genome.fa.s4.2.7.7.80.10.50.1000.100.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: A04
Parameters: 2 7 7 80 10 50 1000
Length:  82679320

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   

This is table  100  of  255  ( 30512 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)
31226919--31227329	46	8.5	50	84	6	417	26	29	12	30	1.93
31226919--31227333	196	2.1	193	89	3	631	26	29	12	30	1.93
31229530--31229708	85	2.1	85	98	0	349	26	27	8	37	1.85
31231155--31231263	57	1.9	58	86	1	157	28	28	18	24	1.98
31231474--31231822	40	8.8	40	91	1	533	25	30	21	23	1.99
31233075--31233219	37	3.9	37	91	0	220	26	29	18	24	1.98
31233076--31233219	74	2.0	73	94	1	252	26	29	18	25	1.98
31233428--31233954	93	5.5	94	85	7	652	26	30	12	30	1.92
31233428--31233954	47	11.1	47	85	7	688	26	30	12	30	1.92
31233543--31233616	23	3.2	23	62	27	57	28	32	9	29	1.88
31233428--31233954	146	3.7	143	88	6	707	26	30	12	30	1.92
31236133--31236311	85	2.1	85	98	0	349	26	27	8	37	1.85
31245732--31245773	21	2.0	21	100	0	84	33	19	14	33	1.91
31255314--31255373	29	2.0	29	84	9	77	30	25	5	40	1.77
31265917--31265977	30	2.0	30	87	0	86	31	24	4	39	1.77
31281184--31281439	40	6.4	40	89	3	342	24	22	26	26	2.00
31324931--31324962	13	2.5	13	94	0	55	18	37	34	9	1.83
31327863--31328065	55	3.8	52	75	6	156	35	17	23	23	1.95
31331634--31331694	30	2.0	30	87	0	86	39	6	22	31	1.80
31332353--31332536	67	2.8	64	76	8	194	28	16	30	23	1.97
31338587--31338643	29	2.0	29	85	0	78	38	3	28	29	1.73
31338980--31339194	54	4.0	54	80	7	249	35	15	26	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31338987--31339235	107	2.4	108	81	8	298	35	16	25	22	1.94
31342742--31343003	40	6.6	40	95	0	436	25	23	25	25	2.00
31350932--31351153	40	5.6	40	95	1	376	25	22	26	25	2.00
31354565--31354616	25	2.1	24	89	3	77	38	21	23	17	1.93
31361463--31361692	48	4.8	48	77	2	174	31	19	24	25	1.98
31361561--31361707	48	3.1	46	75	5	141	29	22	23	23	1.99
31361509--31361692	96	1.9	96	85	0	251	30	20	23	25	1.98
31368542--31368803	46	5.7	46	73	16	218	21	17	28	32	1.96
31368584--31368750	47	3.6	47	78	13	200	23	16	28	31	1.96
31368531--31368796	93	2.9	93	91	0	406	22	18	28	31	1.97
31379092--31379259	40	4.2	40	83	4	106	25	27	23	23	2.00
31379115--31379259	40	3.6	40	85	4	193	23	26	24	25	2.00
31380448--31380523	38	2.0	38	97	0	143	31	23	11	32	1.91
31386821--31386988	40	4.2	40	82	8	148	27	27	20	24	1.99
31386856--31387041	80	2.3	80	83	9	229	27	27	20	23	1.99
31386858--31387041	40	4.6	40	83	7	205	27	27	21	23	1.99
31390303--31390470	40	4.2	40	83	4	106	25	27	23	23	2.00
31390326--31390470	40	3.6	40	85	4	193	23	26	24	25	2.00
31409593--31409726	48	2.8	47	78	6	137	32	26	20	20	1.97
31412399--31412556	40	4.0	40	81	3	158	33	17	27	20	1.96
31412461--31412526	20	3.3	20	68	8	62	25	21	34	18	1.96
31412548--31412586	20	2.0	20	89	0	60	25	10	33	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31412562--31413104	40	13.6	40	83	0	564	30	16	30	22	1.96
31412462--31412644	100	1.8	100	89	2	287	32	16	30	20	1.95
31412413--31412768	180	2.0	180	80	2	401	32	17	28	21	1.96
31413565--31413820	46	5.5	45	78	11	234	21	28	20	28	1.98
31413555--31413823	94	2.9	92	82	10	273	21	28	20	28	1.98
31413565--31413820	140	1.8	140	85	5	365	21	28	20	28	1.98
31417738--31417778	20	2.0	20	100	0	82	34	9	24	31	1.88
31423518--31423571	28	2.0	28	88	3	83	18	25	25	29	1.98
31423523--31423579	28	2.0	28	86	0	78	21	24	24	29	1.99
31427991--31428140	46	3.1	46	73	14	131	30	28	15	25	1.96
31429235--31429316	21	3.8	21	85	3	101	32	26	24	15	1.95
31429222--31429328	21	5.0	22	79	12	98	35	25	22	16	1.95
31429533--31429616	28	3.0	28	87	1	123	45	30	3	20	1.68
31432413--31432608	42	4.6	42	82	5	227	28	22	17	31	1.97
