genome.fa.s11.2.7.7.80.10.50.1000.50.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  50  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)
15242289--15242323	16	2.1	17	89	10	54	62	2	0	34	1.10
15242474--15242520	23	2.0	23	100	0	94	59	0	4	36	1.17
15242703--15242752	22	2.2	23	82	13	59	68	4	8	20	1.32
15246267--15246302	18	2.0	19	89	10	58	77	2	0	19	0.88
15250418--15250454	13	2.7	14	83	8	58	70	2	0	27	1.01
15253425--15253484	23	2.5	24	83	10	77	36	20	20	23	1.95
15253423--15253516	26	3.8	25	75	13	77	32	20	23	23	1.97
15255649--15255692	18	2.5	18	81	3	54	54	15	4	25	1.60
15256459--15256512	18	3.0	18	83	0	72	44	25	3	25	1.71
15256706--15256738	17	2.1	16	88	11	50	51	6	3	39	1.42
15258242--15258308	32	2.1	31	83	8	82	40	5	0	53	1.25
15258534--15258595	31	2.0	31	90	0	97	41	14	4	38	1.67
15262530--15262575	24	1.9	24	86	0	65	58	0	0	41	0.98
15285927--15285965	18	2.2	18	100	0	78	38	15	10	35	1.81
15286840--15286880	20	2.0	21	90	4	66	31	2	0	65	1.05
15293676--15293715	20	2.0	20	90	0	62	50	12	10	27	1.72
15293664--15293730	34	1.9	35	87	3	100	46	11	8	32	1.72
15294324--15294353	9	3.3	9	100	0	60	46	20	0	33	1.51
15300573--15300600	14	2.0	14	100	0	56	0	28	21	50	1.49
15300643--15300674	11	2.9	11	90	0	55	0	25	25	50	1.50
15300683--15300739	25	2.4	23	85	5	78	1	24	19	54	1.54
15301598--15301768	72	2.4	72	87	6	251	26	5	12	55	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15304785--15304811	3	9.0	3	100	0	54	66	0	0	33	0.92
15309715--15309769	19	2.9	19	87	12	71	58	5	0	36	1.21
15315798--15315872	38	2.0	38	97	0	141	42	18	18	20	1.89
15318462--15318494	17	1.9	17	88	11	50	36	30	15	18	1.91
15319598--15319644	25	2.0	24	87	8	69	55	8	14	21	1.66
15319945--15320481	266	2.0	266	88	2	794	41	7	8	42	1.63
15320405--15320456	24	2.2	24	85	0	68	34	1	5	57	1.33
15331849--15331926	36	2.2	36	86	6	108	53	8	8	28	1.62
15336493--15336544	24	2.2	24	89	0	77	50	9	3	36	1.54
15340896--15340947	24	2.2	24	89	0	77	50	9	3	36	1.54
15342216--15342287	31	2.4	30	79	4	81	43	11	12	33	1.78
15342265--15342329	31	2.3	27	77	15	67	41	13	7	36	1.74
15342403--15342446	19	2.4	19	88	3	63	68	0	0	31	0.90
15348480--15348511	5	6.4	5	96	0	55	21	0	43	34	1.53
15357167--15357479	155	2.0	156	93	0	538	33	9	15	41	1.80
15369231--15369284	22	2.5	22	72	6	56	42	20	0	37	1.52
15371006--15371045	20	2.0	20	100	0	80	45	10	10	35	1.71
15375486--15375769	50	5.7	50	83	1	302	22	29	20	26	1.99
15376107--15376164	30	1.9	30	82	6	73	32	25	6	34	1.83
15377601--15377652	23	2.2	24	86	6	72	57	17	0	25	1.40
15382681--15382711	6	5.2	6	100	0	62	80	0	0	19	0.71
15383405--15383453	17	3.0	17	77	16	50	18	0	6	75	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15383416--15383458	17	2.4	19	84	7	63	18	0	6	74	1.04
15383488--15383686	97	2.0	100	89	4	307	46	3	2	47	1.33
15388726--15388784	26	2.2	28	76	17	70	47	30	0	22	1.51
15389933--15389980	24	2.1	21	88	11	69	43	2	0	54	1.12
15389933--15389971	12	3.4	11	80	13	51	46	2	0	51	1.14
15397789--15397952	45	3.7	45	73	11	131	35	25	12	26	1.92
15397826--15397992	90	1.9	90	82	5	212	35	21	14	28	1.93
15398391--15398667	50	5.6	50	87	3	350	19	32	21	27	1.97
15398394--15398669	147	1.9	145	85	5	356	19	32	21	26	1.97
15403777--15403807	9	3.4	9	90	0	53	25	12	22	38	1.90
15403859--15403895	9	4.1	9	92	0	65	45	13	10	29	1.77
15406068--15406107	21	1.9	21	89	0	62	50	7	10	32	1.64
15408951--15408981	16	2.0	15	93	6	53	58	0	0	41	0.98
15409831--15409871	20	2.0	20	90	0	64	29	0	7	63	1.21
15410259--15410298	19	2.1	19	85	0	53	62	12	0	25	1.30
15422751--15422824	31	2.3	32	84	6	89	51	1	14	32	1.51
