genome.fa.s3.2.7.7.80.10.50.1000.88.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: Chr8
Parameters: 2 7 7 80 10 50 1000
Length:  70076365

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   

This is table  88  of  210  ( 25174 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)
30533601--30533643	22	2.0	21	90	4	68	41	0	0	58	0.98
30545379--30545489	26	4.3	26	73	8	91	30	32	16	20	1.95
30549958--30550008	13	3.9	13	75	10	59	31	5	23	39	1.79
30550335--30550374	19	2.0	21	85	9	57	35	2	0	62	1.09
30550335--30550374	20	2.1	19	85	4	53	35	2	0	62	1.09
30550725--30550750	13	2.0	13	100	0	52	46	15	15	23	1.83
30563477--30563576	27	3.7	27	83	4	121	36	15	22	27	1.93
30565219--30565369	27	5.7	27	69	4	92	44	8	21	25	1.80
30565260--30565342	26	3.2	26	72	3	85	38	9	22	28	1.86
30565239--30565525	106	2.7	104	81	5	335	41	10	21	26	1.85
30565224--30565554	53	6.2	53	79	3	281	40	9	22	26	1.86
30569137--30569183	19	2.4	20	82	3	60	21	17	10	51	1.75
30569272--30569316	9	4.7	10	91	5	67	8	13	0	77	0.98
30569272--30569316	19	2.3	20	85	11	67	8	13	0	77	0.98
30569275--30569329	24	2.3	23	81	9	58	9	12	0	78	0.97
30569272--30569332	28	2.2	28	82	5	70	8	14	0	77	0.99
30569580--30569617	17	2.1	18	85	9	51	23	0	2	73	0.95
30574137--30574196	30	2.0	30	100	0	120	56	10	3	30	1.48
30578159--30578216	29	2.0	29	96	0	107	24	18	13	43	1.87
30585828--30585884	30	1.9	29	85	3	78	28	8	15	47	1.75
30586256--30586325	27	2.6	27	90	4	106	17	24	40	18	1.91
30586384--30586436	22	2.3	23	84	12	74	66	1	30	1	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30591911--30592480	19	29.1	19	63	26	125	52	13	0	32	1.45
30591911--30592280	22	15.8	24	68	23	149	52	13	0	32	1.46
30591931--30592476	52	12.1	41	66	21	143	53	13	0	32	1.45
30591911--30592047	52	2.7	51	85	5	197	51	13	0	33	1.47
30592088--30592271	52	3.7	51	78	9	184	52	13	1	33	1.47
30592139--30592278	52	2.7	51	84	5	194	52	13	0	33	1.46
30591911--30592480	231	2.5	231	93	3	970	52	13	0	32	1.45
30592325--30592447	46	2.7	48	85	12	177	51	13	0	34	1.47
30592375--30592427	27	2.0	27	92	0	88	49	15	0	35	1.45
30592220--30592478	22	12.0	21	69	19	113	54	13	0	32	1.42
30592403--30592480	20	3.8	20	81	8	86	55	11	0	33	1.36
30592648--30592691	3	15.3	3	86	9	65	0	36	0	63	0.95
30592644--30592692	14	3.6	14	89	10	75	0	36	0	63	0.95
30592648--30592691	20	2.2	20	95	0	79	0	36	0	63	0.95
30592650--30592695	14	3.2	15	93	6	78	0	39	0	60	0.97
30592654--30592703	14	3.6	13	86	10	64	0	38	0	62	0.96
30594743--30594802	19	3.1	19	83	9	84	56	13	0	30	1.37
30594738--30594802	21	3.1	21	82	10	89	58	12	0	29	1.34
30594804--30594857	27	2.0	27	85	0	72	22	25	18	33	1.97
30606091--30606187	38	2.6	38	88	0	140	28	15	25	29	1.96
30610660--30610695	5	7.0	5	96	3	63	77	0	0	22	0.76
30624379--30624440	31	2.0	31	100	0	124	64	0	29	6	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30633114--30633156	18	2.4	18	80	0	50	30	0	13	55	1.39
30639174--30639310	50	2.6	52	79	14	147	25	21	29	23	1.99
30639221--30639352	50	2.7	49	84	4	158	26	22	30	20	1.98
30639616--30639643	12	2.3	12	100	0	56	57	7	17	17	1.62
30645966--30646061	23	4.2	23	76	5	95	47	20	14	16	1.82
30650468--30650510	18	2.5	17	88	7	61	48	9	30	11	1.71
30650953--30651024	23	3.1	23	85	0	90	15	19	26	38	1.91
30650968--30651033	23	2.9	23	77	8	71	16	19	25	37	1.93
30656338--30656431	9	10.4	9	83	4	118	24	11	24	39	1.89
30656764--30656942	27	6.6	27	76	3	171	38	17	19	24	1.93
30656786--30656933	55	2.7	55	85	7	194	38	16	20	25	1.92
30656786--30656961	54	3.3	55	80	7	200	36	17	21	24	1.94
30657127--30657226	27	3.8	26	76	6	94	20	22	22	36	1.96
30657179--30657228	26	1.9	26	91	0	82	20	20	22	38	1.94
