genome.fa.s4.2.7.7.80.10.50.1000.187.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  187  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)
62009651--62009704	9	6.3	9	74	8	51	70	1	25	1	1.07
62009650--62009679	15	2.0	15	93	0	51	70	6	23	0	1.11
62015012--62015041	15	2.1	15	93	6	53	20	16	30	33	1.94
62016286--62016505	108	2.0	110	91	7	358	31	11	4	52	1.56
62019389--62019421	17	1.9	17	100	0	66	48	0	18	33	1.48
62024173--62024198	12	2.2	12	100	0	52	42	7	0	50	1.31
62027821--62027866	20	2.3	20	84	0	56	13	28	17	41	1.86
62037075--62037112	3	12.7	3	94	0	67	65	0	34	0	0.93
62053676--62053710	18	1.9	18	88	0	52	40	17	25	17	1.90
62053694--62053800	45	2.4	45	87	3	153	41	18	18	21	1.91
62053778--62053802	12	2.1	12	100	0	50	40	20	24	16	1.91
62054005--62054093	40	2.2	40	84	2	108	39	14	8	37	1.78
62054876--62054931	5	11.2	5	100	0	112	60	0	0	39	0.97
62058860--62059029	93	1.8	93	94	2	306	28	29	20	21	1.98
62058853--62059027	46	3.8	45	80	13	212	29	29	20	21	1.98
62063239--62063345	45	2.4	45	90	3	162	41	17	18	22	1.91
62063558--62063638	40	2.0	40	85	0	108	38	16	9	35	1.81
62064417--62064451	5	7.0	5	100	0	70	60	0	0	40	0.97
62066457--62066489	16	2.1	16	100	0	66	24	0	0	75	0.80
62082214--62082383	47	3.6	47	82	7	168	20	19	28	31	1.97
62082264--62082391	46	2.8	46	87	3	168	20	19	27	32	1.97
62090749--62090855	43	2.5	43	86	1	144	35	24	14	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62097686--62097962	137	2.0	137	94	0	482	45	9	10	33	1.72
62097880--62098010	55	2.4	54	78	8	131	46	5	9	38	1.59
62098298--62098324	14	1.9	14	100	0	54	44	7	14	33	1.73
62098560--62098621	26	2.4	25	76	10	63	43	1	1	53	1.20
62102554--62102597	22	2.0	22	95	0	79	25	0	20	54	1.45
62105343--62105396	27	2.0	27	100	0	108	55	14	11	18	1.68
62114194--62114256	25	2.5	25	86	2	90	38	7	0	53	1.30
62118852--62118885	18	1.9	18	88	5	52	44	26	11	17	1.83
62129269--62129366	40	2.4	40	72	14	94	41	7	1	50	1.37
62129639--62129717	41	1.9	41	100	0	158	39	25	12	22	1.89
62132466--62132507	20	2.0	21	90	4	68	42	0	2	54	1.13
62133603--62133635	3	11.0	3	100	0	66	66	0	0	33	0.92
62133763--62133799	13	2.8	13	87	4	56	54	0	0	45	1.00
62134863--62134925	31	2.0	31	96	0	117	36	12	15	34	1.86
62137426--62137599	40	4.4	40	87	6	214	25	28	22	22	1.99
62140868--62140988	46	2.6	46	82	2	143	29	16	28	24	1.97
62141008--62141117	49	2.2	49	85	3	150	28	20	28	22	1.99
62141931--62141957	13	2.1	13	100	0	54	7	22	29	40	1.81
62143536--62143563	13	2.2	13	100	0	56	28	17	7	46	1.75
62157124--62157283	29	5.6	29	76	5	155	23	18	7	50	1.73
62157117--62157283	58	2.9	57	77	9	178	23	17	7	50	1.72
62157124--62157282	28	5.6	28	74	6	140	23	18	7	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62157629--62157657	15	1.9	15	100	0	58	24	6	20	48	1.74
62158274--62158347	17	4.2	17	71	21	53	31	1	18	48	1.57
62164006--62164071	33	2.0	33	100	0	132	39	15	21	24	1.91
62179569--62179727	48	3.3	48	76	12	148	30	19	27	23	1.98
62183731--62184023	50	5.8	50	80	2	300	31	25	17	26	1.97
62183750--62184022	101	2.7	99	81	3	303	31	26	16	26	1.96
62187026--62187184	79	2.0	79	97	0	300	23	24	10	41	1.86
62197144--62197175	15	2.1	16	94	5	57	37	0	0	62	0.95
62201263--62201389	28	4.6	27	72	13	98	29	14	25	29	1.95
62205998--62206180	40	4.6	39	82	4	197	25	27	21	25	1.99
62206112--62206189	40	1.9	41	82	10	97	26	28	21	23	1.99
62213856--62214038	40	4.6	39	81	6	179	25	26	21	26	1.99
62213970--62214047	40	1.9	41	82	10	97	26	28	21	23	1.99
62218279--62218460	40	4.6	40	91	2	287	23	23	25	27	2.00
62234530--62234684	42	3.7	41	76	6	150	28	16	26	29	1.97