15423081--15423150	9	7.6	9	71	6	59	25	4	2	67	1.23
15423795--15423840	21	2.2	21	84	7	58	43	4	4	47	1.42
15423829--15423925	33	2.8	35	74	20	98	44	2	1	52	1.19
15424240--15424277	7	5.7	7	87	6	53	0	26	0	73	0.83
15424335--15424391	23	2.6	22	83	5	71	63	5	1	29	1.27
15424814--15424849	2	18.0	2	100	0	72	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)
15429167--15429267	25	4.1	25	69	12	75	19	26	22	30	1.98
15430211--15430308	48	2.0	48	100	0	196	36	4	34	24	1.75
15431942--15431989	22	2.2	21	85	3	60	50	12	18	18	1.78
15436742--15437015	146	1.9	148	81	4	340	29	22	17	29	1.97
15442340--15442427	44	2.0	44	95	0	158	19	28	21	30	1.97
15446472--15446765	43	6.8	43	90	1	430	24	28	22	25	1.99
15447168--15447207	21	1.9	21	94	0	71	2	45	17	35	1.62
15447086--15447284	87	2.3	86	83	5	231	11	29	18	40	1.86
15447173--15447215	21	2.0	21	90	0	68	2	41	20	34	1.65
15447898--15447962	28	2.3	28	91	0	94	27	41	15	15	1.87
15450837--15450876	20	2.0	20	90	0	62	50	10	10	30	1.69
15452356--15452386	16	1.9	16	93	0	53	32	6	25	35	1.82
15453914--15453958	23	2.0	23	82	8	56	40	31	6	22	1.80
15452658--15454600	794	2.4	793	87	7	2755	38	17	10	34	1.83
15454846--15455008	41	4.0	41	78	4	116	30	24	23	21	1.99
15454986--15455082	40	2.4	41	84	1	115	41	22	20	15	1.90
15455208--15455358	41	3.8	37	76	14	131	17	21	23	37	1.94
15455208--15455358	81	1.9	81	83	5	198	17	21	23	37	1.94
15455210--15455358	40	3.7	39	78	10	156	18	21	24	36	1.95
15455641--15455869	20	11.4	20	71	14	134	55	1	4	38	1.28
15455723--15455856	10	13.1	10	69	14	69	55	1	3	38	1.27
15455702--15455869	21	8.1	21	74	13	116	54	1	4	39	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15461864--15461912	25	2.0	25	100	0	98	32	14	16	36	1.89
15476703--15476794	34	2.7	34	81	3	96	43	17	13	26	1.85
15477077--15477149	26	2.8	26	79	10	85	54	4	16	24	1.59
15477077--15477214	28	5.0	28	77	6	129	53	5	17	23	1.63
15482798--15483163	67	5.5	66	77	8	314	23	22	15	37	1.93
15488302--15488547	50	4.8	50	84	3	267	26	20	30	23	1.98
15495833--15495948	24	4.9	23	80	5	124	44	4	29	21	1.71
15495833--15495942	23	4.7	23	83	4	130	43	3	30	21	1.70
15497006--15497044	12	3.2	12	92	0	60	23	10	48	17	1.78
15497006--15497052	24	2.0	24	82	0	58	25	12	46	14	1.80
15499293--15499342	24	2.1	24	92	0	82	22	30	14	34	1.93
15499302--15499373	24	3.0	24	82	12	76	18	26	19	36	1.94
15507534--15507599	35	1.9	35	84	6	91	46	6	22	24	1.74
15509774--15509858	40	2.1	40	95	0	152	47	8	3	41	1.51
15510133--15510166	12	2.6	13	90	9	52	20	8	0	70	1.13
15512349--15512457	55	1.9	58	83	9	145	31	20	6	42	1.77
15512350--15512468	58	2.1	55	81	7	132	31	19	5	42	1.75
15514956--15515000	21	2.1	21	84	8	56	64	2	0	33	1.06
15518207--15518239	16	2.1	16	100	0	66	69	6	6	18	1.30
15518582--15518646	32	2.1	32	97	2	123	49	10	9	30	1.69
15524216--15524263	9	5.6	9	80	9	55	0	10	10	79	0.95
15524216--15524274	17	3.4	17	83	2	64	0	10	11	77	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15524217--15524272	9	6.8	8	76	12	51	0	10	12	76	1.01
15524814--15524878	32	2.1	32	97	2	123	47	12	9	30	1.72
15525251--15525315	18	4.1	16	69	15	62	35	7	4	52	1.51
15525939--15531101	948	5.5	946	80	0	6158	27	15	14	36	1.86
15534176--15538679	945	4.8	946	84	0	6198	27	15	14	38	1.87
15548719--15550822	937	2.2	943	95	1	3814	28	16	14	39	1.88
15555268--15555345	39	2.0	39	97	0	147	24	12	24	38	1.90
15556277--15556332	21	2.7	21	91	0	94	25	8	37	28	1.86
15556438--15556475	19	2.1	19	90	5	60	42	0	0	57	0.98
15564460--15564490	7	4.4	7	91	0	53	83	3	12	0	0.75

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