genome.fa.s11.2.7.7.80.10.50.1000.13.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  13  of  210  ( 25152 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)
4825175--4825607	44	10.4	43	69	16	211	29	19	22	28	1.98
4825219--4825576	80	4.4	80	71	14	273	28	19	23	28	1.98
4825172--4825686	124	4.1	124	94	1	859	29	18	22	29	1.97
4826445--4826596	76	2.0	76	100	0	304	31	9	7	51	1.63
4827336--4827365	16	1.9	16	93	6	53	36	0	0	63	0.95
4827805--4827844	20	2.1	18	86	13	53	25	15	2	57	1.50
4827871--4828376	110	4.6	109	93	1	782	33	15	18	32	1.93
4827871--4828348	219	2.2	219	92	1	780	33	15	17	33	1.92
4831464--4831520	29	2.0	29	82	6	71	33	14	14	38	1.85
4838464--4838499	18	2.0	18	94	0	63	33	2	0	63	1.08
4838418--4838543	55	2.2	57	78	13	136	42	1	3	51	1.30
4848340--4848462	60	2.0	60	96	0	228	20	36	17	25	1.94
4855484--4855559	6	12.5	6	90	9	111	80	0	3	15	0.86
4872609--4872671	30	2.0	31	81	6	74	22	19	11	47	1.80
4881093--4881123	14	2.2	14	100	0	62	48	12	6	32	1.67
4883455--4883571	51	2.3	51	96	0	216	27	23	14	34	1.94
4885113--4885202	46	2.0	44	85	8	119	32	25	17	24	1.97
4885202--4885399	51	3.9	51	76	9	192	30	29	17	22	1.97
4889052--4889102	16	3.3	15	74	17	50	13	49	7	29	1.70
4895255--4895293	8	4.9	8	84	12	53	0	17	7	74	1.05
4895458--4895497	17	2.4	18	84	16	59	22	5	0	72	1.04
4895494--4895543	5	10.2	5	86	4	75	60	4	0	36	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4902442--4902592	78	1.9	78	95	0	275	34	22	17	25	1.96
4905553--4905619	35	1.9	35	100	0	134	53	5	11	28	1.61
4906983--4907020	2	19.0	2	100	0	76	50	0	0	50	1.00
4908267--4908325	20	3.0	20	76	13	61	38	5	0	55	1.22
4909953--4910056	6	17.2	6	89	8	122	40	0	0	59	0.97
4911066--4911164	46	2.1	48	84	3	130	26	12	16	45	1.82
4914827--4914882	18	3.1	18	78	0	58	7	42	21	28	1.79
4916501--4916540	16	2.6	15	92	7	71	57	5	0	37	1.21
4919911--4919936	2	13.0	2	100	0	52	50	0	0	50	1.00
4921290--4921429	44	3.3	41	76	10	122	31	25	16	27	1.96
4923250--4923450	43	4.7	43	89	0	294	27	15	24	32	1.96
4930127--4930152	10	2.6	10	100	0	52	30	0	19	50	1.48
4935930--4935961	16	2.0	17	88	11	50	53	0	3	43	1.16
4936057--4936146	44	2.0	46	82	8	114	36	3	3	56	1.32
4939760--4939836	19	3.7	21	78	13	59	40	16	5	37	1.71
4939796--4939849	19	2.8	19	97	0	99	37	16	9	37	1.81
4940180--4940674	132	3.8	132	93	2	834	28	24	18	28	1.98
4942356--4942380	11	2.3	11	100	0	50	0	0	8	92	0.40
4944612--4944657	24	1.9	24	90	0	74	13	23	17	45	1.83
4947553--4947625	19	3.8	19	87	0	110	36	13	8	41	1.75
4947530--4947625	38	2.4	39	84	6	122	39	13	7	39	1.72
4948488--4948546	31	2.0	30	83	6	75	47	15	5	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4948909--4948951	22	2.0	22	95	0	77	9	20	27	41	1.83
4949078--4949222	43	3.4	43	80	5	159	18	20	26	34	1.96
4949152--4949242	43	2.1	43	81	0	101	25	23	23	28	1.99
4949078--4949242	86	1.9	86	80	4	190	21	21	25	30	1.98
4949210--4949368	43	3.6	42	70	15	133	28	30	19	22	1.98
4949210--4949373	89	1.8	89	83	5	215	29	29	18	22	1.98
4959193--4959431	41	5.8	39	83	6	253	30	27	26	14	1.95
4959235--4959430	41	4.7	41	89	1	293	30	28	27	14	1.95
4959193--4959430	83	2.9	83	85	1	316	30	27	26	14	1.95
4964226--4964252	13	2.1	13	100	0	54	85	14	0	0	0.61
4964850--4964876	2	13.5	2	100	0	54	51	0	0	48	1.00
4965745--4965787	15	2.6	17	78	14	54	62	0	0	37	0.95
4975623--4975676	24	2.2	26	83	6	67	62	0	0	37	0.95
4976748--4976806	31	2.0	30	83	6	75	44	10	3	42	1.55
4981790--4981816	14	1.9	14	100	0	54	29	18	22	29	1.97
