genome.fa.s4.2.7.7.80.10.50.1000.87.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: 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  87  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)
26616631--26616655	13	1.9	13	100	0	50	32	16	20	32	1.94
26627082--26627108	14	1.9	14	100	0	54	37	0	3	59	1.15
26633951--26633986	18	2.0	18	100	0	72	22	16	22	38	1.93
26638030--26638085	25	2.2	25	87	0	76	39	5	14	41	1.68
26640880--26641061	40	4.6	40	90	2	260	22	23	26	26	2.00
26647813--26647994	40	4.6	40	86	2	242	24	23	25	26	2.00
26652714--26652764	25	2.0	25	88	0	75	41	5	15	37	1.72
26655042--26655094	26	2.0	26	85	7	72	64	1	1	32	1.15
26655071--26655104	16	2.1	16	88	0	50	73	0	5	20	1.04
26659815--26659883	30	2.3	30	82	7	88	59	15	14	10	1.61
26659815--26659883	15	4.7	15	77	8	70	59	15	14	10	1.61
26666654--26666841	49	3.8	49	85	2	259	26	19	24	29	1.98
26666649--26666841	100	1.9	100	94	0	341	26	19	24	29	1.98
26673718--26673941	40	5.6	40	84	7	269	25	22	27	25	2.00
26673717--26673974	119	2.2	119	82	6	301	25	21	27	25	2.00
26680108--26680289	40	4.6	40	82	6	210	25	28	21	24	1.99
26680110--26680289	79	2.3	80	81	7	206	25	27	21	25	1.99
26681457--26681635	85	2.1	85	98	0	349	25	27	8	37	1.86
26688095--26688277	79	2.3	81	84	7	232	25	27	22	24	2.00
26688074--26688277	40	5.1	40	82	8	238	25	27	22	24	2.00
26689439--26689617	85	2.1	85	100	0	358	26	27	8	37	1.85
26692014--26692237	40	5.6	40	84	7	278	25	22	28	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26692013--26692270	119	2.2	119	81	6	292	25	21	27	24	1.99
26695248--26695276	12	2.3	13	94	5	51	44	0	6	48	1.29
26696421--26696451	13	2.5	12	90	10	53	58	0	19	22	1.40
26703915--26703976	27	2.3	27	88	0	97	32	16	14	37	1.89
26703956--26704478	27	19.7	26	80	5	308	31	9	19	39	1.84
26703943--26704054	54	2.1	53	80	8	118	31	8	17	42	1.78
26704021--26704478	53	8.6	53	87	2	593	31	10	18	39	1.85
26704795--26704858	28	2.3	28	91	0	101	26	37	17	18	1.93
26708202--26708392	40	4.6	40	72	20	151	25	27	21	25	2.00
26708264--26708393	39	3.3	38	79	12	129	24	27	22	25	2.00
26720498--26720625	28	4.5	28	88	2	175	28	12	25	32	1.92
26720498--26720625	57	2.2	57	88	2	186	28	12	25	32	1.92
26732658--26732702	20	2.2	20	96	0	81	33	13	17	35	1.89
26734147--26734423	47	5.6	49	80	13	309	33	8	29	28	1.86
26734230--26734348	60	2.0	60	98	0	229	30	10	31	28	1.90
26734295--26734373	25	3.3	25	61	10	65	32	5	29	32	1.79
26734181--26734395	107	2.0	108	92	1	360	31	9	30	28	1.89
26737717--26737746	15	2.0	15	93	0	51	36	30	6	26	1.82
26738834--26738863	15	1.9	16	93	6	53	43	16	0	40	1.48
26749120--26749160	22	1.9	22	90	5	66	17	26	43	12	1.84
26751127--26751391	40	6.7	40	84	6	290	26	21	27	24	1.99
26751180--26751424	80	3.1	80	83	5	232	27	21	27	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26754974--26755079	27	3.9	27	81	2	115	18	26	19	34	1.95
26754964--26755098	27	5.0	27	75	7	103	18	26	19	35	1.95
26755086--26755128	20	2.2	20	91	0	68	23	23	9	44	1.82
26756916--26757014	40	2.5	40	94	0	171	29	30	20	20	1.97
26759997--26760037	6	6.7	6	91	2	55	0	60	0	39	0.96
26760115--26760164	25	2.0	25	84	0	64	6	32	6	56	1.48
26762786--26762945	41	3.9	41	77	12	168	22	23	28	26	1.99
26763472--26763497	13	2.0	13	100	0	52	15	15	7	61	1.55
26770269--26770428	41	3.9	41	77	12	168	22	22	28	26	1.99
26770955--26770980	13	2.0	13	100	0	52	15	15	7	61	1.55
26772980--26773015	18	2.0	18	94	0	63	33	0	8	58	1.28
26773054--26773096	18	2.4	18	96	0	77	51	0	2	46	1.13
26774189--26774298	26	4.2	26	94	2	177	34	4	24	36	1.76
26775910--26776030	27	4.4	27	88	1	170	19	23	21	34	1.96
26775914--26776049	54	2.5	55	86	2	177	20	23	20	35	1.96
