genome.fa.s15.2.7.7.80.10.50.1000.182.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: D02
Parameters: 2 7 7 80 10 50 1000
Length:  70731513

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   

This is table  182  of  222  ( 26535 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)
58281499--58281548	26	1.9	26	91	0	82	38	28	22	12	1.89
58281722--58282126	27	15.0	27	83	5	453	18	18	19	44	1.87
58287606--58287751	62	2.4	62	80	2	161	31	15	14	38	1.88
58289871--58290066	92	2.1	91	84	0	248	44	12	11	31	1.79
58289908--58290113	91	2.2	92	82	2	243	43	11	12	32	1.79
58303231--58303304	34	2.2	34	87	0	103	37	25	5	31	1.79
58305425--58305574	76	2.0	76	87	0	219	29	19	12	38	1.89
58307780--58307811	3	10.7	3	100	0	64	0	0	31	68	0.90
58314679--58314729	20	2.5	20	83	0	75	37	7	0	54	1.29
58314621--58314835	104	2.1	104	95	3	389	35	8	3	52	1.51
58314665--58314831	52	3.2	51	73	20	173	35	8	3	52	1.51
58314785--58314831	20	2.3	20	85	0	67	34	10	0	55	1.35
58316487--58316529	3	14.3	3	80	9	52	32	4	0	62	1.15
58316539--58316587	24	2.0	24	84	8	62	34	12	6	46	1.66
58316551--58316595	24	1.9	23	86	4	63	37	6	6	48	1.56
58322266--58323300	44	23.5	44	86	3	1190	31	12	22	32	1.92
58333280--58333319	21	1.9	21	84	0	53	10	0	52	37	1.35
58338140--58338234	43	2.2	43	88	0	136	34	11	8	45	1.71
58338507--58338790	43	6.6	44	83	5	350	22	16	32	27	1.96
58341122--58341146	6	4.2	6	100	0	50	68	0	0	32	0.90
58341766--58341821	22	2.5	22	97	2	103	28	32	0	39	1.57
58341793--58341908	51	2.3	51	95	0	205	28	25	0	44	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58343049--58343073	7	3.6	7	100	0	50	28	0	12	60	1.32
58344287--58344339	19	2.7	19	83	11	63	60	11	7	20	1.55
58345829--58345936	44	2.4	46	82	11	136	25	24	16	33	1.96
58345998--58347385	132	10.5	132	89	2	1859	28	24	18	28	1.98
58349697--58349736	20	2.0	20	90	4	64	70	5	10	15	1.32
58353847--58353899	19	2.7	19	83	11	63	60	11	7	20	1.55
58354616--58354650	18	1.9	18	100	0	70	60	0	22	17	1.37
58356041--58356127	44	2.0	45	88	6	133	36	0	13	49	1.43
58356133--58357178	23	43.5	23	73	18	768	45	24	1	28	1.60
58356153--58356217	31	2.1	31	85	2	87	49	21	0	29	1.50
58356200--58357178	68	13.6	70	77	16	824	45	24	1	28	1.61
58356133--58357178	125	8.7	119	77	17	614	45	24	1	28	1.60
58356205--58357152	45	20.0	45	73	20	434	45	24	1	28	1.61
58356524--58356610	29	3.2	29	68	29	84	44	27	1	26	1.61
58356643--58356754	57	2.0	57	92	3	190	45	29	0	24	1.59
58356807--58356907	24	3.9	28	77	18	103	45	21	0	31	1.59
58357105--58357213	53	2.1	51	89	5	166	44	26	0	28	1.61
58357161--58357208	23	2.2	21	85	10	62	43	27	0	29	1.55
58357210--58357427	116	1.9	116	94	0	382	39	9	8	42	1.69
58357403--58357444	17	2.4	18	80	4	50	42	9	2	45	1.49
58360464--58360804	126	2.7	124	86	4	481	34	21	14	29	1.94
58363521--58363590	22	3.1	23	77	8	72	15	11	12	60	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58369952--58369988	17	2.2	17	100	0	74	40	18	5	35	1.74
58372440--58372469	5	6.0	5	92	0	51	76	0	23	0	0.78
58375568--58375624	29	2.0	28	82	3	69	31	5	8	54	1.53
58378331--58378370	15	2.6	16	80	15	57	7	7	5	80	1.03
58378464--58378511	23	2.1	24	88	7	73	37	0	0	62	0.95
58378487--58378522	13	2.5	15	86	13	58	38	0	0	61	0.96
58378502--58378558	21	2.8	21	89	7	91	38	0	0	61	0.96
58378503--58378576	21	3.7	19	84	12	87	41	0	0	58	0.98
58378616--58378672	22	2.6	21	83	13	62	38	0	1	59	1.08
58378633--58378674	21	2.1	20	86	8	59	40	0	0	59	0.97
58378652--58378693	16	2.6	17	89	10	63	38	0	0	61	0.96
58378683--58378730	21	2.3	21	85	7	62	39	0	4	56	1.19
58378681--58378738	31	1.9	29	86	6	80	39	0	3	56	1.16
58388118--58388195	21	3.8	20	68	13	61	24	11	11	52	1.70