4988758--4989459	36	19.2	36	82	4	655	34	21	15	28	1.94
4988758--4989458	73	9.6	73	83	5	715	34	21	15	28	1.94
4988758--4989503	109	6.8	111	82	6	781	34	21	15	28	1.94
4994927--4994966	21	1.9	21	84	0	53	55	10	10	25	1.64
4995707--4995769	31	2.1	29	88	11	92	60	9	14	15	1.59
4996647--4996709	18	3.6	18	78	8	67	53	12	11	22	1.69
4996594--4996754	35	4.5	33	70	14	99	44	9	11	34	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4996797--4996855	16	3.5	17	76	19	61	45	8	13	32	1.74
4996797--4996855	18	3.5	17	80	15	61	45	8	13	32	1.74
4996820--4996853	15	2.2	16	89	5	52	47	11	14	26	1.79
4997397--4997434	18	2.3	18	86	13	55	5	34	39	21	1.76
4998074--4998325	30	8.4	30	77	9	228	37	1	24	36	1.67
4998065--4998325	119	2.2	120	97	1	488	37	2	24	34	1.70
5009492--5009536	18	2.8	16	81	15	56	28	0	15	55	1.41
5010574--5010843	42	6.4	42	89	3	350	29	20	24	25	1.99
5010574--5010843	85	3.2	82	86	6	337	29	20	24	25	1.99
5010597--5010843	127	2.0	127	87	7	360	29	21	24	24	1.99
5011277--5011344	21	3.2	21	85	0	82	2	41	19	36	1.66
5016818--5016940	9	15.0	9	70	19	81	35	1	17	44	1.59
5016823--5016940	16	7.8	16	70	19	101	35	0	17	45	1.55
5016837--5016892	25	2.2	25	93	0	94	37	0	16	46	1.47
5017931--5017994	17	3.7	17	87	4	92	43	0	12	43	1.42
5017913--5018009	39	2.8	35	87	12	130	44	0	12	43	1.42
5020964--5021505	114	4.8	114	90	0	834	25	27	22	24	2.00
5025767--5025813	24	2.0	23	84	12	60	65	8	6	19	1.41
5026640--5026924	84	3.3	84	73	12	290	29	24	19	27	1.99
5026640--5026924	44	6.6	44	71	10	180	29	24	19	27	1.99
5026616--5026929	173	1.8	172	92	0	529	28	22	20	27	1.99
5026379--5026843	89	5.3	89	69	10	253	27	24	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5027643--5027946	44	7.0	44	72	10	189	28	21	20	30	1.98
5027807--5028213	141	2.8	144	89	2	604	28	21	20	29	1.98
5044929--5044967	21	1.9	20	84	5	51	10	10	33	46	1.72
5046475--5046533	30	2.0	30	93	0	100	57	15	1	25	1.47
5047264--5047317	27	1.9	29	88	7	85	12	0	35	51	1.40
5047357--5047643	95	3.0	95	78	8	307	40	3	16	40	1.65
5047420--5047683	95	2.8	96	79	11	231	40	2	17	39	1.64
5047683--5048099	126	3.3	126	91	2	676	33	19	20	25	1.97
5051820--5051870	13	3.9	13	77	10	59	60	1	0	37	1.08
5053801--5053847	22	2.1	23	84	11	62	42	0	27	29	1.56
5054153--5054200	21	2.3	21	85	7	62	35	0	8	56	1.30
5054220--5054289	29	2.3	29	85	4	86	32	8	15	42	1.77
5054241--5054299	29	2.0	30	93	3	102	28	6	15	49	1.70
5054774--5054817	14	3.1	14	81	15	54	40	0	0	59	0.98
5056166--5056201	2	17.5	2	94	5	63	50	0	2	47	1.15
5056310--5056405	44	2.2	45	96	1	176	44	13	13	28	1.81
5059540--5059612	38	1.9	36	83	10	92	56	1	1	41	1.16
5060576--5060713	57	2.4	56	83	9	152	50	4	0	44	1.27
5063532--5063561	7	4.3	7	100	0	60	60	13	0	26	1.34
5063600--5063667	34	2.0	34	97	0	127	45	20	13	20	1.84
5065206--5065238	16	2.1	16	94	0	57	48	27	9	15	1.74
5066941--5066968	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5085524--5085551	6	4.7	6	100	0	56	0	0	14	85	0.59
5085673--5085709	2	18.5	2	100	0	74	51	0	48	0	1.00
5093338--5093404	34	2.0	34	96	0	125	47	5	22	23	1.73
5095098--5095245	57	2.5	59	82	11	178	24	26	19	29	1.98
5095431--5095751	113	2.8	113	89	2	466	32	18	22	27	1.97
5096015--5096081	23	2.9	23	91	4	100	17	0	40	41	1.50
5096063--5096114	21	2.5	21	78	6	61	21	1	34	42	1.64
5097608--5097775	71	2.5	65	86	11	257	26	5	18	50	1.68
5097634--5097785	71	2.1	71	96	2	279	26	5	18	49	1.70
5097921--5097950	14	2.1	14	93	0	51	26	16	6	50	1.70

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