30657235--30657475	32	7.6	32	76	7	118	19	21	22	36	1.95
30657492--30657537	22	2.1	22	84	4	58	19	17	17	45	1.85
30657717--30657770	28	1.9	28	88	0	81	14	27	27	29	1.95
30659408--30659475	27	2.5	27	83	4	84	39	22	17	20	1.92
30659763--30659997	32	7.4	31	78	5	220	21	20	20	36	1.95
30659760--30659996	64	3.7	64	81	3	273	21	21	21	36	1.95
30659760--30659977	96	2.3	96	81	7	264	21	21	21	35	1.96
30672664--30672916	29	8.8	29	82	0	274	22	28	11	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30672664--30672861	86	2.3	86	84	3	254	22	28	11	37	1.89
30672662--30672916	115	2.2	116	86	2	343	23	27	11	37	1.89
30685531--30685614	25	3.4	25	84	0	96	25	17	26	30	1.97
30687943--30688008	13	5.1	13	80	7	80	36	25	9	28	1.87
30697365--30697415	16	3.1	16	77	5	57	50	1	1	45	1.24
30698566--30698669	31	3.4	31	75	10	106	43	1	8	46	1.45
30703679--30703732	11	5.0	11	80	8	58	68	24	3	3	1.22
30706957--30707004	13	3.7	13	75	10	53	37	22	4	35	1.74
30708324--30708371	13	3.7	13	75	10	53	37	22	4	35	1.74
30714091--30714320	110	2.1	106	86	3	316	35	16	15	32	1.91
30714613--30714640	2	14.0	2	100	0	56	50	0	0	50	1.00
30714647--30714694	22	2.2	22	85	7	62	50	2	10	37	1.49
30714708--30714763	3	19.3	3	83	7	71	60	0	5	33	1.19
30728217--30728278	25	2.5	24	84	2	79	53	20	1	24	1.55
30728230--30728277	24	2.0	25	91	4	80	52	25	0	22	1.48
30731796--30731829	7	4.9	7	88	0	50	17	23	26	32	1.97
30732730--30732777	12	4.1	12	75	5	53	43	12	14	29	1.82
30732760--30732801	14	3.2	13	83	9	59	54	7	16	21	1.65
30732786--30732830	23	2.0	23	87	12	67	53	8	15	22	1.69
30737271--30737697	114	3.8	111	76	8	386	25	18	21	33	1.97
30740617--30740801	92	2.0	93	98	1	363	56	8	7	27	1.57
30742676--30742734	28	2.1	28	96	0	109	28	20	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30742843--30742926	38	2.2	39	93	6	154	39	22	2	35	1.67
30743282--30743389	38	2.8	38	85	2	146	37	21	4	37	1.74
30748899--30748955	30	1.9	30	82	7	71	38	15	8	36	1.79
30761383--30761478	31	3.1	31	93	3	165	31	9	12	46	1.73
30767328--30767377	24	2.0	25	85	11	68	8	4	12	76	1.15
30769267--30769405	42	3.3	42	87	0	197	30	25	16	28	1.97
30771058--30771096	18	2.2	17	86	13	53	33	0	20	46	1.51
30771338--30771397	23	2.6	23	94	0	102	26	21	21	30	1.99
30773706--30773979	139	2.0	140	83	3	356	37	21	7	33	1.81
30774126--30774279	71	2.2	71	84	2	202	33	22	16	27	1.95
30786988--30787027	22	1.9	22	85	10	57	40	0	2	57	1.12
30789121--30789178	28	2.0	30	83	12	77	67	0	24	8	1.18
30797382--30797420	2	19.5	2	100	0	78	0	48	0	51	1.00
30799359--30799426	23	3.1	23	72	20	63	63	13	0	23	1.30
30799722--30799774	15	3.5	15	72	23	56	35	13	26	24	1.92
30799726--30799787	31	2.0	31	100	0	124	35	16	25	22	1.94
30807192--30807367	85	2.1	83	87	4	246	24	21	23	30	1.99
30807339--30808230	84	10.7	84	83	6	1100	23	19	23	33	1.97
30807323--30808227	40	21.7	41	72	14	367	23	20	22	33	1.97
30808308--30808775	50	9.4	50	68	5	273	26	21	21	30	1.98
30808260--30808821	50	11.3	50	67	1	228	27	21	21	29	1.99
30808250--30808821	100	5.7	100	86	0	786	26	21	21	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30808857--30809133	133	2.1	132	89	0	419	29	25	15	28	1.96
30808857--30809128	45	6.2	44	75	8	221	30	26	15	27	1.96
30809295--30809335	16	2.7	15	81	7	55	34	2	21	41	1.67
30810046--30810086	13	3.3	13	76	10	50	0	19	2	78	0.87
30810545--30810582	8	4.8	8	87	6	51	2	0	10	86	0.66
30810538--30810571	7	4.7	7	89	7	50	0	0	14	85	0.60
30817839--30817876	6	6.5	6	93	3	51	44	0	21	34	1.52
30824449--30824494	6	7.7	6	97	0	74	45	0	19	34	1.51
30828063--30828378	41	7.7	41	92	2	510	20	21	27	30	1.98
30828852--30828877	7	3.7	7	100	0	52	15	0	53	30	1.42

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