genome.fa.s25.2.7.7.80.10.50.1000.19.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  19  of  214  ( 25680 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)
5225239--5225326	35	2.4	36	75	17	92	31	6	6	54	1.53
5230924--5230968	18	2.5	18	85	7	65	42	15	8	33	1.78
5233413--5233466	27	2.0	27	100	0	108	40	29	22	7	1.81
5233728--5233832	49	2.2	48	81	5	122	19	19	34	27	1.95
5237026--5237161	49	2.8	49	82	1	148	33	16	25	24	1.96
5238208--5238261	19	2.8	18	81	16	56	48	3	0	48	1.19
5238214--5238261	23	2.1	23	84	7	62	47	2	0	50	1.12
5238562--5238601	19	2.0	20	95	4	73	47	5	0	47	1.24
5239429--5239569	49	2.9	49	81	1	149	34	16	21	26	1.95
5240712--5240758	4	11.8	4	90	0	76	27	2	21	48	1.61
5241454--5241498	20	2.2	20	92	0	72	26	22	37	13	1.91
5245536--5245580	20	2.2	20	96	0	81	26	22	35	15	1.94
5257447--5257542	33	2.9	33	95	0	174	14	3	16	65	1.39
5273532--5273572	20	2.0	21	82	17	52	19	14	9	56	1.66
5279005--5279153	71	2.1	71	86	5	203	27	14	28	29	1.95
5281166--5281204	4	9.8	4	100	0	78	25	0	23	51	1.49
5284155--5284228	23	3.2	23	90	0	112	21	20	27	31	1.98
5307465--5307772	122	2.5	122	90	2	485	33	21	15	29	1.94
5308052--5308099	16	3.1	15	79	8	51	52	12	12	22	1.73
5308718--5308853	49	2.8	49	82	3	150	33	16	22	27	1.96
5311444--5311491	23	2.0	23	88	4	69	20	18	10	50	1.76
5312530--5312670	71	2.0	71	88	5	214	26	15	25	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5312763--5312801	20	1.9	21	84	5	53	25	28	20	25	1.99
5315984--5316024	21	2.0	21	81	18	50	21	26	19	31	1.97
5318421--5318675	73	3.5	73	99	0	501	41	24	6	27	1.79
5318680--5318711	3	10.7	3	100	0	64	68	0	0	31	0.90
5320558--5320743	73	2.5	73	98	0	354	40	24	6	28	1.79
5320744--5320778	3	11.7	3	100	0	70	68	0	0	31	0.90
5326486--5326511	13	2.0	13	100	0	52	23	23	23	30	1.99
5344859--5345224	122	3.0	120	91	1	570	35	19	13	31	1.90
5347871--5347905	18	1.9	18	100	0	70	22	28	17	31	1.96
5350740--5350780	21	2.0	21	81	18	50	31	19	26	21	1.97
5357595--5357632	19	2.0	19	90	10	60	65	0	5	28	1.14
5364994--5365361	122	3.0	120	91	3	565	35	19	13	31	1.90
5365626--5365690	34	1.9	34	93	0	112	52	7	9	30	1.61
5368438--5368801	122	3.0	122	92	0	568	35	19	14	30	1.91
5371317--5371457	71	2.0	71	91	2	230	28	15	23	32	1.95
5373488--5373685	108	1.9	107	84	3	274	35	17	17	29	1.93
5375213--5375237	13	1.9	13	100	0	50	72	8	4	16	1.24
5376197--5376285	44	2.0	44	84	4	117	28	24	16	30	1.97
5376537--5376869	129	2.6	129	81	3	355	26	24	21	27	1.99
5376662--5377791	44	25.8	44	72	8	469	28	23	19	29	1.98
5376666--5377129	219	2.1	219	89	2	700	28	24	19	28	1.98
5376839--5377658	265	3.1	265	96	0	1507	28	23	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5376654--5377794	484	2.4	481	86	4	1512	27	23	19	29	1.98
5377285--5377794	219	2.3	218	90	2	781	28	22	19	29	1.98
5379025--5379081	20	2.9	20	94	2	98	12	15	0	71	1.13
5379022--5379081	13	4.5	14	85	10	90	13	16	0	70	1.18
5379022--5379074	27	2.0	27	92	3	90	15	16	0	67	1.23
5379022--5379081	7	9.0	7	87	8	90	13	16	0	70	1.18
5379990--5380087	50	2.0	50	82	8	119	8	11	7	73	1.25
5383477--5383674	108	1.9	107	86	3	283	35	18	17	28	1.94
5385186--5385210	13	1.9	13	100	0	50	72	8	4	16	1.24
5387018--5387065	25	1.9	25	82	0	60	39	10	6	43	1.64
5387152--5387222	29	2.3	29	83	9	88	35	11	2	50	1.53
5387463--5387505	22	2.0	22	85	0	59	9	20	25	44	1.81
5387490--5387514	13	1.9	13	100	0	50	8	24	32	36	1.84
5387616--5387827	43	4.9	42	89	4	291	25	32	18	23	1.97
5387618--5387827	87	2.4	87	87	5	293	25	32	19	22	1.97
