genome.fa.s11.2.7.7.80.10.50.1000.194.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  194  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)
57046395--57046442	24	1.9	26	87	8	73	14	14	2	68	1.30
57046706--57046750	23	1.9	24	82	13	58	75	11	0	13	1.05
57051303--57051337	17	2.1	17	88	0	52	77	5	2	14	1.07
57051315--57051862	157	3.5	158	89	3	811	55	8	8	27	1.58
57051315--57051862	155	3.5	157	88	5	786	55	8	8	27	1.58
57058554--57058621	30	2.2	30	84	2	82	48	7	17	26	1.73
57068363--57068404	22	1.9	22	85	9	59	0	23	14	61	1.32
57072327--57072369	22	2.0	21	82	17	52	72	2	9	16	1.21
57077266--57077309	22	2.0	22	100	0	88	22	9	31	36	1.86
57087763--57087807	21	2.2	21	84	4	56	6	42	0	51	1.28
57093823--57093858	6	6.0	6	93	0	63	30	0	16	52	1.44
57101249--57101413	61	2.7	58	82	9	186	29	18	10	41	1.85
57107201--57107265	29	2.3	28	76	7	69	46	1	4	47	1.32
57109207--57109684	234	2.0	235	95	1	859	34	13	14	37	1.86
57112526--57112605	38	2.1	38	88	4	117	30	8	23	37	1.85
57119712--57119775	31	2.1	31	82	5	76	56	3	12	28	1.51
57124362--57124404	20	2.2	20	91	0	68	9	6	37	46	1.63
57125860--57125937	38	2.0	39	85	11	108	65	1	1	32	1.09
57130404--57130573	88	1.9	90	89	2	263	24	11	9	55	1.64
57135143--57135307	85	1.9	85	87	2	240	37	20	10	32	1.86
57135342--57135390	18	2.6	19	80	9	64	61	0	2	36	1.08
57135364--57135441	28	2.8	28	80	9	79	67	1	1	29	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57135364--57135423	27	2.2	29	85	8	81	65	1	1	31	1.13
57135381--57135461	9	8.8	9	73	14	58	66	1	2	29	1.12
57135596--57135738	10	14.4	10	66	22	61	31	3	2	62	1.23
57135662--57135732	30	2.4	30	83	6	74	30	1	0	67	0.99
57135680--57135734	20	2.8	19	91	8	92	25	1	0	72	0.94
57135687--57135751	20	3.3	19	78	4	58	30	1	1	66	1.10
57135819--57136039	90	2.4	90	83	5	284	33	9	20	35	1.86
57143722--57143752	13	2.4	13	94	0	53	29	0	3	67	1.06
57144799--57144953	30	5.2	29	77	10	138	34	21	2	41	1.67
57144799--57144950	29	5.1	30	75	10	125	34	22	2	40	1.68
57144797--57144953	59	2.6	59	83	5	174	34	21	2	41	1.67
57145280--57145330	3	16.3	3	92	8	84	62	0	37	0	0.95
57145522--57145558	19	1.9	19	100	0	74	54	21	24	0	1.45
57145643--57145691	13	3.8	13	84	12	66	73	0	26	0	0.83
57145647--57145681	15	2.3	15	90	0	52	77	0	22	0	0.78
57146016--57146040	11	2.3	11	100	0	50	68	8	0	24	1.16
57146057--57146097	21	1.9	22	85	5	57	43	12	9	34	1.75
57146252--57146730	18	26.9	18	72	11	301	31	11	9	47	1.71
57146238--57146559	88	3.6	88	93	0	536	33	13	8	45	1.73
57146239--57146688	88	5.1	87	85	6	516	32	12	9	46	1.72
57146593--57146668	38	2.0	39	87	7	111	38	7	11	42	1.71
57146682--57146738	19	3.1	19	89	2	62	38	7	10	43	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57154265--57154320	19	3.0	19	85	12	64	55	8	1	33	1.42
57161854--57161930	18	4.2	18	71	15	59	40	2	1	55	1.22
57164967--57165013	24	2.0	24	91	0	76	19	23	19	38	1.93
57166627--57166767	42	3.3	42	81	5	131	25	19	24	30	1.98
57170059--57170212	52	3.1	51	85	9	194	35	14	22	27	1.93
57170125--57170298	37	4.2	43	88	8	185	39	14	18	26	1.90
57170193--57170337	37	4.0	37	94	1	242	37	16	21	24	1.94
57170193--57170337	73	2.0	72	91	4	238	37	16	21	24	1.94
57179112--57179141	2	15.0	2	100	0	60	50	0	0	50	1.00
57189757--57189807	23	2.2	23	92	0	84	45	25	0	29	1.54
57201916--57201971	24	2.2	25	84	15	71	32	3	1	62	1.23
57201939--57201979	17	2.3	19	91	8	68	26	4	2	65	1.25
57203768--57203889	57	2.1	58	84	7	158	22	29	29	18	1.97
57208613--57208658	20	2.2	22	88	7	69	67	13	19	0	1.23
57211866--57212000	67	2.0	67	95	0	243	31	10	14	44	1.78
