genome.fa.s25.2.7.7.80.10.50.1000.102.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  102  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)
30113625--30113680	9	6.1	9	75	17	53	57	1	0	41	1.09
30113611--30113757	19	7.8	18	70	21	90	61	4	0	34	1.15
30113621--30113757	37	3.6	37	75	13	118	59	4	0	35	1.17
30113611--30113967	10	37.9	9	65	23	82	60	5	1	32	1.28
30113724--30113808	19	4.5	19	68	19	52	57	1	2	38	1.19
30113923--30113967	9	4.9	10	78	15	53	66	2	0	31	1.04
30114451--30114518	30	2.3	30	84	5	84	41	0	4	54	1.20
30114437--30114634	9	20.9	9	65	21	52	36	2	5	56	1.33
30123707--30123767	31	2.0	31	83	0	77	42	3	4	49	1.40
30124323--30124384	32	1.9	32	86	0	88	40	6	1	51	1.37
30127648--30127675	13	2.2	13	100	0	56	0	14	21	64	1.29
30129510--30129535	13	2.0	13	100	0	52	38	0	7	53	1.30
30132623--30132768	44	3.2	47	68	14	126	44	2	3	50	1.30
30132604--30132768	91	1.8	90	89	3	260	45	3	3	47	1.35
30132657--30132795	75	1.9	73	89	3	215	46	2	2	48	1.32
30132811--30133347	120	4.5	120	96	1	936	42	2	5	49	1.39
30132932--30132965	17	2.0	17	88	11	52	44	0	0	55	0.99
30132811--30133347	239	2.2	240	94	2	945	42	2	5	49	1.39
30133175--30133226	15	3.6	15	80	12	56	44	0	1	53	1.11
30133484--30133574	45	2.0	44	85	6	121	32	28	5	32	1.80
30133551--30133599	16	3.1	16	81	0	62	22	30	6	40	1.78
30135345--30135378	15	2.3	15	90	5	52	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30140773--30140826	24	2.2	24	87	6	74	31	20	29	18	1.96
30140839--30140896	25	2.4	24	79	2	71	41	20	22	15	1.90
30148835--30148880	6	7.0	6	81	18	56	17	60	6	15	1.55
30148835--30148880	14	3.5	13	88	11	67	17	60	6	15	1.55
30150117--30150181	32	2.0	32	96	0	121	30	9	13	46	1.75
30150318--30150369	25	2.1	25	96	0	95	40	3	9	46	1.55
30159956--30160010	12	4.4	13	76	15	62	32	0	1	65	1.03
30164653--30164709	30	1.9	30	92	0	96	29	1	29	38	1.67
30166460--30166508	14	3.6	14	79	12	50	67	0	32	0	0.91
30166485--30166516	10	3.2	10	90	0	55	75	0	25	0	0.81
30167056--30167093	20	1.9	20	88	0	58	36	13	7	42	1.73
30167210--30167258	18	2.8	17	84	6	71	26	16	10	46	1.78
30167317--30167390	17	4.5	16	73	9	69	39	10	12	37	1.78
30167398--30167655	17	13.9	19	69	20	120	32	11	10	45	1.75
30167398--30167657	18	14.1	18	69	20	94	32	11	10	45	1.74
30167356--30167446	44	2.1	43	87	8	130	23	12	14	50	1.76
30167362--30167456	45	2.1	44	81	9	104	27	11	11	49	1.73
30167349--30167489	61	2.3	62	81	9	164	29	10	12	47	1.74
30167467--30167510	22	2.0	22	82	4	54	40	6	6	45	1.57
30167496--30167525	15	2.0	15	100	0	60	46	6	6	40	1.56
30170831--30170897	20	3.3	20	82	2	89	10	32	22	34	1.88
30171530--30171581	25	2.1	25	92	0	86	28	19	11	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30175490--30175707	46	4.6	46	80	8	233	31	22	15	30	1.95
30175534--30175738	98	2.1	97	87	2	286	33	23	14	28	1.94
30186657--30186694	20	1.9	20	89	10	60	42	2	2	52	1.29
30187950--30188052	46	2.2	46	87	3	145	43	15	7	33	1.75
30189414--30189438	10	2.5	10	100	0	50	44	16	0	40	1.47
30190021--30190069	20	2.4	21	82	3	55	46	2	6	44	1.39
30190014--30190066	20	2.6	19	77	11	52	47	1	5	45	1.37
30193204--30193251	15	3.1	15	84	3	60	54	2	12	31	1.49
30214077--30214147	36	2.0	36	91	0	115	32	15	2	49	1.59
30216983--30217095	55	2.0	56	93	3	192	34	21	11	32	1.89
30217063--30217091	12	2.4	12	100	0	58	37	24	20	17	1.93
30217703--30217732	16	1.9	15	93	6	51	63	10	0	26	1.26
30219021--30219189	27	6.3	27	75	8	121	28	15	23	33	1.95
30228909--30229093	39	4.6	39	75	19	166	58	0	3	38	1.14
30228932--30228968	10	3.5	10	92	7	56	54	0	2	43	1.14
30228909--30229005	49	2.0	49	89	4	151	54	0	3	42	1.16
