genome.fa.s20.2.7.7.80.10.50.1000.91.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: At_chr2
Parameters: 2 7 7 80 10 50 1000
Length:  61750188

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   

This is table  91  of  186  ( 22216 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)
29602106--29602231	46	2.7	45	78	14	134	30	18	27	23	1.97
29605743--29605791	19	2.5	20	80	10	55	55	8	10	26	1.61
29607370--29607416	24	2.0	24	86	0	67	17	23	10	48	1.77
29613520--29613560	21	2.0	21	90	0	64	21	17	17	43	1.87
29617947--29618025	24	3.2	24	74	13	72	21	29	15	34	1.94
29619406--29619558	43	3.6	43	82	3	164	25	13	25	35	1.93
29619406--29619539	44	3.1	43	82	6	137	23	14	26	35	1.93
29619406--29619555	44	3.5	43	79	7	124	25	13	25	36	1.92
29627025--29627189	43	3.9	42	78	9	156	23	16	27	32	1.96
29628892--29629009	58	2.0	58	100	0	236	25	16	19	38	1.93
29636059--29636126	27	2.6	25	75	8	64	20	25	22	32	1.98
29636123--29636198	24	3.2	24	84	0	80	19	27	17	35	1.94
29636134--29636200	24	2.8	24	86	0	89	17	31	19	31	1.95
29636182--29636247	27	2.6	24	73	17	62	22	25	21	30	1.99
29642067--29642097	16	1.9	16	93	0	53	19	16	6	58	1.59
29656074--29656170	39	2.5	39	93	0	158	39	25	21	13	1.90
29658354--29658395	15	2.8	15	85	0	57	50	14	19	16	1.79
29659605--29659752	72	2.1	72	94	0	260	39	14	6	39	1.72
29661713--29661814	18	5.4	19	74	15	68	39	24	21	14	1.91
29661727--29661814	38	2.3	39	88	2	124	40	25	20	13	1.89
29666985--29667142	4	39.5	4	100	0	316	24	0	25	50	1.50
29672201--29672255	28	1.9	29	85	3	76	12	21	43	21	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29673792--29673844	25	2.1	25	92	0	88	24	16	26	32	1.97
29683177--29683218	19	2.2	19	95	0	75	38	2	21	38	1.67
29683678--29683734	22	2.6	22	83	5	71	29	17	17	35	1.93
29691364--29691389	2	13.0	2	100	0	52	50	0	50	0	1.00
29691576--29691609	16	2.1	16	88	0	50	35	20	14	29	1.93
29700501--29700590	45	2.0	45	97	0	171	20	13	21	45	1.84
29702450--29702480	12	2.6	12	94	0	53	58	0	9	32	1.31
29711867--29711918	13	4.1	12	73	9	50	48	9	0	42	1.36
29713092--29713144	24	2.1	26	86	6	74	28	3	18	49	1.65
29714465--29714496	16	2.0	16	100	0	64	18	43	6	31	1.75
29729322--29729392	36	2.0	35	86	5	99	59	7	9	23	1.54
29736839--29736987	74	2.0	75	96	1	273	33	7	20	38	1.81
29737228--29737262	15	2.4	15	90	4	54	74	0	22	2	0.95
29738846--29738889	21	2.1	21	100	0	88	15	18	22	43	1.88
29744133--29744264	39	3.4	39	94	0	219	28	20	28	22	1.99
29744133--29744282	78	1.9	78	83	2	194	28	21	28	22	1.99
29747926--29747968	11	4.1	11	79	11	54	60	0	0	39	0.97
29747925--29747962	20	2.0	20	94	5	69	60	0	0	39	0.97
29755582--29755634	25	2.1	25	96	0	97	45	30	3	20	1.69
29769791--29769883	37	2.5	37	94	0	168	18	16	30	35	1.92
29777969--29777998	15	2.0	15	100	0	60	6	6	20	66	1.38
29778010--29778056	24	2.0	24	100	0	94	8	34	12	44	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29784938--29784988	25	2.0	25	92	0	84	39	5	17	37	1.74
29784941--29784988	12	3.9	12	75	5	51	39	4	18	37	1.70
29787558--29787637	38	2.1	38	95	0	142	53	0	13	32	1.40
29799437--29799479	18	2.4	18	88	7	61	34	13	23	27	1.93
29799446--29799481	18	2.0	18	100	0	72	33	16	22	27	1.95
29800125--29800206	35	2.3	35	91	2	128	41	31	10	15	1.82
29801501--29801557	29	2.0	29	83	10	73	24	40	15	19	1.90
29804323--29804354	12	2.7	12	95	0	55	46	3	0	50	1.17
29806505--29806574	16	4.4	17	90	3	76	38	2	25	32	1.71
29806504--29806574	32	2.2	32	82	5	90	38	4	25	32	1.75
29806521--29806575	16	3.4	16	94	0	83	40	3	23	32	1.72
29806560--29806649	44	2.0	46	86	4	130	32	5	25	36	1.79
29807236--29807271	18	2.0	18	100	0	72	38	16	11	33	1.84
29807278--29807355	40	2.0	40	92	0	129	33	17	6	42	1.75
