genome.fa.s15.2.7.7.80.10.50.1000.17.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: Gbar_D02
Parameters: 2 7 7 80 10 50 1000
Length:  67659327

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   215   216   

This is table  17  of  216  ( 25871 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)
5424751--5424789	20	1.9	21	89	5	62	43	20	2	33	1.65
5426461--5426518	28	2.1	28	90	0	89	48	15	0	36	1.45
5426469--5426528	28	2.1	28	81	0	66	50	16	0	33	1.46
5430079--5430250	43	4.0	43	87	0	247	25	29	22	23	1.99
5430276--5430510	43	5.5	43	92	1	355	19	23	29	27	1.98
5430276--5430510	86	2.7	86	93	1	391	19	23	29	27	1.98
5434445--5434676	16	15.2	15	65	28	91	40	1	12	45	1.51
5434448--5434595	40	3.4	40	72	24	138	41	0	12	45	1.46
5434478--5434625	41	3.4	41	76	15	170	41	2	11	45	1.52
5434488--5434646	51	3.3	51	69	18	160	39	2	11	45	1.54
5434446--5434686	91	2.6	91	93	1	412	40	1	12	45	1.51
5434519--5434678	50	3.4	49	72	15	174	40	1	12	45	1.53
5435290--5435325	15	2.5	15	90	4	56	63	8	16	11	1.49
5438190--5438421	73	3.2	73	91	3	367	34	17	18	30	1.94
5439514--5439607	41	2.3	41	79	3	118	22	24	23	29	1.99
5439578--5439827	41	6.2	41	85	5	332	31	24	25	18	1.97
5440544--5440608	32	2.0	32	100	0	130	47	21	9	21	1.78
5441033--5441113	41	2.0	41	92	0	135	25	11	23	39	1.88
5441112--5441150	20	2.0	20	84	0	51	53	2	2	41	1.28
5442686--5442748	22	3.2	20	72	18	60	41	0	0	58	0.98
5450537--5450606	28	2.7	26	76	14	74	31	1	2	64	1.17
5450869--5450903	17	2.2	17	90	10	56	11	5	25	57	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5456109--5456148	20	2.0	20	95	0	71	67	0	0	32	0.91
5456110--5456156	11	4.4	11	76	13	53	63	0	0	36	0.94
5458791--5458838	16	3.1	15	90	6	69	64	2	2	31	1.16
5458787--5458842	24	2.3	24	81	6	69	66	1	1	30	1.12
5458787--5458838	8	6.5	8	82	8	61	65	1	1	30	1.14
5458993--5459041	25	2.0	25	91	0	80	51	6	8	34	1.57
5459046--5459105	28	2.2	27	82	8	68	55	3	6	35	1.43
5459074--5459151	25	3.2	25	70	14	65	55	2	6	35	1.39
5458987--5459203	23	9.0	24	68	17	96	54	4	6	34	1.45
5459694--5459806	30	3.8	30	91	0	181	23	3	48	24	1.66
5460553--5460602	14	3.6	14	81	7	57	64	4	12	20	1.43
5460625--5460825	76	2.7	75	86	3	291	32	21	14	30	1.94
5460574--5461284	239	3.0	236	94	3	1203	34	21	16	27	1.95
5460732--5460915	89	2.1	88	86	6	264	38	19	16	25	1.93
5460821--5461044	74	3.0	74	88	1	317	33	22	16	27	1.95
5460821--5461044	73	3.0	72	86	4	313	33	22	16	27	1.95
5461060--5461372	73	4.2	73	82	4	360	33	21	16	27	1.95
5461060--5461372	148	2.1	148	87	1	446	33	21	16	27	1.95
5471101--5471148	16	3.1	15	90	6	69	64	2	2	31	1.16
5471097--5471152	24	2.3	24	81	6	69	66	1	1	30	1.12
5471097--5471148	8	6.5	8	82	8	61	65	1	1	30	1.14
5471353--5471420	30	2.3	29	84	2	82	58	4	4	32	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5471295--5471514	25	9.0	25	70	16	115	55	4	5	34	1.43
5472003--5472175	30	5.8	30	91	0	283	23	3	48	24	1.66
5472003--5472175	60	2.9	60	96	0	319	23	3	48	24	1.66
5477031--5477064	6	5.7	6	89	0	50	35	35	0	29	1.58
5478427--5478469	3	14.3	3	95	0	77	34	2	0	62	1.08
5479428--5479481	28	1.9	28	85	7	74	53	9	9	27	1.63
5500061--5500090	14	2.1	14	93	0	51	0	26	0	73	0.84
5511909--5512002	42	2.3	42	83	3	120	22	28	28	20	1.98
5512249--5512299	23	2.2	23	82	10	59	50	1	0	47	1.12
5513965--5514034	4	17.8	4	72	8	54	25	7	1	65	1.26
5520204--5520880	90	7.4	90	76	8	501	33	17	19	29	1.95
5520204--5520959	44	16.6	45	72	8	399	33	17	19	29	1.95
5520723--5520963	133	1.8	133	83	3	324	34	16	19	29	1.94
5522617--5522715	4	24.8	4	70	10	60	23	9	1	66	1.26