26775930--26776049	27	4.5	26	84	7	96	19	23	20	37	1.94
26777504--26777569	18	3.3	18	72	22	60	33	0	6	60	1.21
26780420--26780544	6	20.3	6	68	19	71	47	12	19	20	1.82
26780434--26780544	31	3.6	31	88	0	159	46	12	19	20	1.82
26781031--26781118	27	3.3	26	93	1	140	40	2	23	32	1.67
26781857--26781922	27	2.4	27	87	0	87	31	16	22	28	1.96
26781919--26782004	27	3.2	27	85	1	102	44	20	3	31	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26781986--26782230	27	9.1	27	85	1	303	32	22	5	40	1.76
26782737--26782839	6	16.8	6	74	15	86	20	20	13	45	1.84
26782729--26782825	31	3.1	31	90	0	158	19	21	13	45	1.84
26784638--26784719	27	3.1	26	81	6	92	31	20	20	26	1.98
26784703--26784797	27	3.6	27	92	2	147	43	21	5	30	1.74
26784703--26784814	27	4.2	26	87	5	145	42	20	5	31	1.74
26784703--26784814	53	2.1	53	86	3	154	42	20	5	31	1.74
26784722--26784876	53	2.9	53	78	7	127	36	20	6	36	1.79
26784796--26784950	27	5.7	27	81	3	204	30	21	7	40	1.80
26784796--26784949	54	2.9	54	88	1	238	31	22	7	39	1.81
26785798--26785904	27	4.0	26	81	6	106	36	17	22	23	1.95
26786025--26786076	27	1.9	27	84	7	70	36	17	23	23	1.95
26786466--26786719	81	3.1	81	91	1	377	27	20	17	34	1.95
26786484--26786741	27	9.6	27	83	3	306	26	18	18	36	1.94
26786732--26786797	27	2.4	27	79	0	78	31	4	21	42	1.73
26786763--26787098	54	6.2	54	81	6	324	30	8	20	40	1.83
26786790--26787092	27	11.3	27	80	6	192	30	9	20	40	1.83
26786808--26787092	81	3.5	81	81	5	317	29	9	20	41	1.83
26789044--26789115	6	11.8	6	79	8	83	51	12	15	20	1.75
26789038--26789084	12	3.9	11	91	5	58	51	12	17	19	1.77
26789020--26789084	18	3.6	18	83	8	78	53	10	15	20	1.71
26789233--26789340	27	4.0	26	83	5	108	36	22	21	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26789233--26789340	54	2.0	53	80	5	119	36	22	21	20	1.96
26789497--26789557	22	2.7	23	78	12	65	29	21	26	22	1.99
26789923--26790234	27	11.6	27	87	0	401	24	18	20	36	1.94
26790257--26790584	27	12.2	27	83	2	365	29	8	20	41	1.81
26790229--26790584	134	2.7	134	83	2	358	30	8	20	40	1.81
26790273--26790594	134	2.4	135	84	3	382	30	8	20	40	1.83
26791432--26791520	27	3.3	27	90	0	124	32	22	3	41	1.70
26792005--26792115	31	3.6	31	88	0	159	20	19	12	46	1.82
26792005--26792129	6	20.3	6	68	19	71	20	19	12	47	1.82
26814280--26815272	500	2.0	500	86	2	1413	34	19	14	31	1.92
26820113--26820145	13	2.4	14	90	5	50	51	3	15	30	1.58
26821165--26821225	21	2.9	21	78	9	70	29	26	26	18	1.98
26825992--26826216	40	5.6	40	85	3	308	23	23	28	25	2.00
26825992--26826216	83	2.8	80	89	4	362	23	23	28	25	2.00
26834095--26834317	39	5.6	40	85	4	299	22	22	28	25	1.99
26834095--26834317	83	2.8	80	89	6	353	22	22	28	25	1.99
26843307--26843448	43	3.3	41	70	16	119	28	26	20	25	1.99
26843278--26843445	85	2.0	85	89	2	257	30	25	19	25	1.98
26843277--26843410	42	3.2	41	67	17	103	30	24	19	25	1.98
26850621--26850772	43	3.6	42	76	7	137	28	25	19	26	1.98
26851820--26851868	22	2.3	21	89	6	80	59	12	10	18	1.60
26851827--26851879	22	2.4	22	96	0	97	58	15	7	18	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26865712--26865879	40	4.2	40	83	4	106	25	27	23	23	2.00
26865735--26865879	40	3.6	40	85	4	193	23	26	24	25	2.00
26867066--26867141	38	2.0	38	97	0	143	31	22	13	32	1.92
26869176--26869385	39	5.3	39	92	2	316	25	27	22	25	2.00
26869176--26869437	78	3.3	80	83	10	312	24	26	22	25	2.00
26877290--26877511	39	5.6	39	86	6	247	24	27	22	25	2.00
26877290--26877511	117	1.9	119	81	12	280	24	27	22	25	2.00
26880774--26880993	46	4.7	47	75	11	145	22	28	19	29	1.98
26886057--26886237	38	4.8	38	88	0	254	18	20	23	37	1.95
26886054--26886270	38	5.7	38	84	4	204	18	20	23	36	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