31434447--31434624	27	6.6	27	82	3	178	29	27	15	27	1.96
31441297--31441371	27	2.7	28	85	6	91	29	18	17	34	1.94
31441677--31441883	52	3.9	53	82	3	240	26	22	13	37	1.91
31441677--31441883	105	2.0	105	82	5	258	26	22	13	37	1.91
31443649--31443820	43	4.0	43	72	14	156	23	17	26	31	1.97
31454224--31454379	43	3.6	42	75	12	147	26	18	25	29	1.98
31455037--31455079	23	1.9	22	90	4	68	16	4	27	51	1.64
31455037--31455084	10	4.5	10	82	14	60	18	4	27	50	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31465178--31465234	28	2.1	27	87	9	80	52	8	1	36	1.43
31466882--31466933	9	5.3	9	82	13	50	30	5	1	61	1.30
31466881--31466983	10	10.5	10	73	13	63	26	4	3	65	1.30
31466881--31466993	57	2.0	57	84	6	149	29	5	3	61	1.34
31466935--31466974	21	1.9	21	94	0	71	20	0	7	72	1.08
31466967--31467023	30	1.9	30	85	7	80	40	8	0	50	1.33
31467587--31467622	16	2.3	15	90	4	54	58	0	0	41	0.98
31468091--31468139	19	2.5	20	83	12	66	44	10	16	28	1.80
31469142--31469204	9	6.8	9	83	3	63	22	39	1	36	1.64
31469141--31469195	29	1.9	28	88	3	83	23	38	1	36	1.66
31476455--31476503	24	2.0	24	92	7	82	59	20	0	20	1.38
31481137--31481305	46	3.7	46	71	7	153	23	28	20	27	1.99
31483976--31484112	67	2.0	67	100	0	274	44	10	14	30	1.78
31486406--31486476	29	2.5	28	81	9	72	50	7	11	30	1.65
31486458--31486525	3	22.7	3	94	5	120	64	0	1	33	1.02
31488440--31488978	44	11.9	44	71	11	232	28	19	18	33	1.96
31488440--31488971	89	5.9	90	72	10	357	28	19	18	33	1.96
31489009--31489062	24	2.2	24	86	0	72	35	16	14	33	1.90
31489040--31489328	44	6.3	45	72	9	183	29	21	16	33	1.95
31489159--31489276	45	2.6	45	83	2	137	27	24	17	29	1.97
31488848--31489550	351	2.0	351	90	0	1093	29	19	16	35	1.94
31491259--31491291	12	2.8	12	90	0	57	27	3	0	69	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31491377--31491431	23	2.5	22	77	14	58	20	9	3	67	1.34
31491465--31491512	3	15.7	3	95	4	87	33	2	0	64	1.05
31493791--31493882	31	2.8	32	77	11	89	35	3	7	53	1.46
31494215--31494272	17	3.5	17	68	15	50	62	0	1	36	1.06
31494563--31494592	14	2.2	14	94	5	53	33	6	20	40	1.78
31495048--31495101	15	3.3	15	74	18	54	44	0	1	53	1.11
31495131--31495160	15	1.9	16	93	6	53	40	0	0	60	0.97
31496155--31496199	23	2.0	23	91	4	74	31	0	0	68	0.89
31496157--31496206	23	2.2	23	85	3	66	28	2	0	70	0.99
31502258--31502324	35	1.9	35	96	0	125	43	8	17	29	1.80
31504228--31504253	13	2.0	13	100	0	52	23	7	23	46	1.78
31505043--31505092	20	2.5	20	80	0	64	32	8	18	42	1.79
31508389--31508560	93	1.8	93	94	0	308	27	29	21	21	1.99
31508382--31508557	46	3.8	46	79	12	207	28	28	21	21	1.98
31513444--31513540	47	2.1	44	79	9	106	65	2	25	6	1.26
31522968--31523158	47	4.1	47	88	0	247	33	9	28	28	1.89
31523042--31523117	23	3.2	25	62	24	63	28	13	34	23	1.92
31523132--31523315	98	1.9	96	91	4	298	35	7	26	30	1.83
31523131--31523315	48	3.8	48	89	5	291	35	7	26	30	1.83
31523462--31523570	37	2.9	37	88	0	155	22	17	31	28	1.97
31528404--31528442	20	2.0	20	89	0	60	43	20	7	28	1.79
31532850--31532899	25	2.0	25	88	7	75	34	14	10	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31534201--31534260	7	8.0	8	85	9	74	16	0	35	48	1.47
31534201--31534260	15	4.0	16	83	10	74	16	0	35	48	1.47
31534915--31534964	25	2.0	25	92	0	82	34	16	10	40	1.81
31536941--31536990	25	2.0	25	92	0	82	34	16	10	40	1.81
31538286--31538339	7	7.3	7	82	12	63	16	0	33	50	1.46
31538286--31538339	16	3.6	15	90	7	83	16	0	33	50	1.46
31539157--31539329	6	28.7	6	77	14	178	49	14	15	20	1.80
31539158--31539304	36	4.1	36	86	6	201	50	14	14	21	1.77
31539679--31539737	22	2.7	22	81	0	64	32	22	25	20	1.98
31539828--31539907	27	3.0	26	88	3	106	36	21	22	20	1.95

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