57217654--57217711	28	2.1	28	100	0	116	43	3	17	36	1.66
57219005--57219060	16	3.6	16	79	11	53	19	23	1	55	1.53
57223714--57224292	23	22.9	23	70	21	230	30	0	22	46	1.56
57223722--57224257	28	19.6	28	74	18	354	30	0	22	46	1.55
57223714--57224286	51	10.7	51	73	20	353	30	0	22	46	1.55
57224058--57224092	17	2.0	18	88	5	54	31	0	20	48	1.50
57224480--57224524	21	2.1	21	84	8	56	4	22	33	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57226560--57226615	28	2.0	29	92	3	96	60	1	0	37	1.07
57226657--57226698	22	1.9	22	90	0	66	33	0	33	33	1.58
57226648--57226750	52	2.0	51	83	9	129	34	0	32	33	1.58
57226700--57226791	22	4.2	23	82	8	111	42	0	27	30	1.56
57226700--57226791	44	2.1	44	85	4	123	42	0	27	30	1.56
57229625--57229663	20	2.0	19	85	14	53	51	0	10	38	1.36
57230474--57230549	37	2.1	37	85	5	100	63	0	3	32	1.13
57234551--57234602	17	2.9	17	80	11	52	65	5	1	26	1.26
57236509--57236535	14	1.9	14	100	0	54	55	7	14	22	1.64
57245119--57245196	39	2.0	39	94	0	138	17	29	26	25	1.98
57251721--57251790	19	3.4	21	71	21	58	35	1	2	60	1.21
57254482--57254513	14	2.3	14	94	0	55	37	21	15	25	1.93
57256213--57256264	26	2.0	26	100	0	104	42	11	26	19	1.85
57258796--57258825	2	15.0	2	100	0	60	50	0	0	50	1.00
57259954--57259984	14	2.2	14	94	0	53	19	3	9	67	1.33
57262936--57262981	15	3.1	15	75	25	53	26	4	2	67	1.21
57278991--57279072	39	2.1	39	86	4	112	52	4	7	35	1.51
57281398--57281448	25	2.0	27	81	14	63	70	3	0	25	1.04
57282157--57282195	19	2.1	19	100	0	78	58	20	5	15	1.55
57286993--57287023	10	3.1	10	90	0	53	77	3	0	19	0.90
57288024--57288088	30	2.2	28	78	7	76	56	4	18	20	1.58
57289559--57289980	46	9.8	45	71	14	241	26	22	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57289688--57290070	46	9.0	43	73	14	296	27	22	19	31	1.98
57289558--57290070	170	3.0	170	93	0	875	27	22	19	30	1.98
57301764--57301795	10	3.1	10	91	8	55	81	0	0	18	0.70
57301764--57301795	11	3.0	11	95	4	57	81	0	0	18	0.70
57302798--57302862	30	2.2	28	78	7	76	56	4	18	20	1.58
57304329--57304355	12	2.2	12	100	0	54	44	0	7	48	1.31
57304438--57304478	22	1.9	21	85	5	55	56	2	0	41	1.13
57304673--57304728	21	2.7	21	88	0	76	28	30	8	32	1.88
57305499--57305543	23	2.0	23	100	0	90	62	8	6	22	1.48
57306965--57306998	14	2.4	14	85	0	50	0	47	0	52	1.00
57320838--57320877	2	20.0	2	100	0	80	50	0	0	50	1.00
57322827--57322929	42	2.5	42	82	9	129	29	13	18	38	1.89
57322871--57322931	21	3.0	20	75	4	59	27	11	19	40	1.86
57333778--57333827	3	17.7	3	76	12	52	34	2	2	62	1.18
57334892--57334932	21	2.0	21	85	9	57	19	9	17	53	1.70
57337206--57337250	22	2.1	22	87	4	65	24	11	0	64	1.26
57337857--57337938	40	2.0	41	86	6	114	28	14	25	31	1.95
57340156--57340862	236	3.0	236	92	0	1180	33	15	18	31	1.93
57344954--57345030	31	2.5	31	91	2	120	16	14	16	51	1.76
57347437--57347475	18	2.2	18	100	0	78	33	41	0	25	1.56
57359396--57359496	51	2.0	51	94	3	177	15	13	23	46	1.82
57359782--57359809	1	28.0	1	100	0	56	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57370236--57370281	23	2.0	23	83	12	58	56	0	6	36	1.25
57370231--57370284	28	1.9	28	85	7	74	59	0	5	35	1.21
57370278--57370311	4	8.0	4	87	12	50	70	2	2	23	1.15
57370658--57370716	3	19.7	3	100	0	118	67	0	0	32	0.91
57373657--57373897	119	2.0	119	99	0	473	31	17	18	32	1.94
57387392--57387425	4	8.5	4	86	0	50	23	5	0	70	1.09
57387476--57387535	17	3.4	16	75	22	50	18	3	3	75	1.09
57387498--57387544	21	2.2	22	88	3	69	17	2	4	76	1.04
57389549--57389595	13	3.5	13	94	2	76	12	6	2	78	1.02
57389520--57389611	37	2.5	36	81	13	91	13	6	3	77	1.09

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