58388125--58388203	40	2.0	39	90	2	122	29	11	11	48	1.74
58388228--58388269	21	2.0	21	90	0	66	21	11	11	54	1.68
58388169--58388307	70	2.0	70	90	2	217	33	12	14	40	1.83
58388593--58388634	19	2.3	19	87	4	59	38	0	2	59	1.10
58388625--58388660	19	1.9	19	88	5	56	38	2	5	52	1.39
58388625--58388673	19	2.7	18	84	9	55	40	2	4	53	1.32
58388630--58388673	19	2.2	21	84	11	58	38	2	4	54	1.33
58394157--58394237	25	3.3	24	77	5	90	17	29	22	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58395122--58395214	42	2.2	42	88	0	141	20	27	31	20	1.97
58395122--58395227	42	2.5	42	82	0	140	19	27	32	20	1.97
58395918--58395961	22	2.0	22	86	0	61	13	20	22	43	1.87
58396095--58396206	42	2.7	42	91	1	172	27	14	21	36	1.92
58396150--58396319	42	4.0	42	75	7	128	29	18	18	33	1.95
58396624--58396758	66	2.0	66	91	0	216	14	27	17	40	1.89
58402212--58402257	7	6.0	7	90	9	56	30	0	17	52	1.45
58402219--58402539	9	37.4	9	69	13	180	33	3	17	46	1.64
58402423--58402466	23	1.9	23	90	0	70	31	2	15	50	1.57
58407174--58407708	115	4.7	113	76	9	487	25	23	19	30	1.98
58407174--58407784	229	2.7	227	77	9	596	26	23	19	30	1.98
58417496--58417805	110	2.8	110	88	2	430	33	19	16	30	1.94
58417845--58417888	21	2.1	22	87	8	65	54	2	13	29	1.51
58417936--58418022	42	2.1	41	81	10	97	64	10	6	18	1.46
58434294--58434380	45	1.9	45	92	0	147	43	12	20	22	1.86
58445230--58445261	13	2.5	13	94	0	55	46	6	3	43	1.44
58446253--58446336	41	2.0	41	100	0	168	22	9	23	44	1.82
58448230--58448331	51	2.0	51	100	0	204	31	21	13	33	1.92
58451647--58451723	41	1.9	41	83	2	102	28	15	24	31	1.96
58451652--58451874	114	2.0	114	80	5	254	27	21	23	27	1.99
58452285--58452327	17	2.9	15	81	18	54	25	0	27	46	1.53
58453396--58453743	146	2.4	146	79	7	350	27	14	20	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58454445--58454475	10	3.0	10	90	9	53	29	3	0	67	1.06
58456046--58456086	21	2.0	21	90	0	64	36	14	43	4	1.67
58456538--58456805	42	6.3	42	84	3	281	29	22	19	28	1.98
58463817--58463861	18	2.5	18	100	0	90	22	17	4	55	1.60
58470441--58470533	30	3.3	27	81	10	105	31	6	0	62	1.20
58470466--58470537	27	2.6	28	82	2	83	33	5	0	61	1.19
58471025--58471073	23	2.3	20	79	10	53	42	4	2	51	1.32
58472122--58472156	14	2.4	14	95	4	61	8	25	0	65	1.21
58472102--58472146	19	2.5	18	83	16	58	6	26	0	66	1.16
58472834--58472880	19	2.4	19	89	3	67	31	4	25	38	1.75
58472847--58472893	19	2.4	19	96	3	85	29	4	21	44	1.71
58474663--58474694	16	1.9	17	93	6	57	53	0	0	46	1.00
58474687--58474899	61	3.4	63	69	17	194	41	2	6	49	1.41
58474649--58474941	120	2.4	120	92	2	482	42	2	5	50	1.36
58474770--58474804	18	2.0	17	88	5	52	40	0	0	60	0.97
58474890--58474924	18	2.0	17	88	5	52	45	0	0	54	0.99
58474878--58475150	146	1.9	148	95	3	498	47	2	3	46	1.34
58475231--58475325	45	2.1	45	88	1	138	32	27	5	34	1.79
58475306--58475357	16	3.2	16	94	0	86	34	36	0	28	1.58
58479695--58479746	20	2.8	18	76	21	54	51	5	1	40	1.37
58479961--58480003	22	2.0	22	100	0	86	27	23	30	18	1.98
58481120--58481152	5	6.6	5	100	0	66	0	18	0	81	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58481603--58481641	21	1.9	21	89	5	62	23	10	0	66	1.22
58488660--58488698	20	2.0	20	89	0	60	35	30	20	12	1.90
58489036--58489383	70	5.0	70	63	8	181	30	22	17	29	1.97
58488794--58489436	276	2.3	276	80	2	754	31	23	16	28	1.96
58488793--58489459	138	4.8	139	79	3	623	31	23	16	28	1.96
58506550--58506614	25	2.5	25	90	5	94	27	4	7	60	1.44
58506551--58506637	25	3.3	26	84	7	79	28	6	5	58	1.47
58522165--58522284	44	2.7	44	84	3	125	36	17	15	30	1.91
58522086--58522729	94	6.9	93	80	5	593	33	18	20	27	1.96
58522329--58522666	44	7.3	44	66	19	141	31	18	22	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