genome.fa.s25.2.7.7.80.10.50.1000.198.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: D12
Parameters: 2 7 7 80 10 50 1000
Length:  63843421

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   

This is table  198  of  214  ( 25680 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)
57915577--57915644	26	2.7	26	93	2	93	67	0	0	32	0.91
57917277--57917305	13	2.2	13	100	0	58	34	0	0	65	0.93
57918117--57918168	16	3.1	17	83	8	63	71	3	0	25	1.03
57918133--57918173	7	5.4	7	88	8	55	70	2	0	26	0.99
57921169--57921199	16	1.9	16	93	0	53	38	0	6	54	1.26
57922240--57922287	20	2.4	20	85	0	60	60	10	0	29	1.30
57922945--57922970	11	2.4	11	100	0	52	23	0	0	76	0.78
57928668--57928729	29	2.1	30	82	8	74	38	4	9	46	1.58
57932090--57932207	25	4.8	24	75	12	105	15	27	22	33	1.94
57932067--57932207	50	2.9	49	81	5	133	17	26	21	34	1.95
57932090--57932232	49	2.9	49	82	4	144	17	27	22	32	1.96
57932150--57932245	25	3.9	25	80	14	92	20	28	21	29	1.98
57933807--57933952	24	5.8	23	68	16	69	34	20	27	17	1.95
57934013--57934089	24	3.2	24	70	14	59	35	19	28	16	1.94
57936986--57937225	35	6.7	35	70	12	132	32	24	21	21	1.98
57936988--57937225	74	3.3	74	76	5	252	32	24	21	21	1.98
57939518--57939550	5	6.8	5	86	6	50	39	0	3	57	1.14
57940506--57940607	22	4.3	25	78	10	83	17	24	19	38	1.93
57942610--57942698	42	2.1	42	91	0	142	25	26	29	17	1.98
57965313--57965362	24	2.1	24	84	0	64	36	10	0	54	1.34
57967084--57967137	19	2.8	19	83	8	65	24	11	24	40	1.87
57972673--57972712	21	1.9	21	85	10	55	40	5	5	50	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57973124--57973160	18	2.0	19	89	5	58	54	0	5	40	1.24
57978552--57978673	61	1.9	64	86	6	178	33	5	9	51	1.57
57981963--57981987	11	2.3	11	100	0	50	48	0	0	52	1.00
57991990--57992017	13	2.2	13	100	0	56	28	7	14	50	1.69
57992099--57992188	47	1.9	46	88	2	135	65	4	4	25	1.30
57996864--57996901	14	2.7	14	95	0	67	15	18	15	50	1.79
58001349--58001413	24	2.6	24	83	11	69	50	3	1	44	1.26
58002164--58002196	5	6.6	5	100	0	66	0	18	60	21	1.36
58002360--58002425	3	22.3	3	75	14	57	63	0	36	0	0.95
58002359--58002425	20	3.2	20	85	8	73	62	0	37	0	0.95
58002401--58002445	15	3.1	15	87	9	58	71	0	28	0	0.87
58002601--58002656	22	2.7	22	86	8	73	30	0	10	58	1.32
58002601--58002675	19	3.8	19	83	5	78	30	0	13	56	1.38
58002715--58002912	22	8.4	22	70	23	104	31	2	12	54	1.49
58002747--58002939	27	7.8	26	74	19	180	31	2	12	53	1.51
58002725--58002939	49	4.4	49	87	1	315	31	1	12	53	1.49
58002725--58002939	97	2.2	98	90	1	351	31	1	12	53	1.49
58003320--58003367	15	3.1	15	79	5	51	33	2	6	58	1.35
58008012--58008053	13	2.9	14	80	13	50	0	28	2	69	1.01
58010367--58010803	101	4.2	106	86	9	507	28	16	13	41	1.86
58011656--58011716	31	1.9	32	90	3	97	55	9	3	31	1.48
58012033--58012075	14	3.0	14	79	3	50	44	0	4	51	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58013617--58013681	30	2.2	30	91	0	103	60	13	1	24	1.43
58022335--58022379	20	2.4	18	86	13	65	24	4	4	66	1.29
58028902--58028943	14	3.1	14	83	13	52	30	7	2	59	1.37
58046152--58046195	15	3.1	15	75	18	58	54	4	25	15	1.60
58046147--58046189	12	3.3	12	76	17	50	55	2	23	18	1.54
58057341--58057398	17	3.3	17	77	18	57	27	0	0	72	0.85
58057340--58057397	19	3.2	18	80	11	66	25	0	0	74	0.82
58057340--58057397	18	3.2	18	80	7	73	25	0	0	74	0.82
58058164--58058203	20	2.0	20	100	0	80	45	20	5	30	1.72
58062949--58063088	40	3.5	40	76	6	142	27	19	24	29	1.98
58065393--58065437	25	1.9	24	82	13	58	44	4	4	46	1.43
58066164--58068015	927	2.0	927	99	0	3679	34	13	15	36	1.87
58070071--58070150	42	1.9	42	86	0	115	20	25	32	22	1.98
58071220--58071273	26	2.2	25	86	6	74	38	24	22	14	1.91