5522629--5522665	13	2.7	14	91	4	58	18	10	0	70	1.16
5522617--5522715	34	2.9	32	84	11	103	23	9	1	66	1.26
5522652--5522707	19	3.1	19	76	16	57	25	8	1	64	1.32
5524430--5524470	21	2.0	21	85	0	55	36	0	4	58	1.20
5524477--5524528	20	2.7	20	91	8	81	38	0	5	55	1.24
5524439--5524529	19	4.3	20	71	23	71	39	0	4	56	1.20
5536047--5536812	114	6.7	114	92	0	1255	34	19	21	24	1.96
5536710--5536849	75	1.9	75	89	5	221	33	19	21	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5537355--5537417	14	4.5	13	79	13	63	12	0	42	44	1.42
5537363--5537416	7	7.6	7	77	4	54	11	0	44	44	1.39
5539420--5539477	16	3.4	16	80	13	71	36	5	17	41	1.72
5539429--5539483	19	3.1	18	77	15	69	34	5	18	41	1.73
5539868--5539940	21	3.3	21	69	23	69	28	2	6	61	1.35
5540633--5541063	9	50.4	9	66	16	159	43	17	1	37	1.58
5540635--5540925	25	11.6	25	77	9	227	44	18	0	35	1.55
5540729--5541098	34	10.3	34	70	19	202	44	16	1	37	1.59
5540741--5541098	41	8.8	41	74	12	168	43	16	1	37	1.59
5540668--5540942	16	17.1	16	66	17	101	45	18	0	35	1.55
5540972--5541098	25	5.0	25	71	9	105	43	17	2	37	1.62
5540747--5541098	184	1.9	184	93	1	607	43	16	1	37	1.59
5542550--5542610	26	2.3	26	97	0	113	34	14	0	50	1.43
5549095--5549127	14	2.3	15	89	5	50	45	6	15	33	1.70
5549666--5549709	13	3.3	14	81	9	56	43	0	0	56	0.99
5549712--5549772	20	3.2	20	77	11	74	54	0	0	45	1.00
5549693--5549774	34	2.3	36	80	16	91	54	0	0	45	0.99
5553051--5553098	17	2.8	16	81	9	51	25	2	16	56	1.51
5555379--5555475	33	2.8	35	72	20	89	45	3	1	50	1.24
5567694--5567728	17	2.1	17	89	10	54	62	0	5	31	1.18
5571371--5571405	18	2.0	18	88	5	54	25	2	0	71	1.00
5575446--5575486	3	13.7	3	100	0	82	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5583630--5583674	18	2.5	18	81	0	54	28	37	13	20	1.90
5583865--5583924	21	2.9	21	82	0	75	36	20	5	38	1.74
5589131--5589172	21	2.0	22	90	4	68	59	0	4	35	1.19
5589331--5589450	5	22.4	5	69	21	66	53	1	17	27	1.53
5589331--5589429	11	9.0	11	71	18	57	54	2	16	27	1.53
5589331--5589461	28	4.8	28	72	16	123	52	1	17	28	1.54
5589405--5589450	24	1.9	24	90	0	74	52	0	21	26	1.47
5589490--5589541	19	2.6	21	81	9	63	59	0	11	28	1.32
5589452--5589542	40	2.2	41	78	14	100	60	2	8	28	1.38
5589535--5589580	16	2.9	16	81	12	58	56	0	23	19	1.42
5589536--5589580	11	4.3	11	84	15	60	57	0	24	17	1.40
5596352--5596398	21	2.2	21	80	0	58	23	17	2	57	1.50
5597628--5597661	17	2.0	17	94	0	59	44	0	0	55	0.99
5602361--5602398	3	12.7	3	100	0	76	31	0	0	68	0.90
5612819--5612897	31	2.5	31	83	4	97	39	13	18	27	1.89
5624574--5624615	19	2.3	19	88	8	61	30	9	0	59	1.29
5624575--5624624	18	2.8	18	82	14	59	38	10	0	52	1.35
5625071--5625146	31	2.4	30	77	16	75	61	1	2	34	1.18
5626316--5626340	5	5.0	5	100	0	50	20	0	0	80	0.72
5638582--5638675	30	3.1	30	87	4	127	28	20	6	44	1.76
5638599--5638677	15	5.2	16	71	17	69	29	16	6	48	1.71
5647773--5647850	15	5.2	15	67	11	61	44	7	21	25	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5647769--5647850	30	2.7	30	94	0	137	46	7	21	24	1.77
5652431--5652538	15	7.2	15	67	12	78	44	7	22	25	1.79
5652425--5652548	30	4.1	30	93	1	203	43	6	24	25	1.78
5655305--5655364	18	3.1	19	71	15	59	38	3	0	58	1.15
5655306--5655420	40	2.9	37	75	15	124	40	4	1	53	1.31
5656015--5656071	18	3.1	18	76	16	62	36	5	0	57	1.21
5654854--5656945	696	3.0	694	91	2	3287	28	14	24	32	1.95
5656709--5656768	20	3.0	20	71	15	54	40	3	0	56	1.16
5657409--5657630	108	2.0	111	91	6	360	36	10	14	37	1.81
5669475--5669548	29	2.5	29	82	4	85	25	14	13	45	1.82

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   215   216