genome.fa.s26.2.7.7.80.10.50.1000.175.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: D13
Parameters: 2 7 7 80 10 50 1000
Length:  64892201

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   

This is table  175  of  221  ( 26413 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)
52257962--52258168	89	2.4	89	81	11	250	29	29	19	21	1.97
52257962--52258167	43	4.7	42	83	10	229	30	29	19	20	1.97
52258472--52258583	21	5.3	21	80	0	107	5	40	16	38	1.71
52258472--52258573	42	2.4	42	83	3	125	4	40	15	39	1.69
52258555--52258701	66	2.2	66	86	4	199	14	27	17	40	1.89
52258598--52258724	66	1.9	66	88	3	193	15	23	18	42	1.88
52264080--52264113	16	2.1	16	94	0	59	32	0	14	52	1.42
52264094--52264149	25	2.2	25	83	0	67	35	5	14	44	1.68
52264151--52264348	9	22.7	9	65	16	60	38	3	14	43	1.61
52264193--52264271	34	2.3	34	80	0	86	41	1	13	43	1.53
52264271--52264423	34	4.7	34	80	9	183	37	3	10	48	1.54
52264277--52264490	31	6.9	31	76	12	199	38	3	10	48	1.54
52264366--52264516	56	2.7	56	96	0	284	39	2	10	47	1.52
52264608--52264660	24	2.2	24	96	0	97	49	3	3	43	1.38
52266130--52266167	17	2.2	17	95	0	67	39	13	36	10	1.79
52266408--52266481	33	2.2	33	92	2	121	36	28	2	32	1.71
52266697--52266735	16	2.6	15	84	11	53	35	5	35	23	1.77
52266711--52266767	23	2.4	22	80	13	60	36	1	42	19	1.62
52266730--52266783	23	2.3	23	84	6	65	38	1	38	20	1.63
52268859--52269086	42	5.5	41	84	0	150	32	25	26	15	1.95
52268889--52269090	42	4.8	42	85	0	235	32	24	27	15	1.96
52269069--52269110	18	2.4	18	92	4	68	35	26	16	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52269036--52269149	59	1.9	60	87	1	167	32	27	24	15	1.96
52270820--52270960	70	2.0	70	86	5	196	27	20	19	32	1.97
52271339--52271369	16	1.9	16	93	0	53	35	19	6	38	1.77
52275233--52275358	62	2.0	62	90	0	198	23	29	11	36	1.89
52276676--52276751	36	2.1	36	92	0	125	18	13	28	39	1.88
52278048--52278127	30	2.6	30	78	13	81	63	5	6	25	1.38
52279327--52279371	3	15.0	3	100	0	90	66	0	0	33	0.92
52284778--52284826	15	3.2	15	81	13	55	26	0	10	63	1.26
52286263--52286332	29	2.5	26	77	18	70	42	1	1	54	1.18
52286281--52286330	13	3.2	16	70	18	52	48	0	0	52	1.00
52286273--52286330	29	2.0	30	83	10	75	44	1	1	51	1.21
52286400--52286456	15	3.5	15	69	17	51	49	1	1	47	1.22
52296837--52296908	29	2.4	29	77	15	76	45	8	13	31	1.74
52296984--52297027	23	2.0	21	82	8	52	22	9	11	56	1.62
52297437--52297495	30	2.0	30	96	0	109	30	3	8	57	1.45
52307462--52307823	185	2.0	184	83	4	462	31	17	22	28	1.97
52307644--52308155	114	4.5	112	84	5	595	31	17	24	26	1.97
52307644--52308155	228	2.2	226	86	4	706	31	17	24	26	1.97
52308087--52308230	74	1.9	74	83	6	184	29	18	22	30	1.97
52308679--52308755	7	11.0	7	79	5	57	15	0	37	46	1.46
52308713--52308753	14	2.9	14	88	0	64	19	0	36	43	1.51
52310565--52310593	15	1.9	15	100	0	58	20	10	20	48	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52310921--52310949	12	2.3	13	94	5	51	34	3	0	62	1.12
52310993--52311082	13	6.8	13	73	7	74	41	8	4	45	1.55
52311833--52312262	9	48.7	9	66	21	139	46	19	2	31	1.61
52311838--52311912	32	2.3	31	77	8	78	49	17	2	30	1.60
52311982--52312049	30	2.3	30	87	7	95	48	17	0	33	1.48
52312056--52312152	43	2.3	42	77	16	101	46	21	1	30	1.58
52312028--52312180	77	2.0	77	92	0	252	47	19	1	31	1.61
52312192--52312262	23	3.0	23	91	2	115	42	16	1	39	1.57
52314030--52314100	21	3.4	21	86	0	88	35	16	42	5	1.72
52314436--52314605	42	4.0	42	91	0	277	32	22	21	24	1.98
52322818--52322874	28	2.0	29	83	10	73	38	1	1	57	1.19
52322866--52322910	22	2.0	22	86	8	63	35	0	2	62	1.08
52325358--52325398	22	1.9	21	90	5	64	43	4	0	51	1.23
52325504--52325533	14	2.1	14	93	0	51	46	10	0	43	1.37