58072672--58072869	99	2.0	99	94	0	351	24	16	18	40	1.90
58074404--58074483	25	3.2	25	80	5	81	35	20	23	21	1.96
58077597--58077659	25	2.6	25	80	7	67	30	19	26	23	1.98
58080838--58080977	40	3.5	40	71	10	126	27	17	22	32	1.96
58083883--58083915	13	2.5	14	90	9	52	0	27	0	72	0.85
58089973--58089999	2	13.5	2	100	0	54	51	0	0	48	1.00
58091294--58091527	25	9.5	24	73	11	127	35	20	25	19	1.95
58091317--58091527	50	4.3	47	75	13	158	35	20	25	18	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58091369--58091524	24	6.4	24	73	14	124	36	21	25	16	1.94
58113965--58114016	24	2.2	24	82	6	61	15	25	36	23	1.93
58123917--58123963	23	1.9	25	83	12	62	65	0	23	10	1.23
58123914--58123963	26	1.9	26	84	8	66	66	0	24	10	1.22
58126008--58126093	43	2.0	43	100	0	172	39	2	13	44	1.57
58126809--58126842	17	2.0	17	88	0	50	26	0	8	64	1.22
58133383--58133414	16	2.0	16	93	0	55	43	3	0	53	1.16
58133458--58133514	18	3.1	18	82	12	71	40	1	5	52	1.34
58133685--58133712	13	2.2	13	100	0	56	57	7	7	28	1.52
58136589--58136678	39	2.2	41	88	3	130	54	5	2	37	1.36
58141757--58141797	21	2.0	21	90	0	64	29	21	29	19	1.98
58147758--58147793	19	1.9	19	88	5	56	52	0	0	47	1.00
58150631--58150672	14	3.1	14	86	3	50	47	2	2	47	1.28
58151358--58151424	34	1.9	35	87	3	100	31	8	14	44	1.76
58152042--58152075	10	3.3	10	87	4	50	44	0	0	55	0.99
58157914--58158065	33	4.5	33	69	22	109	34	26	18	20	1.96
58157868--58158099	102	2.3	102	90	3	360	32	26	18	21	1.97
58167028--58167203	44	3.9	43	70	15	117	44	2	3	49	1.31
58166963--58167169	90	2.3	91	90	1	317	45	2	3	47	1.36
58167074--58167141	27	2.5	26	83	11	75	41	0	4	54	1.20
58167086--58167132	18	2.4	19	79	13	51	42	0	4	53	1.20
58167185--58167477	120	2.4	120	89	3	439	42	3	5	48	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58167581--58167615	18	2.0	17	88	5	52	45	0	0	54	0.99
58167414--58167721	155	2.0	157	93	1	530	47	5	2	43	1.41
58167776--58167870	45	2.1	44	88	1	136	33	27	6	32	1.82
58167849--58167886	16	2.4	16	90	0	58	34	34	0	31	1.58
58183665--58183695	16	1.9	16	93	0	53	9	0	35	54	1.33
58183944--58184090	49	3.0	49	92	2	251	46	9	1	42	1.44
58186414--58186455	11	4.1	10	80	14	50	45	2	28	23	1.66
58192264--58192304	6	6.8	6	100	0	82	65	0	0	34	0.93
58192308--58192345	18	2.1	19	85	5	51	39	7	7	44	1.63
58193739--58193800	21	3.0	21	81	4	74	43	17	22	16	1.87
58203004--58203060	28	2.0	28	100	0	114	40	17	10	31	1.84
58206850--58206884	7	4.9	7	86	6	52	40	5	0	54	1.24
58206850--58206884	14	2.4	15	95	4	63	40	5	0	54	1.24
58207279--58207328	20	2.4	22	80	6	59	58	4	6	32	1.41
58211014--58211050	3	12.3	3	100	0	74	35	0	0	64	0.94
58225754--58225800	21	2.2	22	92	3	78	21	38	19	21	1.94
58233889--58233928	19	2.0	20	85	4	55	25	20	7	47	1.75
58236727--58236778	14	3.9	13	75	9	52	69	0	15	15	1.20
58238091--58238459	44	8.3	44	76	4	366	32	15	24	27	1.95
58238067--58238385	89	3.6	89	83	4	299	31	16	23	28	1.96
58238091--58238373	133	2.1	133	86	0	395	33	15	24	27	1.95
58238091--58238432	133	2.6	133	83	0	371	32	16	23	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58238133--58238520	88	4.4	86	77	9	293	30	17	23	28	1.97
58238065--58238590	221	2.4	222	82	3	533	31	17	23	27	1.97
58238555--58239166	132	4.6	131	87	4	838	29	19	23	27	1.98
58238551--58239166	265	2.3	264	84	5	848	29	19	23	27	1.98
58238912--58239165	44	5.8	44	69	9	151	29	18	25	26	1.98
58247735--58247774	21	1.9	21	84	0	53	37	32	2	27	1.70
58252773--58252839	18	3.7	18	74	23	61	44	1	5	47	1.36
58258786--58258824	20	2.0	20	85	10	53	56	5	0	38	1.22
58258808--58258862	18	3.2	18	73	14	53	50	1	0	47	1.11
58275615--58275671	29	1.9	30	89	3	89	17	43	1	36	1.60

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