genome.fa.s10.2.7.7.80.10.50.1000.112.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  112  of  202  ( 24201 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)
34494856--34494938	6	13.7	6	80	2	76	21	4	0	73	1.02
34498711--34498784	36	2.1	36	86	0	103	37	16	20	25	1.93
34501101--34501195	35	2.7	36	80	11	106	23	14	20	42	1.89
34501573--34501632	23	2.6	23	70	24	54	21	3	15	60	1.49
34502437--34502518	26	3.2	26	85	0	110	25	24	15	34	1.95
34506709--34506734	7	3.7	7	100	0	52	69	0	0	30	0.89
34507807--34507845	14	2.8	14	84	0	51	41	17	0	41	1.50
34509722--34509762	6	6.5	6	83	10	55	19	14	0	65	1.26
34509723--34509760	20	1.9	19	89	5	58	21	15	0	63	1.31
34528798--34528837	6	6.7	6	97	0	62	45	22	0	32	1.53
34528845--34528889	20	2.2	20	84	4	54	8	26	0	64	1.23
34529698--34529781	31	2.7	31	85	9	109	8	10	2	78	1.05
34529825--34529870	14	3.5	13	85	8	58	19	4	2	73	1.10
34529835--34529870	14	2.6	14	95	4	65	25	5	0	69	1.10
34540012--34540081	36	1.9	36	86	11	99	28	35	12	22	1.91
34544164--34544208	3	15.0	3	95	0	81	2	33	0	64	1.06
34550298--34550329	15	2.1	15	100	0	64	46	21	6	25	1.74
34551263--34551482	26	8.5	26	71	2	127	37	25	13	24	1.91
34551372--34551483	52	2.2	52	85	0	152	41	26	12	19	1.87
34552745--34552808	32	2.1	29	78	13	67	37	12	14	35	1.83
34552752--34552814	32	2.0	32	96	0	117	31	12	17	38	1.87
34553493--34553616	66	1.9	66	88	3	187	29	33	16	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34555059--34555105	24	1.9	25	83	12	62	38	19	10	31	1.86
34559136--34559206	25	2.7	27	80	8	76	30	22	28	18	1.97
34559288--34559375	25	3.5	25	77	13	83	39	20	21	18	1.92
34559338--34559384	24	1.9	25	86	4	69	44	17	21	17	1.86
34566945--34566998	27	2.0	27	82	7	65	31	27	25	14	1.95
34568645--34568703	25	2.4	26	83	11	79	38	20	25	15	1.91
34572093--34572338	43	5.7	43	87	0	321	19	16	23	40	1.91
34572087--34572334	129	1.9	129	87	0	361	19	16	23	40	1.91
34572093--34572375	86	3.3	82	79	9	289	20	16	22	40	1.91
34572093--34572375	129	2.2	126	80	5	332	20	16	22	40	1.91
34574439--34574477	20	2.0	20	84	0	51	48	0	17	33	1.48
34575186--34575233	19	2.5	19	90	6	71	52	0	25	22	1.48
34581199--34581395	59	3.1	59	64	24	148	37	10	10	41	1.75
34581133--34581395	131	2.0	131	98	0	508	36	9	12	41	1.76
34584976--34585031	20	2.8	20	83	0	67	23	28	10	37	1.88
34601490--34601541	18	2.8	18	75	16	52	65	5	19	9	1.42
34608623--34608665	17	2.6	16	85	10	59	81	2	6	9	0.95
34624313--34624346	16	2.1	17	88	5	52	35	20	5	38	1.77
34630999--34631088	35	2.5	35	83	1	117	21	23	24	31	1.98
34631035--34631204	76	2.2	75	81	6	189	21	18	25	33	1.97
34634059--34634094	18	2.0	18	94	0	63	36	5	50	8	1.56
34637155--34637276	23	5.3	23	91	0	199	22	21	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34637406--34637487	38	2.2	38	82	8	105	46	1	20	31	1.59
34637682--34637741	29	2.1	29	96	0	111	36	5	31	26	1.78
34638462--34638784	161	2.0	162	96	1	596	25	17	23	33	1.96
34639364--34639476	47	2.3	49	83	3	140	29	15	24	30	1.96
34639368--34639489	49	2.6	47	82	2	145	29	14	25	30	1.95
34642100--34642198	23	4.3	23	90	0	126	21	19	24	35	1.96
34643825--34644047	99	2.2	100	84	4	281	22	31	20	25	1.98
34643813--34644047	50	4.7	50	84	3	285	22	31	20	25	1.98
34644146--34644172	13	2.1	13	100	0	54	62	7	0	29	1.22
34649460--34649806	27	12.9	27	85	4	423	43	20	19	16	1.88
34650108--34650181	28	2.6	28	95	0	130	22	25	27	24	2.00
34654718--34654758	17	2.4	17	88	12	57	68	2	12	17	1.31
34654718--34654758	19	2.2	18	86	4	55	68	2	12	17	1.31
34656844--34656900	21	2.9	19	80	15	64	71	1	19	7	1.17
34656860--34656894	18	2.0	17	88	5	52	77	0	14	8	0.99
34665943--34665973	15	2.1	15	93	0	53	25	12	32	29	1.93