52329659--52329700	8	5.0	8	78	21	50	76	11	0	11	1.03
52329659--52329697	18	2.1	19	95	4	71	79	10	0	10	0.94
52329655--52329715	26	2.3	24	74	17	59	75	8	6	9	1.19
52330720--52330755	16	2.2	16	90	9	56	88	8	2	0	0.59
52330720--52330755	17	2.2	16	90	5	54	88	8	2	0	0.59
52332148--52333462	50	26.3	50	70	5	735	32	24	20	22	1.98
52332096--52333439	100	13.4	100	86	1	1485	32	24	20	22	1.98
52335032--52335072	22	1.9	21	90	5	64	43	4	0	51	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52335178--52335209	16	2.0	16	93	0	55	46	9	0	43	1.35
52337658--52337862	98	2.1	99	89	3	313	27	16	14	41	1.87
52342983--52343130	62	2.4	62	89	0	233	23	25	20	30	1.99
52348963--52349028	18	3.6	18	78	11	71	63	1	0	34	1.04
52348961--52349028	19	3.6	19	74	18	70	63	1	0	35	1.04
52351694--52351760	34	1.9	35	90	3	109	34	7	10	47	1.66
52356132--52356163	17	1.9	16	93	6	55	34	0	0	65	0.93
52356306--52356341	16	2.2	16	90	9	56	55	5	22	16	1.62
52367500--52367553	23	2.3	23	87	0	72	22	29	20	27	1.98
52371396--52371512	44	2.7	43	82	13	150	29	28	18	23	1.98
52374628--52374688	25	2.4	25	80	2	68	32	18	27	21	1.96
52378797--52378824	2	14.0	2	100	0	56	50	0	0	50	1.00
52382477--52382504	5	5.6	5	100	0	56	60	0	0	39	0.97
52398312--52398403	22	4.2	21	73	19	64	55	3	1	40	1.23
52398353--52398390	11	3.4	11	88	3	58	57	2	2	36	1.26
52398378--52398419	16	2.7	16	77	3	50	61	0	0	38	0.96
52407729--52407835	20	5.2	20	75	18	94	57	2	0	39	1.20
52407721--52407792	20	3.7	19	83	7	83	58	4	0	37	1.18
52407761--52407817	27	2.1	27	84	9	73	57	5	0	36	1.21
52407738--52407817	8	9.0	8	70	18	52	55	3	0	41	1.18
52407754--52407848	45	2.2	43	84	7	120	51	3	1	44	1.24
52409461--52409498	20	1.9	20	84	10	51	50	2	15	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52409940--52409988	3	15.3	3	87	8	62	61	0	8	30	1.25
52412418--52412625	72	2.8	73	81	4	213	26	17	20	35	1.95
52416569--52416632	31	2.1	31	85	5	85	21	14	1	62	1.40
52421746--52421770	13	1.9	13	100	0	50	32	4	0	64	1.12
52421776--52421817	17	2.5	17	88	0	66	30	7	7	54	1.54
52423728--52423775	24	2.0	24	95	0	87	29	27	16	27	1.97
52430985--52431022	12	2.8	13	88	11	51	65	0	0	34	0.93
52431001--52431034	15	2.3	15	89	0	50	70	2	0	26	1.01
52431242--52431280	19	2.0	21	85	10	55	69	5	10	15	1.34
52431475--52431550	21	3.7	21	85	7	111	36	11	9	42	1.74
52431488--52431551	19	3.3	19	93	4	101	37	14	9	39	1.78
52431861--52431973	44	2.6	44	77	6	122	26	19	21	32	1.97
52431897--52432318	44	9.8	43	68	16	162	27	22	20	28	1.99
52431906--52432332	217	2.0	217	90	1	678	27	22	20	29	1.98
52432329--52433149	132	6.3	132	86	4	1175	24	24	19	31	1.98
52432331--52433104	257	3.0	257	93	0	1305	24	24	19	31	1.98
52432914--52433098	44	4.2	44	65	5	113	27	23	19	30	1.98
52434368--52434400	16	2.0	17	88	5	50	0	27	3	69	1.03
52434369--52434416	21	2.3	22	82	10	64	0	20	4	75	0.97
52439030--52439060	15	2.1	14	94	5	53	61	0	0	38	0.96
52439518--52439600	21	4.1	21	87	6	109	38	10	8	42	1.70
52454379--52454414	5	7.2	5	100	0	72	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52455309--52455383	19	4.0	19	70	20	68	36	1	26	36	1.65
52455631--52455730	41	2.6	37	73	6	92	22	20	30	28	1.98
52457741--52457975	33	6.7	33	68	20	124	33	27	17	20	1.96
52457754--52457953	75	2.7	75	89	0	310	35	28	15	21	1.94
52457928--52457977	26	1.9	26	95	0	91	30	32	22	16	1.95
52465558--52465601	23	1.9	23	95	0	79	47	18	0	34	1.49
52465560--52465601	11	3.5	13	75	18	54	50	16	0	33	1.46
52475557--52475615	24	2.5	23	74	17	57	18	3	5	72	1.17
52477927--52478096	90	1.9	90	96	0	313	47	7	16	28	1.73
52479472--52479524	18	3.0	17	81	13	63	60	3	11	24	1.47

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