genome.fa.s19.2.7.7.80.10.50.1000.161.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: D06
Parameters: 2 7 7 80 10 50 1000
Length:  68668488

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   

This is table  161  of  230  ( 27491 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)
47722592--47722650	18	3.4	18	80	13	70	62	5	10	22	1.46
47724733--47724774	17	2.5	17	84	7	50	73	0	16	9	1.08
47724786--47724823	16	2.3	17	86	4	51	52	2	23	21	1.59
47727344--47727398	27	2.0	27	100	0	110	41	10	14	32	1.81
47736464--47736551	27	3.2	26	67	9	68	26	23	17	32	1.96
47736475--47736558	28	3.0	28	77	3	107	23	21	15	39	1.92
47740632--47740790	47	3.4	46	81	5	194	36	20	12	30	1.90
47740836--47740875	20	2.0	20	95	0	71	37	17	0	45	1.49
47743404--47743450	20	2.3	21	78	14	53	63	2	4	29	1.25
47743433--47743469	15	2.5	15	91	4	58	67	0	0	32	0.91
47749916--47749966	8	6.4	8	77	8	50	43	1	0	54	1.11
47751817--47751939	40	3.1	38	82	5	138	23	32	16	27	1.96
47753533--47753649	35	3.3	35	82	1	135	41	29	10	17	1.83
47760962--47761123	35	4.6	35	83	5	184	41	30	9	17	1.81
47781116--47781392	44	6.1	44	74	12	200	33	21	20	24	1.97
47781118--47781387	142	1.9	142	86	3	382	33	21	19	25	1.97
47781680--47781717	17	2.4	16	87	12	60	81	13	0	5	0.85
47781672--47781717	17	2.6	18	82	6	58	80	13	0	6	0.89
47783127--47783168	15	2.7	15	88	7	57	40	4	0	54	1.21
47784511--47784540	14	2.2	14	94	5	53	50	0	6	43	1.28
47785376--47785551	40	4.4	40	86	0	210	23	31	15	28	1.96
47785410--47785475	20	3.3	20	66	8	62	24	36	13	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47787283--47787307	12	2.1	12	100	0	50	0	24	0	76	0.80
47787339--47787379	20	2.0	20	90	0	64	21	24	26	26	2.00
47788687--47788721	4	9.0	4	87	6	54	74	0	0	25	0.82
47790610--47790799	94	2.0	94	94	0	335	32	10	20	37	1.86
47792678--47792937	129	2.0	126	84	7	330	26	18	28	25	1.98
47795017--47795086	20	3.5	20	66	19	56	47	5	4	42	1.47
47798545--47798642	43	2.3	43	92	0	160	29	32	17	20	1.95
47804399--47804711	50	5.9	50	75	14	268	21	31	20	26	1.98
47804534--47804573	19	2.1	19	100	0	80	17	42	15	25	1.88
47804484--47804623	69	2.0	69	97	0	262	20	36	18	24	1.95
47804438--47804672	119	2.0	118	90	0	371	19	33	20	26	1.96
47804766--47804846	42	2.0	41	85	2	108	27	24	20	27	1.99
47825472--47825631	53	3.0	53	87	0	221	35	13	25	26	1.93
47825876--47825951	32	2.4	32	88	2	109	26	6	31	35	1.82
47835092--47835152	25	2.4	25	81	5	70	40	0	1	57	1.08
47842858--47842903	21	2.3	20	78	14	51	30	6	17	45	1.73
47847096--47847129	8	4.2	8	88	0	50	35	29	11	23	1.90
47847111--47847198	39	2.3	39	93	0	149	30	25	15	28	1.96
47848071--47848126	30	1.9	30	85	7	80	66	3	3	26	1.25
47865507--47865577	32	2.2	33	85	7	92	21	35	25	18	1.95
47867533--47867726	50	3.9	50	87	0	262	22	29	22	25	1.99
47869612--47869668	29	2.0	29	82	0	69	40	5	15	38	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47873447--47873475	7	4.3	7	95	4	51	27	0	10	62	1.28
47873447--47873481	14	2.5	13	86	13	52	31	0	8	60	1.27
47873588--47873614	13	2.1	13	100	0	54	51	22	18	7	1.70
47875163--47875204	19	2.2	20	82	4	50	26	9	14	50	1.73
47881180--47881754	44	13.1	44	75	8	422	28	16	26	29	1.96
47881180--47881714	132	4.1	132	91	2	839	28	15	26	29	1.96
47881180--47881711	265	2.0	260	90	3	825	28	15	26	29	1.96
47881709--47882015	88	3.5	88	88	0	443	28	26	24	20	1.99
47881198--47881842	265	2.5	264	82	6	616	28	17	26	27	1.98
47882026--47882191	44	3.8	44	85	1	226	27	17	27	28	1.98
47882162--47882324	88	1.9	88	80	5	195	30	22	21	25	1.98
47882844--47883130	44	6.6	43	71	14	214	29	20	22	27	1.98
47882844--47883305	44	10.7	44	69	13	166	29	20	23	26	1.99
47882837--47883305	217	2.2	215	89	2	697	29	20	23	26	1.99
