genome.fa.s20.2.7.7.80.10.50.1000.128.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  128  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)
42390797--42390863	5	14.0	5	79	17	63	20	0	0	79	0.74
42390909--42390940	6	5.3	6	100	0	64	31	0	0	68	0.90
42393699--42393747	24	2.0	24	100	0	98	18	8	12	61	1.55
42398371--42398426	25	2.4	23	82	11	69	39	1	0	58	1.08
42403022--42403062	19	2.2	19	90	0	64	36	4	12	46	1.63
42403099--42403180	41	2.0	41	95	0	146	30	7	13	48	1.69
42411969--42411999	11	2.8	11	90	0	53	48	0	0	51	1.00
42422822--42422849	5	5.6	5	100	0	56	35	0	0	64	0.94
42423920--42423949	4	7.5	4	100	0	60	26	23	0	50	1.50
42427568--42427685	40	3.0	40	92	0	191	22	19	27	30	1.98
42431592--42431673	42	2.0	42	100	0	164	25	17	23	34	1.96
42435909--42436016	40	2.7	40	94	0	189	24	19	27	28	1.98
42436689--42436731	21	2.0	21	86	4	59	4	2	32	60	1.30
42436699--42436732	16	2.1	16	94	0	59	2	0	35	61	1.11
42439175--42439231	17	3.2	17	75	7	60	38	0	1	59	1.08
42442266--42442298	17	1.9	17	100	0	66	48	24	6	21	1.72
42442881--42442955	36	2.0	38	94	5	136	50	5	2	41	1.39
42444419--42444551	56	2.4	56	90	0	212	33	24	12	29	1.92
42447360--42447584	40	5.6	40	86	3	317	24	22	27	26	2.00
42447362--42447584	83	2.8	80	89	4	349	23	22	27	26	2.00
42450294--42450341	20	2.4	20	92	0	87	10	31	35	22	1.88
42456803--42457134	48	6.9	48	84	1	396	24	18	29	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42456804--42457137	144	2.3	144	87	0	479	25	18	29	26	1.98
42457778--42457829	21	2.5	21	100	0	104	48	13	3	34	1.61
42459021--42459151	44	3.0	42	86	8	167	35	25	16	22	1.95
42458990--42459144	43	3.6	43	82	9	174	32	24	18	24	1.97
42461987--42462198	68	3.1	67	74	12	186	22	28	15	33	1.94
42470633--42471102	94	5.0	94	95	0	841	30	10	19	39	1.86
42473052--42473146	27	3.5	27	82	5	95	29	29	14	26	1.95
42477651--42477752	51	2.0	51	98	0	195	28	23	22	25	1.99
42478090--42478158	34	2.0	34	97	0	129	14	33	17	34	1.90
42479662--42479756	27	3.5	27	82	5	95	29	29	14	26	1.95
42490063--42490212	46	3.2	46	78	7	169	26	18	31	23	1.97
42491158--42491385	46	4.9	47	78	9	191	27	17	30	24	1.97
42491166--42491385	94	2.3	94	81	9	245	27	18	30	23	1.98
42491160--42491434	140	2.0	141	81	3	331	26	18	31	23	1.97
42494627--42494794	47	3.6	46	75	11	137	25	30	17	27	1.97
42494624--42494794	94	1.8	94	84	2	236	24	30	17	27	1.97
42498074--42498109	18	2.0	18	100	0	72	38	16	16	27	1.90
42501457--42501485	15	2.0	15	93	6	51	10	13	20	55	1.68
42503252--42503671	210	2.0	210	100	0	840	33	15	22	28	1.94
42508591--42508657	32	2.1	32	100	0	134	11	14	46	26	1.80
42508795--42509223	27	15.9	27	80	5	296	39	19	11	29	1.87
42509468--42509630	41	4.0	41	94	0	263	23	20	30	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42509789--42509837	22	2.2	22	85	7	64	24	28	20	26	1.99
42511452--42511713	46	5.7	46	85	4	339	19	19	29	30	1.97
42514637--42514692	15	3.7	15	88	7	87	12	16	10	60	1.58
42518604--42518730	45	2.9	45	85	8	147	23	28	23	24	2.00
42519060--42519192	43	3.1	43	78	8	148	30	30	23	15	1.95
42519164--42519247	38	2.2	38	89	0	132	30	27	21	20	1.98
42531173--42531306	54	2.5	55	85	1	180	26	30	20	22	1.98
42532045--42532363	47	6.7	46	74	8	221	21	29	21	27	1.99
42534366--42534409	23	1.9	23	85	0	61	34	18	22	25	1.96
42544828--42544930	42	2.5	42	83	3	118	34	13	22	29	1.92
42544878--42544991	43	2.7	42	82	8	149	28	17	23	29	1.97
42554708--42554786	37	2.1	37	90	0	122	25	31	18	24	1.98
42554905--42555331	47	9.1	47	99	0	836	29	29	8	32	1.87
42566636--42566722	39	2.2	41	83	8	108	39	1	10	49	1.44
42566849--42566904	29	1.9	29	96	0	103	10	21	32	35	1.88
