genome.fa.s23.2.7.7.80.10.50.1000.103.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: D10
Parameters: 2 7 7 80 10 50 1000
Length:  67973905

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   

This is table  103  of  228  ( 27298 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)
29867329--29867421	39	2.4	39	96	0	168	31	19	21	27	1.97
29869440--29869569	41	3.2	40	90	5	206	29	20	26	23	1.99
29881220--29881260	18	2.3	18	87	4	57	36	2	0	60	1.10
29884063--29884112	18	2.7	19	81	12	59	22	20	44	14	1.86
29884099--29884202	49	2.1	49	85	0	136	26	19	32	21	1.97
29885592--29885643	27	1.9	27	88	0	77	34	19	25	21	1.96
29885828--29885971	52	2.8	52	87	4	209	27	17	15	39	1.90
29885825--29885971	26	5.7	25	81	12	163	26	17	17	38	1.91
29890889--29890932	12	3.8	12	81	3	54	40	0	0	59	0.98
29892675--29892714	18	2.2	18	90	0	62	22	32	7	37	1.82
29893143--29893274	71	1.9	71	85	1	185	35	3	12	48	1.57
29894243--29894469	125	1.8	125	92	1	384	33	22	15	28	1.95
29899487--29900131	321	2.0	322	93	2	1118	29	14	20	35	1.93
29901347--29901371	6	4.2	6	100	0	50	32	0	0	68	0.90
29909846--29909871	13	2.0	13	100	0	52	46	7	23	23	1.78
29911108--29911142	17	2.1	16	89	5	52	60	0	0	40	0.97
29911112--29911155	14	3.1	14	90	6	63	56	2	0	40	1.11
29911676--29911728	23	2.2	26	83	10	67	30	1	20	47	1.61
29912192--29912221	14	2.1	15	93	6	53	43	0	6	50	1.28
29921146--29921184	18	2.2	18	85	0	51	51	12	5	30	1.62
29925370--29925400	6	5.2	6	100	0	62	83	0	0	16	0.64
29925863--29925888	3	8.7	3	100	0	52	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29930043--29930128	26	3.2	26	70	18	68	44	3	1	51	1.26
29936609--29936666	22	2.7	21	76	10	53	41	18	5	34	1.73
29937039--29937766	88	8.3	87	86	3	866	22	24	26	26	2.00
29937092--29937311	44	5.0	44	65	4	147	20	25	27	26	1.99
29937025--29937766	264	2.8	263	84	4	956	22	24	25	27	2.00
29937427--29937763	44	7.6	45	66	8	165	24	24	24	26	2.00
29944676--29944726	19	2.7	19	100	0	102	37	15	11	35	1.84
29948985--29949119	73	1.9	73	86	4	195	15	17	9	57	1.63
29952954--29953020	20	3.4	20	85	8	84	35	0	8	55	1.32
29960506--29960560	17	3.2	17	72	25	53	52	1	43	1	1.22
29961409--29961488	30	2.6	30	82	9	92	41	3	2	52	1.33
29966516--29966664	54	2.8	54	78	4	149	28	27	24	19	1.98
29988625--29988656	16	2.0	17	88	11	50	28	15	12	43	1.83
29988642--29988687	18	2.6	18	96	0	83	23	10	15	50	1.75
29989149--29989186	18	2.1	18	85	9	51	44	7	15	31	1.75
29992194--29992276	31	2.7	31	88	1	114	33	8	10	46	1.69
29996005--29996229	45	5.0	45	89	2	324	44	11	20	23	1.84
29996005--29996229	92	2.5	91	89	4	330	44	11	20	23	1.84
29996074--29996230	23	6.8	24	66	22	86	44	10	21	23	1.83
29997117--29997158	21	2.0	22	86	9	61	64	0	7	28	1.20
29998673--29998717	18	2.5	18	85	0	72	48	6	0	44	1.29
30000227--30000286	25	2.4	24	75	8	57	65	11	11	11	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30002840--30002886	20	2.3	20	81	0	58	10	21	36	31	1.88
30006020--30006067	19	2.5	20	77	19	57	66	0	0	33	0.92
30006448--30006518	25	2.9	24	78	17	67	46	0	1	52	1.09
30006590--30006643	19	2.8	18	76	15	54	31	1	1	64	1.14
30006595--30006650	20	2.7	22	77	20	59	32	0	1	66	1.03
30008557--30008747	51	3.8	51	84	6	201	25	15	28	30	1.96
30010088--30010142	20	2.8	20	81	10	67	25	21	14	38	1.92
30011644--30011685	13	3.2	13	90	6	59	69	4	4	21	1.26
30012886--30012953	12	5.7	12	69	19	52	64	0	25	10	1.24
30012909--30012942	15	2.3	15	89	0	50	67	0	29	2	1.05
30012896--30012948	18	2.8	20	68	26	53	64	0	24	11	1.26
30014729--30014791	20	3.1	20	80	11	65	25	19	15	39	1.91
30014739--30014793	20	2.8	20	82	0	74	23	20	16	40	1.91
30017993--30018079	43	2.0	43	95	0	156	35	27	11	25	1.90
