genome.fa.s17.2.7.7.80.10.50.1000.91.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  91  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)
28542633--28543228	287	2.1	286	90	0	933	29	21	22	26	1.99
28542633--28543228	144	4.2	144	92	0	937	29	21	22	26	1.99
28543107--28543340	120	2.0	120	88	1	353	28	22	22	27	1.99
28544820--28544876	3	19.0	3	81	0	69	33	5	1	59	1.30
28546508--28546564	28	2.0	28	100	0	114	36	10	14	38	1.80
28552727--28552940	68	3.2	68	87	2	290	31	16	25	26	1.97
28554075--28554160	40	2.2	40	80	0	100	38	20	13	26	1.91
28554211--28554396	40	4.7	40	83	0	228	26	20	25	27	1.99
28554024--28554318	155	1.9	155	83	2	387	28	20	21	30	1.98
28554616--28554759	7	20.3	7	73	11	78	22	2	28	46	1.66
28554616--28554818	14	14.2	14	72	8	113	23	2	32	42	1.67
28554712--28554811	29	3.5	28	76	2	101	23	2	36	39	1.66
28554792--28554819	7	4.0	7	100	0	56	14	0	42	42	1.45
28555478--28555531	23	2.3	24	87	3	74	55	9	12	22	1.65
28560482--28560740	43	6.0	43	78	2	225	25	15	23	34	1.95
28560493--28560746	86	3.0	86	77	4	253	24	15	24	35	1.94
28560484--28560744	129	2.0	129	82	1	317	24	15	24	35	1.94
28565895--28566130	50	4.7	50	86	2	296	26	22	29	21	1.99
28568937--28569127	101	1.9	99	84	2	256	31	17	25	25	1.97
28573058--28573094	18	2.1	18	94	0	65	18	27	5	48	1.70
28579329--28582390	934	3.3	935	91	0	4906	32	16	19	31	1.94
28587610--28587708	24	4.2	24	78	2	101	21	15	21	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28588651--28588960	153	2.0	153	93	0	530	25	9	13	51	1.70
28595212--28595241	12	2.4	13	94	5	53	20	6	6	66	1.38
28608824--28608867	21	2.1	19	84	16	52	45	13	0	40	1.44
28612654--28612691	6	6.5	6	96	3	69	0	15	0	84	0.63
28617891--28618048	26	6.1	26	87	0	217	36	21	17	24	1.95
28617912--28618066	52	3.0	52	87	0	211	34	21	19	24	1.96
28617891--28618048	78	2.0	78	91	4	257	36	21	17	24	1.95
28618272--28618321	26	1.9	26	91	0	82	22	22	22	34	1.97
28619622--28619669	15	3.3	14	85	5	60	75	0	20	4	0.97
28619616--28619671	21	2.7	21	86	2	69	71	0	23	5	1.06
28621753--28621800	20	2.4	20	85	0	60	27	25	8	39	1.84
28625548--28625604	15	3.9	15	80	19	75	75	3	0	21	0.95
28625546--28625604	20	2.8	20	76	20	57	76	3	0	20	0.93
28625548--28625603	29	2.0	28	89	10	87	75	3	0	21	0.96
28626100--28626130	9	3.4	9	90	0	53	25	12	22	38	1.90
28626423--28626482	30	2.0	31	86	3	86	20	40	0	40	1.52
28649711--28649764	23	2.4	23	82	11	60	40	9	9	40	1.69
28656879--28656945	33	2.0	33	100	0	134	47	14	14	22	1.81
28660758--28660798	19	2.1	19	86	4	55	36	0	4	58	1.20
28660880--28660968	40	2.2	40	85	0	115	37	14	12	35	1.84
28670338--28670366	7	4.1	7	100	0	58	13	27	0	58	1.36
28671365--28671425	29	2.1	28	81	3	68	26	14	16	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28671625--28671973	124	2.8	124	94	0	601	30	16	21	32	1.95
28674559--28674637	40	2.0	40	94	0	140	18	22	18	39	1.93
28674661--28674724	25	2.5	26	84	2	94	39	12	1	46	1.51
28675811--28675835	7	3.6	7	100	0	50	60	12	0	28	1.32
28676917--28676982	10	6.5	10	75	3	60	65	0	0	34	0.93
28676917--28676981	31	2.1	31	100	0	130	66	0	0	33	0.92
28676917--28676968	21	2.5	20	75	6	59	69	0	0	30	0.89
28676983--28677095	51	2.2	51	93	0	190	43	0	28	28	1.55
28677070--28677112	22	2.0	22	95	0	77	46	0	25	27	1.53
28678777--28678864	27	3.3	27	84	6	115	15	32	21	29	1.95
28678900--28678965	28	2.4	28	89	0	96	48	1	13	36	1.52
28679706--28679745	19	2.1	19	100	0	80	60	5	15	20	1.53
28679946--28679989	22	2.0	22	100	0	88	50	18	9	22	1.75
28682714--28682758	14	3.1	15	81	15	58	62	0	2	35	1.08
28688655--28688686	9	3.4	9	91	8	55	65	0	0	34	0.93