34666073--34666176	54	1.9	54	94	0	181	34	17	24	24	1.96
34668504--34668570	25	2.7	25	83	0	80	23	22	22	31	1.98
34668706--34668751	23	2.0	23	82	0	56	52	6	0	41	1.27
34670430--34670571	61	2.3	61	83	0	167	21	16	24	37	1.93
34670594--34670666	30	2.4	30	90	0	110	20	12	26	41	1.87
34670592--34670740	76	2.0	76	95	0	271	22	12	24	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34670680--34670813	30	4.5	30	82	4	146	20	14	24	39	1.91
34670727--34670808	29	2.8	28	83	8	101	19	15	25	39	1.91
34672017--34672057	20	2.0	22	85	9	59	26	19	4	48	1.69
34673098--34673129	6	5.3	6	96	0	55	0	65	0	34	0.93
34673096--34673131	11	3.2	11	88	7	54	0	58	0	41	0.98
34675779--34675829	24	2.2	24	77	22	56	33	0	5	60	1.21
34676543--34676605	20	3.2	20	68	4	65	34	3	9	52	1.50
34676538--34676615	39	2.0	39	100	0	156	35	5	7	51	1.53
34676788--34676832	23	2.0	23	95	0	81	28	26	20	24	1.99
34680852--34681063	54	4.0	54	77	5	227	34	14	25	25	1.94
34680843--34680994	51	2.9	52	86	3	216	34	14	23	27	1.94
34680852--34681047	105	1.9	105	85	0	275	34	15	23	27	1.94
34681312--34681363	24	2.1	25	92	3	88	57	32	3	5	1.40
34682351--34682380	11	2.6	12	94	5	53	36	0	3	60	1.14
34682331--34682380	23	2.2	23	82	7	57	38	0	2	60	1.09
34682483--34682561	28	2.8	26	72	14	68	36	10	3	49	1.55
34686578--34686624	21	2.2	21	88	3	67	78	6	4	10	1.06
34686593--34686692	50	2.0	52	82	7	125	73	6	12	9	1.25
34687594--34687632	7	5.7	7	93	6	71	69	0	15	15	1.20
34687594--34687629	13	2.7	13	95	4	63	72	0	13	13	1.13
34687594--34687632	20	2.0	20	100	0	78	69	0	15	15	1.20
34688877--34691125	129	16.9	129	91	3	3047	31	17	21	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34689738--34689939	41	4.8	41	70	12	115	29	17	22	30	1.97
34690436--34691124	44	14.8	44	67	18	242	32	16	21	29	1.95
34690295--34691140	142	6.0	142	95	0	1451	32	16	20	29	1.95
34690467--34691227	98	8.0	96	67	21	313	32	16	20	30	1.95
34690166--34691156	284	3.5	283	90	3	1517	32	17	20	29	1.95
34691150--34691350	85	2.3	88	80	10	202	30	18	20	29	1.97
34691232--34691351	44	2.7	44	82	5	136	30	19	21	29	1.97
34691194--34691469	128	2.2	128	80	6	294	32	21	19	26	1.97
34691823--34691873	24	2.1	25	92	3	86	54	35	3	5	1.43
34693012--34693043	16	2.0	16	93	0	55	46	9	0	43	1.35
34693025--34693103	28	2.8	26	72	14	68	36	10	3	49	1.55
34705264--34705342	31	2.6	30	80	5	79	45	0	12	41	1.42
34710451--34710573	50	2.5	50	93	0	201	37	10	24	27	1.88
34710450--34710531	27	3.2	27	61	25	68	36	10	25	26	1.89
34710901--34711039	69	2.0	69	98	0	269	42	18	12	26	1.86
34713166--34713199	18	1.9	18	88	5	52	61	14	0	23	1.33
34717058--34717115	19	3.4	19	68	26	65	24	8	1	65	1.30
34717050--34717115	32	2.1	32	100	0	132	21	9	3	66	1.33
34718495--34718572	22	3.5	22	89	0	102	30	26	15	26	1.96
34725773--34725863	42	2.2	42	97	0	173	27	27	24	20	1.99
34738082--34738132	26	1.9	27	92	4	86	31	17	17	33	1.94
34738859--34738891	17	1.9	17	100	0	66	42	6	12	39	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34738972--34739144	43	4.0	43	76	15	162	30	29	16	24	1.96
34738970--34739138	86	2.0	85	82	10	211	30	28	16	24	1.96
34742073--34742309	50	4.8	50	82	3	232	29	19	27	23	1.98
34742844--34742876	16	2.1	16	100	0	66	33	12	6	48	1.65
34755191--34755356	43	3.9	43	75	12	153	31	26	17	24	1.97
34757401--34757443	20	2.1	20	95	4	77	30	16	9	44	1.79
34757511--34757575	27	2.4	27	78	0	76	38	23	12	26	1.90
34761433--34761497	10	6.5	10	71	7	51	21	21	16	40	1.92
34761433--34761497	20	3.2	20	80	0	76	21	21	16	40	1.92
34761433--34761506	30	2.5	30	88	4	105	20	20	18	40	1.92

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