genome.fa.s17.2.7.7.80.10.50.1000.98.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: D04
Parameters: 2 7 7 80 10 50 1000
Length:  56598092

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   

This is table  98  of  185  ( 22116 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)
30838428--30838453	6	4.3	6	100	0	52	61	0	0	38	0.96
30859691--30859858	41	4.1	41	82	4	187	33	30	21	14	1.93
30869214--30869266	27	2.0	27	92	0	88	39	11	16	32	1.85
30877469--30877501	17	1.9	17	88	11	50	27	18	12	42	1.85
30880543--30880594	27	2.0	25	81	7	59	23	26	0	50	1.50
30880544--30880628	43	2.0	43	90	4	136	22	25	1	50	1.56
30883098--30883128	16	1.9	16	100	0	62	12	6	3	77	1.08
30891378--30891408	16	1.9	16	93	0	53	12	9	3	74	1.19
30895325--30896483	138	8.4	138	88	2	1688	40	8	5	44	1.60
30895325--30896483	275	4.2	276	87	2	1699	40	8	5	44	1.60
30905849--30905939	19	4.8	19	74	5	76	37	21	18	21	1.94
30906046--30906087	21	2.1	19	83	16	50	30	19	0	50	1.48
30907006--30907054	22	2.2	22	85	7	64	48	10	22	18	1.77
30908492--30908549	25	2.3	25	85	5	73	27	18	22	31	1.97
30908512--30908577	25	2.6	26	83	4	73	27	18	21	33	1.96
30918356--30918451	28	3.5	28	84	16	130	41	8	0	50	1.33
30918489--30918547	27	2.2	26	90	3	91	33	20	25	20	1.97
30918620--30918693	18	4.1	18	87	5	105	37	8	0	54	1.30
30918620--30918693	35	2.1	36	92	5	123	37	8	0	54	1.30
30918912--30918950	19	2.1	19	85	4	53	35	5	0	58	1.20
30919252--30919322	37	1.9	37	100	0	142	49	0	11	39	1.39
30919258--30919326	19	3.7	19	82	5	97	52	0	10	37	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30919398--30919483	27	3.2	26	83	4	93	19	25	23	31	1.98
30919524--30919594	27	2.6	28	86	6	101	53	0	5	40	1.24
30925384--30925419	3	12.0	3	100	0	72	33	0	0	66	0.92
30931873--30932097	109	2.1	109	99	0	441	35	7	19	37	1.80
30932339--30932464	27	4.7	27	85	2	164	33	16	23	26	1.96
30937057--30937093	5	7.4	5	93	0	56	78	5	0	16	0.93
30939543--30939581	5	7.6	5	82	5	51	41	17	0	41	1.50
30943102--30943196	3	31.7	3	91	0	154	0	32	0	67	0.91
30947914--30948106	101	1.9	101	92	0	323	33	20	25	20	1.97
30952253--30952353	53	1.9	53	91	0	166	36	14	19	28	1.92
30952476--30952640	60	2.7	61	84	2	215	30	12	26	31	1.92
30952595--30952675	32	2.5	32	86	4	101	27	8	29	34	1.87
30952535--30952707	92	1.9	94	81	4	217	32	9	26	31	1.89
30953597--30953723	63	2.0	63	100	0	254	32	18	31	17	1.94
30956256--30956341	26	3.2	26	72	4	82	39	8	23	29	1.83
30956261--30956366	54	2.0	54	86	1	151	36	10	24	28	1.88
30961130--30961259	49	2.6	49	79	6	138	23	24	22	30	1.99
30964690--30964867	27	6.6	27	83	3	205	26	15	28	29	1.96
30964691--30964846	82	1.9	81	88	3	233	26	15	28	29	1.96
30964687--30964867	82	2.2	81	83	2	229	27	15	27	29	1.96
30969887--30969975	13	6.7	13	76	10	81	44	1	19	34	1.58
30969887--30969975	40	2.2	40	93	0	151	44	1	19	34	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30971366--30971417	24	2.2	24	89	0	77	34	15	11	38	1.83
30971373--30971422	24	2.1	24	100	0	100	34	16	8	42	1.77
30977883--30978144	39	6.7	40	87	7	337	25	22	27	24	2.00
30987162--30987291	49	2.6	49	79	6	138	23	26	22	28	1.99
30987162--30987355	50	3.9	50	77	4	142	21	27	22	28	1.99
30990721--30990898	27	6.6	27	83	3	205	26	15	28	29	1.96
30990722--30990877	82	1.9	81	88	3	233	26	15	28	29	1.96
30990718--30990898	82	2.2	81	83	2	229	27	15	27	29	1.96
30997702--30997879	27	6.6	27	81	3	187	27	15	26	30	1.96
30997703--30997858	82	1.9	81	85	3	215	27	15	26	30	1.96
30997699--30997879	82	2.2	81	81	2	211	27	15	26	30	1.96
31002876--31002964	13	6.7	13	76	10	90	43	1	20	34	1.59
31002876--31002964	40	2.2	40	95	0	160	43	1	20	34	1.59
31002885--31002960	27	2.8	26	82	9	82	44	1	17	36	1.57
