genome.fa.s16.2.7.7.80.10.50.1000.39.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  39  of  175  ( 20966 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)
10724391--10724435	19	2.4	19	85	3	56	40	2	2	55	1.24
10724457--10724512	25	2.1	27	84	12	73	41	1	0	57	1.09
10734065--10734099	16	2.2	16	90	5	54	82	14	0	2	0.77
10734531--10734568	19	2.0	20	85	15	53	10	13	0	76	1.02
10741383--10741413	16	1.9	16	93	0	53	35	0	64	0	0.94
10751607--10751643	17	2.1	18	90	5	58	29	2	0	67	1.04
10753013--10753054	14	2.9	15	77	22	54	35	0	4	59	1.19
10754876--10754965	32	2.8	33	77	17	93	60	4	2	33	1.29
10754920--10754965	16	2.8	17	70	9	51	58	6	0	34	1.24
10755198--10755238	3	13.3	3	85	14	57	63	0	0	36	0.95
10755195--10755244	21	2.4	21	86	6	75	62	4	0	34	1.14
10756631--10756742	44	2.5	44	80	1	134	25	25	20	28	1.99
10756701--10757629	88	10.6	88	87	2	1080	23	26	24	25	2.00
10756808--10756948	43	3.2	43	68	11	124	21	29	24	24	1.99
10756741--10756879	44	3.2	43	66	11	120	23	23	25	26	2.00
10756763--10756906	45	3.2	45	67	11	134	22	26	22	28	1.99
10756787--10756923	44	3.1	44	68	12	136	23	27	24	24	2.00
10757004--10757142	44	3.2	43	70	4	125	20	21	29	28	1.98
10756701--10757629	264	3.5	263	87	1	1191	23	26	24	25	2.00
10763969--10764057	30	2.8	33	80	17	93	59	4	2	33	1.30
10764298--10764363	15	4.7	15	71	17	52	60	1	3	34	1.21
10764291--10764334	18	2.4	18	79	20	56	61	4	0	34	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10769048--10769132	3	28.3	3	90	0	125	64	3	2	29	1.22
10769505--10769548	23	1.9	23	85	0	61	29	4	4	61	1.36
10772638--10772698	27	2.2	28	80	14	72	54	9	4	31	1.55
10772898--10772936	3	13.0	3	100	0	78	66	0	0	33	0.92
10774341--10774484	56	2.5	57	80	1	137	35	18	20	25	1.95
10774482--10774556	28	2.7	29	77	8	84	26	16	25	32	1.96
10784358--10784424	33	2.0	33	91	0	107	31	14	32	20	1.93
10792912--10792976	19	3.2	19	76	19	76	76	0	4	18	0.95
10792921--10792998	24	3.2	24	80	15	97	74	0	5	20	1.01
10792951--10792984	14	2.2	16	85	15	54	73	0	5	20	1.04
10802328--10802382	27	2.0	28	82	3	67	36	21	27	14	1.93
10808645--10809082	220	2.0	221	98	0	842	36	11	21	31	1.88
10815123--10815218	24	4.0	24	88	0	129	22	16	26	34	1.95
10815415--10815525	53	2.1	53	94	0	195	23	18	13	45	1.84
10817370--10817411	21	2.0	21	95	0	75	54	0	7	38	1.28
10818217--10818241	13	1.9	13	100	0	50	52	48	0	0	1.00
10820835--10820870	15	2.4	15	100	0	72	75	0	13	11	1.06
10827612--10827636	6	4.2	6	100	0	50	52	0	32	16	1.44
10828679--10828746	34	2.0	34	100	0	136	35	20	11	32	1.89
10832292--10832425	23	5.8	23	82	0	169	44	24	16	14	1.84
10832290--10832427	69	2.0	70	89	1	215	44	24	15	15	1.85
10840041--10840079	6	6.3	6	82	5	51	61	0	23	15	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10843884--10844027	27	5.4	26	85	2	180	26	24	11	37	1.90
10843884--10844032	53	2.8	52	84	4	192	26	23	11	38	1.88
10851685--10851712	4	7.0	4	100	0	56	75	0	0	25	0.81
10851745--10851784	21	2.0	20	85	14	55	42	2	0	55	1.13
10854232--10854275	21	2.1	21	91	0	70	47	9	9	34	1.67
10861470--10861564	35	2.8	35	80	3	95	34	32	9	23	1.87
10862567--10862608	15	2.7	15	85	3	57	50	0	0	50	1.00
10863126--10863159	17	2.0	17	100	0	68	23	11	5	58	1.55
10871997--10872232	50	4.7	50	78	2	226	22	26	23	28	1.99
10895069--10895106	18	2.2	17	86	9	51	60	15	0	23	1.35
10896008--10896056	26	1.9	25	87	4	71	36	4	2	57	1.30
10896013--10896069	26	2.2	26	81	6	62	42	3	3	50	1.36
10900085--10900112	13	2.2	13	100	0	56	53	21	0	25	1.46
10905109--10905156	6	8.3	6	81	4	55	77	2	0	20	0.88
10905110--10905157	11	4.4	10	78	17	51	75	2	0	22	0.91