28688657--28688685	10	3.0	10	95	5	51	62	0	0	37	0.96
28689057--28689203	17	8.9	17	63	22	55	42	2	4	51	1.32
28707716--28707751	11	3.2	11	92	4	54	38	16	13	30	1.88
28708603--28708627	13	1.9	13	100	0	50	32	0	20	48	1.50
28710318--28710392	13	5.9	13	68	27	54	42	0	4	53	1.19
28711224--28711255	13	2.5	13	94	0	55	31	0	12	56	1.37
28711350--28711591	50	4.7	50	86	4	297	26	24	29	19	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28711350--28711599	100	2.4	103	88	6	364	26	24	29	20	1.99
28715275--28715488	45	4.8	45	85	0	239	32	18	18	30	1.95
28715275--28715488	90	2.4	90	83	0	266	32	18	18	30	1.95
28719024--28719194	88	2.0	87	90	3	272	28	15	14	42	1.85
28719571--28719622	22	2.3	22	75	21	54	57	0	7	34	1.27
28721369--28721424	18	3.1	18	81	0	76	28	8	21	41	1.83
28724291--28724374	17	4.9	17	78	5	89	25	8	20	46	1.78
28724286--28724382	34	2.9	34	75	6	88	27	8	19	44	1.79
28726594--28726692	35	2.8	35	84	0	117	39	30	15	15	1.88
28729901--28729958	30	2.0	29	86	10	82	65	1	3	29	1.19
28729922--28729966	23	2.0	23	82	8	56	64	4	2	28	1.25
28739997--28740146	52	2.7	57	82	12	161	42	0	4	52	1.25
28740069--28740157	26	3.4	25	74	7	88	44	1	3	50	1.25
28742104--28742144	18	2.2	19	86	4	57	53	4	4	36	1.44
28742209--28742238	15	2.0	15	93	0	51	36	33	3	26	1.73
28742441--28742585	69	2.1	70	87	3	204	34	14	15	35	1.88
28744799--28744827	10	2.7	11	94	5	51	79	0	20	0	0.74
28744796--28744827	16	2.0	16	93	0	55	78	0	21	0	0.76
28751206--28751345	70	2.0	70	98	0	271	45	20	11	23	1.83
28756262--28756296	2	17.5	2	93	0	61	48	0	51	0	1.00
28758846--28759079	130	1.8	130	97	0	441	33	11	15	38	1.84
28760130--28760188	25	2.4	25	97	0	109	28	10	18	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28760391--28760453	32	2.0	32	100	0	126	41	12	9	36	1.76
28760570--28760746	66	2.7	64	90	3	275	50	7	10	31	1.66
28762497--28762600	49	2.1	49	87	3	147	30	8	11	49	1.69
28764261--28764371	44	2.6	41	74	16	109	35	28	5	30	1.80
28764274--28764366	44	2.1	46	87	4	136	35	27	5	31	1.80
28767031--28767124	49	1.9	49	93	0	161	26	25	6	41	1.79
28768377--28768419	18	2.3	19	92	4	70	20	25	0	53	1.46
28775418--28775447	11	2.7	11	100	0	60	30	56	13	0	1.37
28780322--28780367	18	2.5	19	86	6	60	80	4	6	8	1.01
28783184--28783233	24	2.1	24	92	0	82	38	2	20	40	1.64
28786405--28786440	17	2.1	18	89	5	56	55	25	0	19	1.43
28789704--28789763	18	3.3	18	76	19	54	26	3	0	70	1.03
28799936--28799965	15	1.9	16	93	6	53	73	0	6	20	1.05
28800316--28800361	20	2.3	20	85	7	58	23	15	19	41	1.89
28802617--28802667	20	2.5	21	84	9	70	27	29	15	27	1.96
28803100--28803147	21	2.3	21	82	7	53	33	4	16	45	1.67
28806860--28806907	20	2.4	20	92	0	78	25	33	16	25	1.96
28806859--28806909	10	5.1	10	77	15	52	25	31	15	27	1.96
28807599--28807646	21	2.3	21	82	7	53	33	4	16	45	1.67
28810479--28810551	23	3.2	23	82	0	83	19	16	27	36	1.93
28817586--28817695	23	4.7	23	82	3	105	40	17	13	29	1.88
28817982--28818026	22	2.0	22	82	0	54	57	20	6	15	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28819914--28819959	11	4.2	11	89	10	76	69	8	2	19	1.25
28819918--28819956	10	3.7	10	80	12	51	76	7	2	12	1.09
28819917--28819958	22	1.9	22	100	0	84	76	7	2	14	1.10
28826064--28826142	24	3.3	24	94	1	133	48	11	16	24	1.79
28826063--28826128	12	5.5	12	75	0	69	50	10	15	24	1.75
28827834--28827859	2	13.0	2	100	0	52	0	0	50	50	1.00
28833761--28833816	24	2.2	25	78	15	62	66	3	1	28	1.19
28833788--28833836	21	2.3	22	75	10	57	63	2	2	32	1.17
28838594--28838733	70	2.0	70	100	0	280	30	11	11	47	1.75
28842397--28842429	17	1.9	17	93	0	57	60	12	9	18	1.57

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