31004393--31004444	24	2.2	24	89	0	77	34	15	11	38	1.83
31004400--31004449	24	2.1	24	100	0	100	34	16	8	42	1.77
31010908--31011130	39	5.7	40	84	8	257	25	21	27	25	2.00
31010908--31011130	79	2.8	81	83	9	273	25	21	27	25	2.00
31010908--31011163	79	3.3	79	81	10	208	26	21	27	24	1.99
31027282--31027313	11	2.8	12	90	9	50	0	9	0	90	0.45
31027282--31027320	19	2.1	19	85	0	51	7	7	0	84	0.77
31028243--31028288	22	2.0	22	83	4	56	45	0	2	52	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31030610--31030655	24	2.0	24	87	12	69	8	13	0	78	0.97
31036554--31036605	23	2.3	22	78	21	63	9	21	3	65	1.38
31041665--31041743	10	7.9	10	78	12	65	34	3	1	60	1.23
31041667--31041761	29	3.3	28	79	13	95	31	4	1	63	1.21
31041697--31041754	20	2.8	20	82	10	55	34	1	0	63	1.04
31051980--31052157	27	6.6	27	84	3	205	29	28	15	26	1.96
31052001--31052156	82	1.9	81	88	3	233	29	28	15	26	1.96
31059665--31059842	27	6.6	27	84	3	205	29	28	15	26	1.96
31059686--31059841	82	1.9	81	88	3	233	29	28	15	26	1.96
31074483--31074638	58	2.7	58	82	7	183	40	20	16	23	1.91
31074483--31074641	29	5.5	28	79	10	137	39	20	15	23	1.91
31074623--31074691	26	2.7	26	81	0	84	36	23	21	18	1.95
31077943--31077999	27	2.1	27	90	3	89	15	14	19	50	1.77
31088931--31089068	42	3.1	42	76	18	161	32	18	16	32	1.93
31095424--31095459	18	2.0	18	94	0	63	22	19	22	36	1.95
31095462--31095539	37	2.1	37	92	4	131	28	11	17	42	1.84
31101116--31101190	31	2.5	30	77	12	84	37	0	1	61	1.05
31101323--31101361	16	2.4	17	87	12	64	28	0	2	69	1.02
31105154--31105269	10	12.4	9	65	17	58	62	2	3	31	1.25
31105612--31105667	17	3.2	17	80	14	62	32	3	0	64	1.11
31108802--31108904	27	3.8	27	85	1	143	21	17	20	40	1.91
31110349--31110402	25	2.2	25	83	6	65	22	40	9	27	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31115289--31115337	21	2.5	20	86	6	64	42	16	22	18	1.88
31115300--31115343	21	2.1	21	95	0	79	40	13	25	20	1.89
31115305--31115350	21	2.2	21	92	0	74	41	17	23	17	1.90
31117405--31117475	5	14.6	5	80	16	87	42	0	0	57	0.98
31117405--31117473	36	2.0	36	83	11	90	42	0	0	57	0.98
31117405--31117475	29	2.4	30	82	11	94	42	0	0	57	0.98
31118072--31118115	23	1.9	23	90	9	72	54	0	18	27	1.44
31118352--31118398	24	2.0	23	84	12	60	51	4	14	29	1.62
31119356--31119383	9	3.1	9	100	0	56	21	0	32	46	1.52
31124704--31124784	5	16.6	5	76	19	82	41	0	1	56	1.07
31124704--31124780	31	2.5	33	79	16	92	41	0	1	57	1.07
31124704--31124785	34	2.4	33	82	11	94	42	0	1	56	1.07
31125381--31125424	23	1.9	23	90	9	72	54	0	18	27	1.44
31125660--31125706	24	2.0	23	84	12	60	51	4	14	29	1.62
31126193--31126238	4	11.2	4	90	4	74	28	0	23	47	1.52
31131347--31131388	22	2.0	21	85	4	57	30	2	16	50	1.58
31131529--31131567	20	2.1	18	86	13	53	66	0	0	33	0.92
31134070--31135166	153	7.3	151	85	6	1446	51	7	9	31	1.62
31134061--31135151	444	2.4	452	88	5	1597	51	7	9	31	1.62
31135176--31135218	22	2.0	22	90	0	68	11	39	32	16	1.84
31136783--31136824	21	2.0	22	90	4	68	61	0	35	2	1.09
31140540--31140605	27	2.4	27	89	0	96	31	21	18	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31140886--31140954	33	2.2	31	89	10	104	30	21	24	23	1.99
31145673--31145700	8	3.5	8	100	0	56	75	0	0	25	0.81
31146695--31146753	26	2.3	26	84	0	91	28	25	15	30	1.96
31153072--31153098	13	2.1	13	100	0	54	48	7	22	22	1.75
31160537--31160562	13	2.0	13	100	0	52	76	7	0	15	0.99
31160602--31160643	18	2.3	18	95	0	75	73	7	4	14	1.21
31167407--31167463	20	2.8	20	84	7	62	45	15	14	24	1.83
31180593--31180640	20	2.4	20	85	0	60	22	25	16	35	1.95
31183319--31183376	18	3.2	18	85	0	71	65	3	18	12	1.39
31183340--31183420	30	2.7	29	75	11	83	60	1	25	12	1.39

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