29809240--29809298	15	3.8	16	73	20	54	61	0	1	37	1.07
29809592--29809709	26	4.7	23	67	28	71	60	0	5	34	1.19
29809589--29809701	7	17.1	7	68	28	63	58	0	5	36	1.21
29809589--29809702	20	5.8	19	77	14	108	58	0	5	35	1.20
29809561--29809702	20	7.4	18	72	23	96	58	0	5	35	1.27
29809589--29809694	18	5.8	18	72	15	76	58	0	5	35	1.22
29810093--29810201	20	5.6	19	76	17	100	57	0	6	34	1.30
29809583--29810555	507	1.9	507	98	0	1880	50	9	12	27	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29810144--29810202	7	8.7	7	73	26	56	57	1	3	37	1.25
29810144--29810217	27	2.8	27	76	13	73	60	1	2	35	1.19
29810314--29811180	434	2.0	434	99	0	1725	40	18	16	24	1.90
29818599--29818644	19	2.5	19	77	19	53	56	4	0	39	1.19
29820560--29820621	21	3.0	20	79	9	72	16	22	19	41	1.89
29835427--29835459	17	2.0	17	88	5	50	33	15	3	48	1.60
29841820--29841856	13	2.8	13	91	0	56	2	24	43	29	1.68
29841941--29841997	30	1.9	30	92	0	96	26	12	33	28	1.92
29847013--29847094	25	3.2	25	71	19	71	57	7	2	32	1.39
29847769--29847827	29	2.0	30	90	3	93	57	13	1	27	1.46
29848911--29849036	64	2.0	64	87	0	180	45	12	13	28	1.80
29850611--29850698	31	2.8	31	67	17	74	30	14	12	42	1.83
29850761--29850876	60	1.9	60	81	6	137	28	15	16	39	1.89
29864713--29864845	71	1.9	71	91	0	221	39	15	17	28	1.89
29865138--29865172	6	5.5	6	87	12	52	65	0	20	14	1.26
29865093--29865223	63	2.1	63	85	9	178	52	6	15	25	1.65
29865201--29865236	13	2.8	13	91	4	56	77	0	5	16	0.94
29868006--29868053	12	4.2	12	81	10	64	35	0	2	62	1.07
29868505--29868629	59	2.1	59	89	0	187	26	16	13	43	1.85
29871856--29871890	12	2.9	12	91	0	52	37	0	11	51	1.38
29871855--29871891	14	2.6	14	91	0	56	40	0	10	48	1.38
29876037--29876076	21	1.9	21	94	0	71	32	12	17	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29877941--29878114	59	3.1	59	63	27	158	12	14	13	59	1.62
29877826--29878156	110	3.0	110	100	0	662	14	13	14	57	1.66
29877904--29878070	51	3.1	51	65	26	137	16	13	14	56	1.68
29880875--29880965	44	2.1	44	87	4	130	49	10	10	28	1.72
29881969--29882156	102	1.8	103	80	5	229	36	10	17	36	1.84
29884506--29884580	37	2.1	37	97	2	143	42	16	12	29	1.83
29893698--29893747	25	2.0	25	92	0	82	56	8	20	16	1.65
29893689--29893748	25	2.7	21	76	18	66	51	8	21	18	1.72
29894281--29894310	10	3.0	10	90	0	51	76	0	13	10	1.01
29895287--29895392	38	2.8	37	78	7	115	35	16	19	27	1.94
29899839--29899893	26	2.1	26	93	0	92	25	32	9	32	1.87
29923304--29923360	20	3.0	20	78	17	59	57	0	15	26	1.38
29926061--29926173	40	2.8	40	82	0	136	38	20	22	18	1.93
29938633--29938672	20	2.0	21	85	14	57	17	50	20	12	1.78
29945926--29946016	45	2.0	45	100	0	182	28	13	26	31	1.93
29948421--29948479	20	3.0	20	94	0	100	37	11	20	30	1.89
29948529--29948674	25	6.0	24	87	5	179	27	19	21	30	1.98
29948533--29948674	72	1.9	74	83	8	184	26	20	22	30	1.98
29956395--29956462	33	2.0	34	94	2	120	58	4	5	30	1.41
29959160--29959205	21	2.2	21	92	0	74	21	13	26	39	1.90
29969582--29969614	10	3.3	10	95	0	57	3	21	48	27	1.64
29982184--29982210	14	1.9	14	100	0	54	29	3	22	44	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29982723--29982752	15	2.0	15	93	0	51	20	0	23	56	1.42
29984720--29984754	3	11.7	3	87	0	52	0	25	0	74	0.82
29988111--29988157	24	2.0	22	84	8	58	46	0	2	51	1.13
29988152--29988207	21	2.5	22	82	5	60	62	1	0	35	1.06
29988170--29988213	21	2.1	21	83	4	54	59	2	0	38	1.10
29990272--29990308	12	3.0	12	96	4	65	32	8	32	27	1.86
29999131--29999168	19	2.0	19	100	0	76	26	5	26	42	1.76
29999270--29999532	131	2.0	131	96	0	490	29	9	30	30	1.89
30004496--30004547	13	4.2	12	85	7	52	25	13	21	40	1.89
30004503--30004556	13	4.2	13	81	11	67	24	14	20	40	1.90

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