10935834--10936212	40	9.5	40	84	2	456	14	28	17	39	1.89
10935970--10936192	20	11.1	20	69	7	130	14	30	17	37	1.90
10935834--10936204	120	3.1	119	88	1	508	14	27	17	39	1.89
10952940--10952986	19	2.4	19	86	10	60	65	0	8	25	1.20
10954824--10954865	19	2.2	19	91	0	66	42	19	11	26	1.85
10959441--10959477	19	1.9	19	94	0	65	37	13	16	32	1.87
10960653--10960689	15	2.3	17	86	9	51	48	10	2	37	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10965621--10965894	146	1.9	147	94	0	487	25	18	18	37	1.94
10972795--10972851	19	3.0	19	82	10	64	57	0	0	42	0.98
10977355--10977415	32	1.9	32	83	12	81	45	3	1	49	1.28
10982498--10982663	5	33.2	5	88	2	118	33	20	10	35	1.87
10982890--10982936	7	6.7	7	84	15	62	42	17	0	40	1.49
10982994--10983024	14	2.2	14	94	0	53	45	9	0	45	1.36
10983167--10983385	49	4.5	49	83	1	224	32	30	19	17	1.95
10983928--10983987	31	1.9	31	86	0	84	73	5	16	5	1.19
10984570--10984623	28	2.0	27	85	7	74	48	3	0	48	1.19
10986446--10986511	30	2.2	30	83	2	80	25	9	18	46	1.78
10988952--10989007	18	3.1	18	76	0	67	42	25	7	25	1.80
10988952--10989039	36	2.4	36	88	0	122	43	21	6	28	1.78
10989968--10990004	6	6.5	6	87	6	51	13	0	2	83	0.74
10989968--10990007	16	2.5	17	88	8	57	12	0	2	85	0.71
10989972--10990012	22	1.9	21	90	5	64	9	2	2	85	0.78
10992978--10993031	23	2.4	22	77	20	58	37	5	0	57	1.22
10992982--10993048	32	2.1	31	83	8	82	38	5	0	55	1.25
10993554--10993618	25	2.6	25	75	2	67	46	3	6	44	1.44
10994204--10994248	23	1.9	24	86	13	67	48	4	0	46	1.22
10996697--10996984	125	2.3	125	94	0	495	30	18	20	29	1.97
11000277--11000388	22	5.4	21	68	20	83	46	2	27	23	1.66
11000277--11000322	11	4.3	11	91	2	67	50	4	28	17	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11000264--11000384	62	2.0	61	88	1	179	45	2	28	23	1.66
11001892--11001935	17	2.7	16	79	13	54	29	2	9	59	1.41
11003757--11003953	66	3.0	66	93	0	322	27	17	30	24	1.97
11005872--11006126	87	2.9	87	87	1	377	35	23	15	25	1.94
11011039--11011134	41	2.3	40	82	7	113	35	20	15	28	1.93
11011055--11011135	41	2.0	41	87	0	117	35	19	14	29	1.92
11011039--11011147	41	2.7	41	79	2	112	36	19	14	29	1.91
11015476--11015507	12	2.7	12	100	0	64	31	18	18	31	1.95
11016694--11016740	21	2.2	22	85	14	71	63	0	0	36	0.94
11017558--11017601	20	2.2	20	91	0	70	38	9	25	27	1.86
11019187--11019224	18	2.2	17	86	9	51	68	2	13	15	1.32
11020685--11021189	175	2.9	173	87	1	713	22	26	24	26	2.00
11020694--11021186	44	11.2	44	68	7	268	23	26	24	25	2.00
11020701--11021189	88	5.6	87	80	4	527	22	26	24	26	2.00
11022449--11022501	20	2.5	21	81	6	63	7	20	1	69	1.22
11022456--11022485	13	2.3	13	94	0	51	10	20	0	70	1.16
11023411--11023478	35	1.9	35	85	5	93	4	10	8	76	1.14
11028504--11028539	16	2.3	15	90	4	54	61	2	8	27	1.39
11028504--11028558	28	2.0	26	82	6	65	61	3	5	29	1.35
11029011--11029049	11	3.6	11	86	3	53	82	7	2	7	0.94
11042514--11042619	32	3.3	32	84	6	142	34	8	11	45	1.71
11043545--11043578	17	1.9	17	88	5	50	61	11	8	17	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11043530--11043578	18	2.8	17	78	6	53	61	12	8	18	1.55
11051373--11051422	8	6.4	8	75	11	50	54	28	2	16	1.53
11051375--11051406	15	2.2	14	94	5	55	53	31	0	15	1.43
11052980--11053036	3	21.0	3	73	20	54	70	3	0	26	1.03
11059846--11059875	10	3.1	10	90	9	53	10	0	16	73	1.09
11060272--11060474	45	4.6	44	76	7	187	24	23	23	28	1.99
11060272--11060474	89	2.3	89	86	1	273	24	23	23	28	1.99
11060308--11060563	45	5.8	45	76	3	227	25	23	20	30	1.98
11060649--11061214	50	11.3	50	78	3	393	24	19	23	32	1.98
11060634--11061246	100	6.1	100	82	4	615	24	19	22	32	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