5390870--5390927	19	3.1	17	79	18	62	56	0	6	36	1.26
5391181--5391240	10	5.8	10	75	11	50	45	5	0	50	1.23
5391209--5391241	12	2.9	12	86	13	52	42	6	0	51	1.26
5391174--5391246	30	2.4	30	82	8	87	47	4	1	46	1.30
5391175--5391246	20	3.6	19	73	15	65	47	4	1	47	1.30
5392157--5392225	29	2.4	30	85	11	99	39	42	0	18	1.51
5392159--5392217	14	4.1	14	82	12	68	38	40	0	20	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5392166--5392218	7	7.4	7	82	4	70	39	41	0	18	1.51
5392178--5392226	14	3.4	14	80	5	62	40	40	0	18	1.50
5392157--5392246	29	3.1	29	81	9	85	35	43	2	18	1.63
5415258--5415403	25	5.9	25	75	10	120	19	26	17	36	1.94
5415389--5415476	25	3.5	25	84	6	97	23	29	14	31	1.95
5415427--5415510	25	3.4	25	84	12	86	27	30	15	26	1.96
5415387--5415498	50	2.2	50	79	6	120	25	29	16	28	1.96
5420311--5420385	35	2.1	35	90	0	114	25	29	18	26	1.98
5423916--5424223	87	3.6	86	80	6	293	35	12	9	42	1.76
5423916--5424224	86	3.6	84	81	7	300	35	12	9	42	1.76
5424078--5424239	85	1.9	85	84	5	220	35	12	9	42	1.76
5429209--5429238	14	2.1	14	100	0	60	30	26	20	23	1.98
5431028--5431141	41	2.7	43	83	2	142	28	28	18	25	1.98
5449707--5449856	27	5.6	27	80	4	151	47	19	14	18	1.83
5449711--5449869	54	2.9	53	77	7	167	44	20	14	20	1.86
5452918--5453357	39	11.2	39	91	0	637	32	15	20	31	1.94
5460822--5460964	63	2.3	63	85	2	180	23	18	27	30	1.97
5461783--5461836	22	2.5	22	81	0	63	20	7	16	55	1.65
5464094--5464143	22	2.3	21	79	3	55	36	4	2	58	1.29
5464134--5464166	17	1.9	17	100	0	66	36	6	0	57	1.23
5464135--5464173	17	2.3	17	86	0	51	35	12	0	51	1.40
5468464--5469265	266	3.0	266	99	0	1588	25	26	19	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5473846--5473884	16	2.4	16	87	8	53	25	0	2	71	0.98
5473858--5473885	8	3.5	8	100	0	56	25	0	0	75	0.81
5474053--5474122	35	2.1	34	87	10	101	41	11	11	35	1.77
5474606--5474659	26	2.1	26	89	0	81	33	9	11	46	1.71
5477156--5477195	20	2.0	20	95	0	71	37	7	25	30	1.83
5482024--5482066	22	2.0	22	90	4	70	32	2	4	60	1.30
5482423--5482472	26	2.0	25	88	4	73	34	12	2	52	1.50
5486586--5486629	23	1.9	23	95	0	79	18	4	9	68	1.34
5490292--5490331	18	2.1	20	86	9	57	45	2	5	47	1.38
5491912--5491947	18	2.0	18	88	0	54	38	16	0	44	1.48
5492034--5492132	28	3.6	28	87	1	128	29	21	16	33	1.95
5493699--5493743	8	5.5	8	86	5	63	68	0	31	0	0.89
5493699--5493743	17	2.8	16	86	6	63	68	0	31	0	0.89
5493699--5493744	4	11.2	4	81	4	56	69	0	30	0	0.89
5493705--5493746	13	3.3	13	86	3	59	71	0	28	0	0.86
5494861--5494926	23	2.9	23	88	0	87	16	19	25	37	1.93
5494894--5494945	21	2.4	22	90	6	79	13	25	26	34	1.93
5495949--5495989	19	2.2	19	86	0	55	46	17	0	36	1.48
5504751--5504811	25	2.5	25	81	5	72	24	24	19	31	1.98
5508913--5509106	39	5.0	39	85	0	244	46	18	2	32	1.61
5508913--5509106	78	2.5	78	87	0	280	46	18	2	32	1.61
5510920--5511558	244	2.6	242	87	2	926	41	20	8	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5512478--5512517	21	1.9	21	89	0	62	30	12	12	45	1.79
5513035--5513060	13	2.0	13	100	0	52	15	0	7	76	0.99
5524524--5524566	22	2.0	22	85	0	59	62	2	4	30	1.28
5536043--5536133	6	14.8	6	73	19	64	2	20	2	74	1.03
5536056--5536132	18	4.4	18	73	15	72	1	22	2	74	1.02
5538059--5538128	25	2.8	25	86	4	97	35	17	31	15	1.91
5544691--5544729	12	3.2	12	82	10	53	46	0	2	51	1.14
5557980--5558049	31	2.4	28	81	11	86	38	11	7	42	1.68
5560626--5560668	23	1.9	22	86	13	61	37	0	23	39	1.55
5561553--5561618	25	2.7	25	85	2	80	21	27	16	34	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