47885230--47885271	19	2.2	20	82	4	50	26	9	14	50	1.73
47894794--47894831	19	2.0	19	94	0	67	36	18	7	36	1.80
47895759--47896099	50	6.8	50	82	1	362	22	29	20	26	1.98
47895759--47896099	150	2.3	149	84	0	421	22	29	20	26	1.98
47896438--47896494	30	1.9	30	82	10	73	31	22	7	38	1.81
47898531--47898572	13	2.9	14	80	13	50	54	0	0	45	0.99
47898535--47898571	16	2.3	16	86	13	58	59	0	0	40	0.97
47900471--47900631	43	3.8	42	84	1	196	30	27	18	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47902709--47902785	40	1.9	40	84	5	102	49	11	6	32	1.65
47902861--47903048	86	2.2	85	86	2	268	42	16	7	34	1.76
47903151--47903314	88	1.9	89	81	1	204	47	15	5	31	1.69
47905248--47905293	21	2.2	21	84	7	58	23	2	47	26	1.63
47907115--47907341	41	5.5	41	88	6	318	29	26	22	22	1.99
47907116--47907341	123	1.8	123	91	5	377	29	26	22	21	1.99
47914162--47914216	24	2.3	24	84	6	67	69	1	3	25	1.15
47914184--47914217	3	11.3	3	87	0	50	70	0	0	29	0.87
47914185--47914217	9	3.7	9	95	0	57	72	0	0	27	0.85
47919873--47919961	25	3.5	25	89	3	115	22	23	24	29	1.99
47929437--47929474	20	1.9	20	100	0	76	36	21	31	10	1.87
47931209--47931260	4	12.5	4	81	6	59	25	7	1	65	1.30
47931211--47931270	12	4.8	12	80	12	59	25	10	1	63	1.35
47937885--47938123	43	5.5	44	71	15	199	26	21	25	25	1.99
47937849--47938153	88	3.5	88	94	0	531	26	22	25	24	2.00
47940151--47940202	4	12.5	4	81	6	59	25	7	1	65	1.30
47940153--47940212	12	4.8	12	80	12	59	25	10	1	63	1.35
47946789--47947460	69	9.7	69	75	4	287	36	20	19	23	1.95
47946758--47947485	138	5.3	137	75	5	536	36	20	20	22	1.95
47955657--47955744	25	3.5	26	76	6	92	31	17	22	28	1.96
47955794--47955863	25	2.8	25	80	4	79	32	20	25	21	1.97
47964906--47964935	5	6.0	5	100	0	60	0	20	0	80	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47965319--47965387	16	4.2	16	92	3	120	24	1	37	36	1.65
47965319--47965387	33	2.1	32	94	2	120	24	1	37	36	1.65
47965368--47965458	45	2.0	45	85	2	121	27	6	28	37	1.82
47965623--47965657	18	2.0	17	88	5	52	54	0	0	45	0.99
47965606--47967194	121	13.2	121	94	1	2788	47	5	3	43	1.45
47965606--47967194	361	4.4	362	97	0	2913	47	5	3	43	1.45
47965606--47967194	602	2.6	601	94	2	2821	47	5	3	43	1.45
47970215--47970290	33	2.3	33	97	0	143	35	5	15	43	1.70
47970333--47970414	37	2.2	37	91	0	128	35	8	15	40	1.78
47976430--47976646	117	1.8	120	91	5	361	41	2	5	51	1.36
47976610--47976654	16	2.8	16	83	16	65	44	0	0	55	0.99
47976715--47976819	44	2.5	40	76	15	113	31	29	4	34	1.78
47976713--47976822	45	2.6	44	81	8	131	31	29	5	33	1.80
47976803--47976854	16	3.2	16	94	0	86	34	36	0	28	1.58
47984260--47984421	41	3.9	41	90	0	234	35	16	28	20	1.94
47990448--47990491	23	1.9	23	85	0	61	54	9	9	27	1.62
47991700--47991750	25	2.0	25	85	7	68	39	1	13	45	1.55
47993162--47993293	28	4.7	28	82	3	149	40	9	23	25	1.85
47993162--47993290	56	2.3	56	86	2	170	41	10	22	25	1.85
47995055--47995114	25	2.4	25	82	0	75	28	11	21	38	1.89
48003042--48003073	16	2.0	16	93	0	55	18	34	25	21	1.96
48010055--48010110	18	3.2	18	75	12	53	48	5	10	35	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48012784--48012862	37	2.1	37	90	0	122	25	31	18	24	1.98
48012981--48013439	47	9.7	47	93	1	733	28	29	8	33	1.87
48012981--48013418	143	3.1	143	92	2	724	28	28	8	33	1.87
48015402--48015426	13	1.9	13	100	0	50	36	16	16	32	1.90
48016503--48017291	39	20.4	38	72	6	239	39	15	23	21	1.91
48016542--48017291	78	9.7	78	77	5	533	39	15	23	21	1.92
48016566--48016782	109	2.0	109	83	1	274	41	15	23	19	1.90
48016676--48017291	117	5.3	117	76	2	513	39	15	23	20	1.91
48023318--48023346	13	2.1	14	93	6	51	75	0	10	13	1.04
48023335--48023369	17	2.1	17	94	0	61	77	5	14	2	1.07

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