genome.fa.s7.2.7.7.80.10.50.1000.113.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  113  of  204  ( 24458 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)
34494241--34494398	85	1.9	85	83	0	208	31	23	19	25	1.98
34501232--34501276	22	2.0	22	91	8	74	24	0	22	53	1.46
34502158--34502208	16	3.5	15	82	10	61	43	13	13	29	1.83
34506547--34506577	12	2.6	12	94	0	53	25	35	25	12	1.92
34508805--34508837	14	2.3	15	89	5	50	36	0	21	42	1.53
34508817--34508861	22	2.0	22	87	8	65	28	0	22	48	1.50
34509576--34509605	12	2.5	12	88	0	51	6	23	40	30	1.80
34514790--34514997	91	2.3	91	92	0	335	46	3	4	45	1.41
34514830--34514972	44	3.2	43	66	23	105	46	2	3	47	1.34
34515002--34515452	54	7.6	57	66	21	198	42	2	5	49	1.40
34515013--34515550	120	4.5	120	95	0	918	42	2	5	49	1.40
34515134--34515168	18	2.0	17	88	5	52	45	0	0	54	0.99
34515378--34515429	15	3.6	15	80	12	56	44	0	1	53	1.11
34515507--34515548	15	2.7	16	82	14	52	45	0	2	52	1.13
34515498--34515539	15	2.9	15	82	10	52	47	0	0	52	1.00
34515759--34515791	16	2.1	16	94	0	57	24	33	6	36	1.80
34522468--34522718	110	2.3	109	86	5	335	26	21	16	35	1.94
34527974--34528045	27	2.7	27	86	0	99	22	43	23	11	1.85
34528279--34528351	35	2.1	35	97	0	137	47	24	4	23	1.69
34530255--34530312	20	2.9	20	78	0	71	37	18	18	24	1.94
34534205--34534246	21	1.9	21	85	9	57	30	2	26	40	1.69
34558706--34558795	42	2.2	41	82	6	101	26	22	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34559324--34559498	7	24.7	7	74	6	75	44	34	0	21	1.53
34559363--34559505	57	2.5	56	80	2	142	41	36	0	21	1.59
34559398--34559498	21	4.8	20	75	10	85	42	35	0	21	1.53
34559322--34559500	14	12.6	14	75	5	108	43	34	0	21	1.53
34559926--34560035	40	2.8	40	84	0	139	27	23	20	28	1.99
34560081--34560202	40	3.0	40	83	4	147	27	21	21	29	1.98
34559835--34560177	155	2.2	153	86	1	461	30	21	18	30	1.97
34562978--34563030	25	2.1	26	82	3	63	49	20	11	18	1.78
34563046--34563118	22	3.0	23	78	18	85	23	20	13	42	1.88
34563045--34563162	27	4.6	26	76	13	102	23	16	16	44	1.86
34563045--34563162	53	2.3	49	84	8	148	23	16	16	44	1.86
34574008--34574450	225	2.0	225	94	0	787	39	16	21	23	1.92
34583917--34583985	32	2.2	32	82	5	88	18	37	23	20	1.94
34590471--34590658	50	3.8	50	76	0	144	27	21	27	23	1.99
34590879--34590917	16	2.4	16	82	0	51	66	2	17	12	1.35
34600205--34600232	6	4.7	6	100	0	56	82	0	0	17	0.68
34600368--34600552	88	2.1	87	82	3	226	25	27	23	23	2.00
34600522--34600664	44	3.3	43	70	5	126	29	17	28	24	1.97
34600481--34600736	87	2.9	86	80	4	291	27	22	25	24	2.00
34600684--34601486	44	18.6	44	69	15	371	28	20	22	27	1.99
34600684--34601570	217	4.1	217	91	1	1377	28	20	22	27	1.99
34607731--34607862	49	2.7	50	77	2	122	28	21	25	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34615666--34615746	40	2.0	40	85	0	108	20	16	25	37	1.93
34617974--34618017	22	2.0	21	83	12	54	38	2	0	59	1.10
34626248--34626545	30	9.9	30	78	4	197	39	15	24	21	1.91
34626291--34626558	91	2.9	90	81	8	260	39	14	23	21	1.91
34626264--34626545	121	2.3	121	92	2	478	39	14	24	21	1.91
34631455--34631516	30	2.0	31	81	9	74	46	0	17	35	1.49
34631929--34632122	30	6.4	30	73	9	135	37	14	24	22	1.92
34631903--34632124	121	1.8	121	87	1	329	38	13	25	21	1.91
34646798--34646855	13	4.5	13	70	12	57	13	5	15	65	1.43
34650176--34650200	12	2.1	12	100	0	50	32	0	16	52	1.44
34654170--34654866	348	2.0	348	97	0	1304	35	6	17	40	1.75
34655200--34655224	11	2.3	11	100	0	50	84	8	0	8	0.79
34656680--34656743	32	2.0	32	96	0	119	48	21	4	25	1.69
34660399--34660483	37	2.3	37	80	8	93	42	24	14	18	1.88
34663010--34663077	26	2.6	26	80	0	91	29	20	20	29	1.98