30228932--30228970	11	3.6	11	89	6	53	53	0	2	43	1.14
30228909--30229093	37	4.9	39	85	10	226	58	0	3	38	1.14
30228925--30229093	75	2.2	75	83	12	211	60	0	2	36	1.12
30228925--30229083	85	1.9	85	85	10	227	59	0	3	37	1.14
30228929--30229042	12	10.5	11	71	19	64	57	0	2	39	1.12
30240857--30240943	43	2.0	43	93	0	147	34	16	21	27	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30241407--30241455	25	2.0	25	95	0	89	26	18	8	46	1.76
30247693--30247980	41	7.0	41	80	6	314	19	31	15	32	1.93
30247693--30247980	82	3.5	81	83	3	355	19	31	15	32	1.93
30247693--30247984	123	2.4	123	83	5	376	20	31	15	32	1.94
30270948--30271011	31	2.1	31	88	5	94	25	18	10	45	1.82
30275470--30275632	82	2.0	82	98	0	317	39	8	8	42	1.66
30276148--30276232	43	2.0	43	95	0	152	25	22	4	47	1.71
30284465--30284541	26	3.0	26	81	5	95	40	9	16	33	1.81
30288878--30289065	94	2.0	94	98	0	367	32	28	10	28	1.90
30307506--30307583	33	2.4	32	78	16	88	34	16	21	26	1.95
30307475--30307663	104	1.9	100	84	4	252	33	15	23	26	1.95
30309323--30309365	20	2.2	20	82	0	50	25	11	18	44	1.84
30319097--30319265	57	3.0	57	85	3	216	37	12	10	39	1.77
30327554--30327668	57	2.0	56	91	1	185	39	12	8	40	1.73
30334227--30334277	23	2.3	22	83	10	59	43	0	0	56	0.99
30336009--30336060	19	2.5	20	75	15	52	48	3	5	42	1.45
30339818--30340003	51	3.7	50	80	4	205	26	17	25	29	1.98
30349557--30349613	26	2.2	26	100	0	114	14	19	10	56	1.67
30352885--30353029	49	2.9	49	89	2	209	31	28	14	24	1.95
30356864--30356898	16	2.1	17	89	5	54	45	0	11	42	1.40
30358371--30358395	12	2.1	12	100	0	50	60	0	0	40	0.97
30362021--30362046	6	4.3	6	100	0	52	15	34	0	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30378978--30379028	24	2.1	24	100	0	102	54	7	29	7	1.57
30380048--30380107	27	2.3	26	85	8	77	61	5	3	30	1.33
30381441--30381477	9	4.1	9	92	0	65	32	8	10	48	1.67
30383384--30383515	45	2.9	45	77	4	124	25	21	21	31	1.98
30383407--30383742	143	2.4	141	85	2	440	25	20	22	31	1.98
30390659--30390720	27	2.3	26	83	8	72	61	4	4	29	1.37
30399065--30399114	26	2.0	26	92	4	84	60	22	6	12	1.53
30399067--30399114	12	3.8	12	81	10	60	60	22	6	10	1.52
30407239--30407280	11	3.8	11	87	0	66	19	19	7	54	1.66
30407285--30407319	12	2.8	13	91	8	63	45	0	0	54	0.99
30407287--30407329	12	3.7	12	87	3	61	41	0	0	58	0.98
30409107--30409141	18	1.9	18	94	0	61	25	31	8	34	1.86
30409538--30409624	44	2.0	45	88	6	133	36	0	13	49	1.43
30409592--30409754	25	6.7	25	78	12	196	41	1	15	41	1.55
30409750--30410246	23	20.5	23	72	21	221	44	27	0	28	1.54
30409824--30409875	21	2.4	22	93	3	88	48	28	0	23	1.51
30409770--30410184	29	15.4	29	74	19	284	44	27	0	27	1.55
30409770--30410233	175	2.7	170	92	4	747	44	27	0	28	1.55
30409999--30410054	21	2.6	22	97	2	105	48	26	0	25	1.52
30410169--30410225	21	2.6	22	86	10	82	42	31	0	26	1.56
30410214--30410257	23	1.9	23	85	0	61	52	20	2	25	1.58
30410250--30410490	116	2.1	116	96	2	448	39	8	9	43	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30410466--30410507	18	2.4	17	84	7	57	45	7	2	45	1.44
30413511--30413737	125	1.8	125	95	0	409	31	22	17	29	1.96
30424187--30424219	7	4.9	7	96	3	59	27	0	27	45	1.54
30428261--30428313	18	3.0	17	91	5	79	39	1	1	56	1.21
30428547--30428600	16	3.4	16	86	0	72	27	31	1	38	1.67
30429693--30429730	19	2.0	20	85	15	53	36	0	15	47	1.46
30438473--30438562	24	3.8	24	79	5	110	45	7	30	16	1.76
30438484--30438602	24	5.0	24	76	6	98	47	10	25	16	1.78
30438471--30438602	48	2.8	48	89	2	194	46	9	25	17	1.78
30442045--30442081	19	1.9	18	89	10	56	16	10	2	70	1.27

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