28	22	28	21	1.99
29611005--29611171	35	4.6	35	82	8	192	31	10	23	33	1.89
29611005--29611175	75	2.4	75	84	7	212	32	11	23	33	1.90
29615159--29615217	25	2.4	25	85	5	75	25	20	3	50	1.63
29617514--29617598	36	2.4	36	95	0	152	24	18	29	27	1.98
29617755--29618208	46	9.8	46	85	4	531	41	14	23	20	1.90
29617764--29618208	139	3.2	138	89	2	624	41	15	23	20	1.89
29617756--29618171	185	2.2	185	91	1	654	40	14	24	20	1.90
29623452--29623497	24	2.0	23	86	4	65	34	26	23	15	1.94
29624824--29624901	28	2.7	29	74	9	70	53	1	2	42	1.22
29624835--29624902	31	2.3	28	78	9	73	54	1	2	41	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29625033--29625071	20	2.0	19	90	5	60	76	5	15	2	1.06
29625107--29625132	11	2.4	11	100	0	52	50	7	42	0	1.31
29625789--29625820	3	10.7	3	100	0	64	34	0	0	65	0.93
29632275--29632342	31	2.3	28	78	9	73	54	1	2	41	1.24
29632468--29632514	16	3.1	15	81	12	51	74	6	17	2	1.12
29632473--29632514	16	2.7	16	82	14	52	73	7	16	2	1.15
29633225--29633256	3	10.7	3	100	0	64	34	0	0	65	0.93
29633255--29633279	3	8.3	3	100	0	50	32	0	32	36	1.58
29634113--29634164	20	2.6	20	96	0	95	15	3	21	59	1.52
29635071--29635096	8	3.2	8	100	0	52	76	0	0	23	0.78
29636107--29636150	12	3.2	15	75	18	51	31	4	2	61	1.28
29636231--29636300	28	2.4	29	79	15	81	30	8	5	55	1.53
29636378--29636440	33	1.9	32	87	3	90	34	6	0	58	1.23
29641504--29641529	7	3.7	7	100	0	52	42	0	0	57	0.98
29645254--29645312	15	3.7	15	73	10	55	42	0	1	55	1.09
29645265--29645312	17	2.9	17	75	12	55	41	0	2	56	1.11
29645236--29645312	32	2.5	31	85	8	95	40	0	1	58	1.06
29645994--29646081	9	9.7	9	69	10	54	59	1	4	35	1.25
29645994--29646081	27	3.2	26	75	18	81	59	1	4	35	1.25
29646096--29646145	25	2.0	26	84	4	66	64	4	0	32	1.12
29646645--29646702	20	3.1	18	76	13	64	20	8	3	67	1.33
29648964--29649003	21	1.9	21	89	0	62	7	22	0	70	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29653913--29653979	29	2.3	30	78	2	82	38	8	11	40	1.74
29654786--29654860	30	2.5	30	85	6	107	36	18	5	40	1.74
29656134--29656165	16	2.0	16	100	0	64	25	18	18	37	1.94
29666956--29666994	15	2.6	15	87	0	51	35	2	30	30	1.71
29690191--29690223	15	2.2	15	94	0	57	39	21	21	18	1.93
29705167--29705214	13	3.7	13	86	5	62	0	18	0	81	0.70
29705338--29705392	19	2.9	19	79	10	69	0	50	0	49	1.00
29705907--29705937	12	2.6	12	94	0	53	35	9	0	54	1.33
29706052--29706106	13	4.2	13	73	17	51	30	1	5	61	1.29
29706142--29706178	19	1.9	19	94	0	65	32	13	2	51	1.55
29706447--29706502	26	2.2	26	84	12	71	26	5	3	64	1.32
29706626--29706665	17	2.2	19	86	13	57	30	0	2	67	1.04
29706848--29706914	26	2.6	25	79	13	73	31	4	7	56	1.47
29706855--29706912	25	2.3	26	86	13	79	31	3	8	56	1.46
29706999--29707044	24	1.9	24	86	0	65	34	6	4	54	1.46
29708880--29708963	26	3.2	26	96	0	150	34	5	23	35	1.80
29714230--29714266	17	2.2	17	90	0	56	13	45	21	18	1.84
29715913--29716068	28	6.0	26	72	17	85	26	8	3	60	1.42
29715969--29716039	3	23.7	3	74	8	56	29	5	1	63	1.26
29715969--29716033	15	4.1	16	78	9	62	29	4	1	64	1.22
29718493--29718621	67	1.9	67	85	0	177	30	15	19	34	1.93
29723168--29723218	20	2.4	21	81	18	70	56	1	0	41	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29724641--29724688	13	3.6	13	77	2	51	37	0	0	62	0.95
29726103--29726149	20	2.4	21	79	10	55	63	2	0	34	1.06
29726103--29726157	19	2.8	21	81	8	62	63	1	0	34	1.05
29726707--29726736	7	4.1	7	95	4	51	60	0	0	40	0.97
29729708--29729870	33	4.9	33	84	7	208	15	33	12	38	1.86
29737136--29737167	3	10.3	3	93	6	55	65	0	0	34	0.93
29737957--29738275	46	7.0	47	89	2	384	21	24	15	38	1.92
29737952--29738275	137	2.4	137	86	1	434	21	24	15	38	1.92
29740438--29740474	20	1.9	20	88	5	58	51	8	0	40	1.32
29742970--29742994	13	1.9	13	100	0	50	48	0	4	48	1.20
29743164--29743211	21	2.3	21	85	0	69	33	2	18	45	1.61
29743745--29744064	128	2.5	128	84	3	403	36	20	16	26	1.94
29749577--29749606	14	2.1	14	93	0	51	16	0	36	46	1.47
29750458--29750502	21	2.1	21	87	0	63	48	6	2	42	1.41
29754057--29754230	91	1.9	91	88	2	260	27	15	22	35	1.94
29754131--29754749	132	4.8	132	87	5	899	24	15	25	34	1.95
29754473--29754720	118	2.1	118	93	0	424	24	16	25	34	1.95
29754998--29755045	21	2.3	21	77	0	51	27	2	25	45	1.64
29755040--29755106	23	2.9	22	78	13	64	16	2	28	52	1.58
29755049--29755126	37	2.1	37	87	0	111	14	2	32	51	1.55
29755088--29755136	22	2.2	21	82	10	62	18	0	28	53	1.45
29755099--29755142	22	2.0	22	90	0	70	13	0	36	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29755060--29755141	37	2.2	37	84	4	103	14	1	32	51	1.51
29755295--29755327	14	2.3	15	89	5	50	12	3	30	54	1.52
29755747--29755859	56	2.0	56	96	0	208	35	17	12	34	1.88
29758647--29758690	6	6.8	6	89	2	52	31	0	2	65	1.05
29758798--29759143	73	4.7	73	81	5	365	26	21	13	37	1.91
29758875--29759143	147	1.8	147	83	3	353	26	21	14	37	1.92
29758800--29759184	147	2.6	147	77	4	332	27	22	13	36	1.92
29763622--29763683	32	1.9	32	86	0	88	43	8	12	35	1.73
29764040--29764081	15	2.6	16	85	14	52	28	0	2	69	1.01
29769134--29769368	126	1.9	126	84	0	317	39	18	14	28	1.89

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