34663756--34663812	28	2.0	29	82	3	71	45	21	3	29	1.68
34672765--34672891	54	2.3	55	84	6	161	39	20	18	21	1.93
34672766--34672945	27	6.7	26	73	8	121	39	19	17	23	1.92
34672786--34672919	54	2.5	54	82	2	153	39	19	17	23	1.92
34672999--34673068	11	6.0	11	69	12	50	18	5	25	50	1.69
34672991--34673075	24	3.5	24	90	0	107	22	5	23	48	1.72
34673250--34673356	32	3.4	31	77	10	99	17	18	23	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34673382--34673441	22	2.8	20	77	10	57	18	16	16	48	1.82
34675692--34675908	110	2.0	110	93	0	371	33	22	19	24	1.97
34679227--34679472	50	4.7	50	80	5	233	23	28	20	28	1.99
34686555--34686593	12	3.2	12	85	0	51	20	23	5	51	1.67
34686846--34687087	50	4.7	50	78	6	216	24	27	21	27	1.99
34690995--34691041	21	2.2	22	77	11	53	19	4	8	68	1.33
34698371--34698424	28	1.9	28	96	0	99	27	22	27	22	1.99
34698532--34698602	26	2.7	26	80	8	90	35	22	21	21	1.96
34702259--34702326	33	2.1	33	100	0	136	35	17	11	35	1.87
34718584--34718776	50	3.7	50	80	4	188	27	20	26	24	1.99
34724883--34725069	50	3.7	50	85	0	248	27	23	27	21	1.99
34729436--34729509	37	2.0	38	89	2	114	32	20	12	35	1.89
34736203--34736251	22	2.1	24	88	7	75	69	14	10	6	1.35
34736227--34736266	21	2.0	20	85	5	53	72	7	17	2	1.19
34736380--34736448	25	2.8	25	78	10	79	73	1	20	4	1.07
34736756--34736818	19	3.4	18	82	10	65	73	0	26	0	0.84
34736769--34736818	19	2.7	19	90	9	77	76	0	24	0	0.80
34736769--34736818	9	5.4	9	81	11	57	76	0	24	0	0.80
34736894--34736942	20	2.5	20	86	3	64	28	36	20	14	1.92
34738790--34738821	12	2.7	12	90	0	55	28	6	15	50	1.68
34742417--34742482	32	2.1	32	94	0	114	34	24	10	30	1.89
34745686--34746238	75	7.3	75	79	7	589	28	16	20	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34745706--34746245	149	3.5	150	82	5	507	29	16	20	32	1.95
34746564--34746634	30	2.4	29	84	11	92	32	16	4	46	1.67
34746564--34746668	30	3.6	30	73	18	78	31	18	5	44	1.73
34746609--34746685	30	2.7	28	77	15	77	32	19	5	42	1.73
34746564--34746682	58	2.1	56	80	13	127	32	17	5	44	1.71
34747204--34747265	27	2.3	27	73	13	65	70	1	25	1	1.05
34747216--34747269	27	2.0	27	88	3	81	66	1	27	3	1.19
34747396--34747431	19	1.9	19	88	5	56	69	13	11	5	1.34
34747601--34747661	26	2.4	25	86	5	77	73	0	24	1	0.92
34747598--34747661	9	7.2	9	70	10	51	73	0	25	1	0.92
34749002--34749108	37	2.9	37	75	10	110	37	27	14	20	1.92
34749349--34749378	10	3.1	10	95	4	53	36	10	0	53	1.35
34750070--34750112	21	2.0	22	86	4	61	18	6	4	69	1.29
34751953--34752105	33	4.5	33	70	23	120	32	27	21	18	1.97
34751803--34752146	103	3.3	103	90	1	530	31	27	20	21	1.98
34759417--34759749	103	3.2	103	89	0	479	31	26	20	21	1.98
34759565--34759717	33	4.5	33	67	23	102	32	26	20	19	1.97
34763028--34763067	20	2.0	20	95	0	71	52	10	7	30	1.62
34764591--34764629	20	2.0	20	100	0	78	15	25	2	56	1.52
34764882--34765122	50	4.7	50	84	5	234	23	29	21	26	1.99
34764882--34765122	100	2.3	102	81	6	274	23	29	21	26	1.99
34766980--34767026	24	2.0	24	100	0	94	25	25	23	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34770045--34770108	13	4.9	13	92	0	110	25	9	26	39	1.86
34770710--34770803	44	2.1	44	96	0	170	40	7	14	37	1.75
34774912--34775084	80	2.1	81	86	5	235	19	18	20	41	1.90
34774912--34775084	27	6.4	27	85	3	206	19	18	20	41	1.90
34778794--34778923	65	2.0	65	100	0	260	30	16	9	43	1.80
34779892--34780014	49	2.5	50	82	4	151	23	25	20	30	1.98
34779892--34780123	50	4.5	50	75	6	166	23	27	21	28	1.99
34785733--34785828	43	2.2	43	85	3	131	32	16	25	26	1.96
34791344--34791373	15	2.0	15	100	0	60	20	6	20	53	1.67
34793584--34793620	19	1.9	19	94	0	65	54	0	8	37	1.30

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