30020449--30020501	21	2.6	21	80	14	65	66	5	0	28	1.15
30021840--30021956	45	2.6	44	82	4	146	24	20	22	32	1.98
30021977--30022087	44	2.5	43	83	15	129	28	24	20	26	1.99
30021875--30022126	130	1.9	130	86	1	353	27	22	21	28	1.99
30022108--30022215	44	2.5	44	86	3	146	29	17	21	31	1.96
30021875--30022213	128	2.6	129	81	6	312	27	21	21	29	1.99
30022240--30022758	260	2.0	260	90	0	813	27	25	19	27	1.99
30022806--30022945	45	3.2	45	74	4	158	27	27	17	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30022792--30022961	88	1.9	88	92	0	286	26	25	20	28	1.99
30022825--30022960	44	3.1	44	72	4	139	27	25	19	27	1.99
30024198--30024262	18	3.6	17	80	10	76	1	23	0	75	0.89
30024194--30024252	25	2.4	25	85	2	75	1	25	0	72	0.93
30024207--30024263	12	4.7	11	83	16	69	1	19	0	78	0.83
30024207--30024265	24	2.4	25	91	2	93	1	20	0	77	0.85
30024258--30024291	14	2.5	14	85	4	52	14	23	0	61	1.33
30025086--30025151	25	2.6	25	85	9	80	54	6	19	19	1.65
30031283--30031336	21	2.6	21	85	5	74	68	3	0	27	1.06
30031283--30031346	21	3.0	20	82	15	67	70	3	0	26	1.02
30031298--30031353	14	4.0	15	74	21	59	75	0	0	25	0.81
30031299--30031354	28	2.0	27	83	10	69	76	0	0	23	0.78
30033331--30033374	23	2.0	22	81	4	52	9	22	2	65	1.32
30033935--30034008	30	2.5	30	97	0	139	13	2	25	58	1.49
30034456--30034526	22	3.3	22	73	11	83	23	19	19	36	1.95
30036540--30036573	13	2.5	14	85	9	52	5	2	44	47	1.42
30037612--30037656	17	2.6	17	89	3	63	11	24	46	17	1.81
30038164--30038204	16	2.8	15	82	10	50	29	12	17	41	1.85
30038965--30038992	11	2.5	11	100	0	56	89	0	10	0	0.49
30043023--30043171	53	2.8	53	91	2	228	32	8	17	41	1.80
30043537--30043572	16	2.2	16	90	0	54	77	5	5	11	1.10
30060949--30061129	43	4.2	43	73	9	147	29	28	17	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30060903--30061080	86	2.1	85	81	5	198	30	28	17	23	1.97
30064193--30064230	6	6.7	6	87	6	53	81	2	0	15	0.80
30064194--30064231	12	3.5	11	89	10	60	78	2	0	18	0.86
30064492--30064540	22	2.2	22	100	0	98	73	4	18	4	1.15
30065458--30065531	7	10.4	7	81	8	51	37	41	0	20	1.52
30065483--30065529	14	3.4	13	80	13	58	31	48	0	19	1.49
30065483--30065529	21	2.2	21	88	0	67	31	48	0	19	1.49
30065814--30065846	14	2.3	15	94	5	59	36	33	0	30	1.58
30066251--30066363	41	2.8	40	88	5	172	27	29	21	22	1.99
30066405--30066495	40	2.3	38	81	7	103	20	19	23	36	1.95
30066910--30066983	19	3.7	20	80	10	80	41	1	5	51	1.33
30071176--30071226	18	2.8	18	75	0	66	13	43	3	39	1.63
30073941--30074027	33	2.7	32	77	12	95	49	16	8	26	1.73
30074019--30074058	20	2.0	20	85	0	53	50	10	10	30	1.69
30074007--30074073	34	1.9	35	87	3	100	46	11	8	32	1.72
30074042--30074081	14	2.9	14	84	0	53	42	17	7	32	1.77
30075428--30075458	15	2.1	15	93	0	53	51	32	6	9	1.60
30082028--30082471	51	8.7	51	77	5	391	30	14	25	29	1.95
30082027--30082477	102	4.4	102	88	1	586	30	14	25	30	1.94
30085391--30085445	27	2.1	27	82	3	67	20	14	21	43	1.87
30085412--30085712	27	11.2	26	82	4	271	18	18	18	44	1.87
30085427--30085712	81	3.5	82	81	9	327	18	18	18	44	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30108853--30108899	24	2.0	24	82	0	58	38	6	14	40	1.72
30129329--30129431	32	3.3	30	85	8	134	23	21	18	36	1.95
30136388--30136431	22	2.0	21	83	12	54	40	0	0	59	0.98
30145579--30145631	17	3.4	17	67	20	51	11	22	41	24	1.86
30145579--30145673	30	3.2	30	88	8	140	11	24	41	23	1.87
30150006--30150038	14	2.4	14	90	5	50	66	0	9	24	1.20
30150858--30150971	19	5.8	19	84	5	138	38	14	9	36	1.80
30150858--30150970	40	2.8	40	92	4	176	38	14	9	37	1.79
30150858--30150971	59	1.9	58	89	1	174	38	14	9	36	1.80
30151491--30151761	44	6.2	44	77	8	248	30	25	16	27	1.97

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