42566855--42566921	29	2.2	29	87	10	91	10	22	32	34	1.88
42570761--42570840	30	2.5	31	80	11	83	50	5	2	42	1.37
42571197--42571281	44	1.9	44	85	0	116	51	8	8	31	1.61
42572899--42572972	24	3.1	24	94	0	121	1	10	33	54	1.44
42572899--42572968	6	11.7	6	92	0	104	1	11	34	52	1.46
42574726--42574777	26	2.0	27	85	11	72	30	1	1	65	1.14
42574708--42574835	47	2.6	48	75	10	118	35	1	1	60	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42574804--42574901	38	2.6	37	75	12	92	35	2	3	59	1.25
42581395--42581426	11	2.8	11	95	4	55	28	3	6	62	1.34
42588718--42588812	45	2.1	44	86	1	127	34	5	26	33	1.79
42588974--42589008	18	2.0	17	88	5	52	54	0	0	45	0.99
42588932--42589004	27	2.7	27	76	8	76	52	2	0	45	1.15
42589121--42589155	18	2.0	17	88	5	52	54	0	0	45	0.99
42588893--42589167	147	1.9	149	95	1	500	46	3	2	47	1.35
42597880--42597911	16	1.9	17	93	6	57	56	0	3	40	1.15
42598319--42598365	23	2.0	23	91	0	76	46	14	19	19	1.84
42603508--42603565	29	2.0	29	96	0	107	56	13	3	25	1.53
42611108--42611161	19	2.8	19	75	13	56	35	0	7	57	1.27
42613289--42613315	7	3.9	7	100	0	54	40	0	0	59	0.98
42616756--42616907	27	5.7	26	76	4	115	17	18	25	38	1.92
42616756--42616907	54	2.8	54	85	0	187	17	18	25	38	1.92
42620651--42620682	3	10.7	3	100	0	64	0	34	31	34	1.58
42620749--42620791	21	2.0	21	95	0	77	27	0	37	34	1.57
42620772--42620804	16	2.1	16	94	0	57	33	0	36	30	1.58
42620783--42620877	45	2.1	44	88	1	136	34	5	27	32	1.79
42621039--42621073	18	2.0	17	88	5	52	54	0	0	45	0.99
42620997--42621069	27	2.7	27	76	8	76	52	2	0	45	1.15
42621183--42621217	18	2.0	17	88	5	52	54	0	0	45	0.99
42620958--42621229	144	1.9	147	94	3	487	46	3	2	47	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42625703--42625756	23	2.2	24	75	15	58	7	42	5	44	1.55
42637246--42637286	13	3.2	13	80	19	59	41	0	4	53	1.22
42641820--42641857	7	5.4	7	100	0	76	28	28	13	28	1.94
42645870--42645909	17	2.4	17	87	8	55	37	5	10	47	1.59
42646314--42646362	25	2.0	25	84	4	64	48	4	24	22	1.67
42648955--42649093	46	3.0	46	92	0	233	28	26	10	33	1.90
42650317--42650357	17	2.5	16	84	7	55	56	17	0	26	1.41
42651880--42651941	30	2.0	31	90	3	99	59	16	4	19	1.54
42651978--42652020	22	2.0	22	85	0	59	55	9	11	23	1.64
42652254--42652284	15	2.1	15	100	0	62	25	19	0	54	1.44
42654076--42654163	43	2.0	43	93	0	149	19	14	14	51	1.77
42660394--42660441	24	2.0	24	91	0	78	41	25	4	29	1.74
42669002--42669050	15	3.3	15	72	16	57	67	2	0	30	1.02
42669005--42669050	14	3.2	14	77	17	58	69	2	0	28	1.00
42669005--42669065	29	2.1	29	87	3	86	63	4	0	31	1.15
42670213--42670264	25	2.2	23	83	10	61	50	0	0	50	1.00
42670314--42670382	27	2.6	27	88	0	102	31	23	28	15	1.95
42670392--42670455	19	3.3	19	85	8	83	31	1	12	54	1.47
42670395--42670542	21	7.2	21	70	13	85	29	0	12	57	1.41
42670577--42670622	19	2.4	19	92	0	74	30	0	15	54	1.41
42670416--42670771	80	4.3	85	84	8	461	30	0	11	57	1.35
42670668--42670704	19	1.9	19	94	0	65	35	0	16	48	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42670451--42670771	168	1.9	169	92	1	545	30	0	11	57	1.35
42670767--42670835	19	3.4	19	85	14	102	30	0	15	53	1.43
42670745--42670821	27	3.0	27	85	11	117	29	0	15	54	1.42
42670432--42670792	88	4.3	85	82	10	454	31	0	11	57	1.35
42670828--42670949	60	2.0	60	88	3	183	31	0	13	54	1.45
42671064--42671100	16	2.4	16	90	4	58	32	2	5	59	1.34
42680317--42680364	18	2.7	18	83	3	53	37	2	0	60	1.09
42684729--42684767	6	6.5	6	81	0	51	0	23	0	76	0.78
42684729--42684767	18	2.2	18	95	0	69	0	23	0	76	0.78
42692737--42692791	28	2.0	28	88	0	83	36	14	23	25	1.93

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