62237195--62237556	46	7.8	46	77	15	388	21	20	29	29	1.98
62237192--62237549	93	3.8	93	98	0	689	21	20	29	28	1.98
62239187--62239220	8	4.1	8	96	3	59	14	73	0	11	1.10
62243100--62243363	40	6.7	40	87	6	310	25	21	27	25	2.00
62243101--62243396	80	3.7	77	81	10	280	26	21	27	25	1.99
62245653--62245721	27	2.6	27	88	0	111	37	18	17	26	1.93
62245706--62246075	27	13.7	27	74	7	184	40	20	9	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62245706--62246049	81	4.2	82	72	11	208	40	19	9	30	1.82
62245713--62245981	108	2.5	108	80	10	300	40	20	8	30	1.82
62246290--62246367	41	1.9	41	94	0	138	19	21	32	26	1.97
62246512--62246573	22	2.8	23	83	11	76	24	24	17	33	1.96
62251040--62251164	47	2.7	44	82	14	146	24	28	19	28	1.98
62251040--62251166	46	2.8	45	82	13	152	23	28	18	29	1.98
62254849--62254895	20	2.3	20	85	7	60	51	2	10	36	1.49
62260200--62260338	42	3.2	43	79	7	140	26	17	24	30	1.97
62260185--62260356	43	4.0	43	74	13	165	25	18	25	31	1.97
62267166--62267317	40	3.8	40	89	3	209	24	21	28	26	1.99
62267166--62267337	80	2.2	80	83	5	206	23	20	27	27	1.99
62273525--62273627	53	1.9	53	84	0	134	23	26	28	22	1.99
62275982--62276204	39	5.7	40	84	8	248	25	26	21	26	2.00
62290987--62291163	46	3.9	44	78	8	192	21	21	29	27	1.99
62290984--62291155	93	1.8	93	91	0	281	20	22	30	26	1.98
62294549--62294627	38	2.1	38	80	4	88	12	2	18	65	1.36
62295218--62295250	12	2.7	13	86	13	52	39	9	3	48	1.50
62295804--62295842	20	1.9	21	89	5	62	56	7	28	7	1.55
62298674--62298767	49	1.9	49	95	0	170	32	12	14	39	1.85
62299588--62299640	13	4.1	13	97	0	97	20	32	32	15	1.93
62314553--62314602	24	2.1	24	85	3	66	44	14	22	20	1.86
62315679--62315705	14	1.9	14	100	0	54	44	18	0	37	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62316832--62316868	17	2.2	17	95	0	65	45	5	16	32	1.70
62319872--62319914	21	2.0	21	100	0	86	51	18	9	20	1.74
62319956--62319995	20	2.0	20	100	0	80	50	25	0	25	1.50
62322440--62322486	22	2.1	22	100	0	94	38	8	27	25	1.85
62323109--62323143	16	2.2	16	100	0	70	20	42	17	20	1.89
62326251--62326582	178	1.9	178	96	0	619	40	12	18	28	1.87
62336363--62336398	18	2.0	18	94	0	63	16	19	16	47	1.83
62348758--62348787	15	2.0	15	100	0	60	46	26	6	20	1.75
62349107--62349150	15	2.9	15	89	0	70	56	13	13	15	1.67
62365522--62365580	26	2.3	26	87	0	82	42	13	13	30	1.83
62368646--62368698	26	2.0	26	82	13	65	26	11	22	39	1.88
62370183--62370264	26	3.2	26	94	0	137	37	24	6	31	1.80
62373271--62373305	17	2.1	17	88	0	52	40	17	5	37	1.73
62373824--62373886	3	21.0	3	100	0	126	33	0	0	66	0.92
62378502--62378541	20	2.0	20	100	0	80	10	5	25	60	1.49
62379848--62379883	3	12.0	3	93	0	63	30	0	0	69	0.89
62380635--62380670	7	5.3	7	90	6	56	16	25	27	30	1.97
62380778--62380832	7	8.0	7	87	4	58	21	12	34	30	1.91
62380778--62380822	14	3.3	14	87	3	65	17	13	37	31	1.89
62380778--62380832	21	2.7	20	80	5	74	21	12	34	30	1.91
62382253--62382292	19	2.0	20	90	4	64	42	10	7	40	1.67
62393472--62393541	34	2.1	34	94	0	122	60	5	17	17	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62397804--62397838	17	2.1	17	88	0	52	40	17	5	37	1.73
62404681--62404811	70	1.9	69	89	4	203	35	13	12	38	1.82
62412043--62412087	17	2.6	17	82	6	56	73	0	24	2	0.95
62421997--62422058	27	2.3	27	80	0	70	38	20	25	14	1.91
62425281--62425317	6	6.3	6	82	17	51	0	13	0	86	0.57
62425281--62425317	18	2.1	18	94	0	65	0	13	0	86	0.57
62425284--62425317	11	3.0	11	95	4	59	0	11	0	88	0.52
62425284--62425325	18	2.3	18	83	0	57	4	11	0	83	0.79
62425662--62425687	4	6.5	4	100	0	52	26	23	0	50	1.50
62429031--62429086	27	2.0	28	93	6	96	7	14	3	75	1.16

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