genome.fa.s10.2.7.7.80.10.50.1000.130.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: At_chr6
Parameters: 2 7 7 80 10 50 1000
Length:  56482370

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   

This is table  130  of  172  ( 20562 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)
43214561--43214780	46	4.8	46	90	0	323	41	13	22	21	1.88
43215066--43215098	17	2.0	17	94	5	59	48	0	15	36	1.45
43221355--43221422	30	2.3	30	82	5	75	47	4	20	27	1.69
43221544--43221644	51	2.0	51	96	0	184	48	6	24	19	1.73
43230487--43230525	20	2.0	20	89	0	60	30	28	0	41	1.57
43232598--43232641	13	3.2	14	81	15	56	59	0	0	40	0.98
43236170--43236206	19	1.9	20	88	5	58	51	5	8	35	1.55
43241707--43241767	11	6.0	10	71	17	54	0	22	4	72	1.04
43241789--43242593	5	161.2	5	99	0	1603	60	0	0	40	0.97
43247577--43247606	15	2.0	15	100	0	60	33	20	20	26	1.97
43248898--43249002	33	3.2	33	80	1	104	32	25	14	27	1.94
43248997--43249090	33	2.8	33	85	3	107	29	22	9	38	1.86
43250177--43250215	16	2.4	16	88	12	62	33	12	0	53	1.39
43258462--43258556	47	2.0	47	100	0	190	23	23	16	36	1.94
43259896--43260881	409	2.4	408	90	1	1542	34	15	13	36	1.87
43263766--43263800	2	17.5	2	100	0	70	0	48	0	51	1.00
43291501--43291591	46	1.9	47	82	4	112	31	27	12	28	1.92
43292635--43292665	14	2.2	14	94	0	53	19	6	12	61	1.53
43292888--43292916	14	2.0	15	93	6	51	68	0	0	31	0.89
43293980--43294400	210	2.0	206	89	4	641	26	9	20	42	1.83
43298647--43298764	56	2.1	56	84	3	148	26	11	31	31	1.91
43301597--43301678	43	1.9	43	89	0	128	26	19	30	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43301750--43301816	31	2.2	31	83	0	80	59	17	4	17	1.53
43307554--43307705	9	17.0	9	82	1	171	35	1	16	46	1.55
43307554--43307704	27	5.6	27	88	1	196	35	1	15	47	1.55
43307810--43307865	15	3.8	15	76	21	64	51	0	1	46	1.11
43308206--43309415	604	2.0	604	99	0	2402	40	14	12	33	1.83
43311048--43311351	61	5.0	61	98	1	572	54	18	8	18	1.68
43313703--43313752	25	2.0	25	84	11	66	40	26	4	30	1.74
43313770--43313809	14	2.9	14	88	0	53	47	22	0	30	1.52
43313966--43314390	41	10.4	41	86	1	602	20	20	26	33	1.96
43317681--43317743	20	3.2	19	77	4	63	42	15	4	36	1.69
43317876--43317964	19	4.6	19	78	8	74	46	15	7	30	1.75
43319764--43319930	83	2.0	83	98	0	325	28	21	14	35	1.93
43321195--43321253	28	2.1	28	84	6	75	11	23	25	38	1.89
43327108--43327283	56	3.3	56	71	19	144	15	21	21	42	1.89
43327088--43327283	101	2.0	100	85	3	268	16	22	20	40	1.91
43327192--43327327	73	1.9	73	82	3	175	16	27	16	38	1.91
43327275--43327395	44	2.7	45	78	10	158	17	28	14	38	1.89
43327409--43327561	28	5.5	28	84	1	155	15	24	18	40	1.90
43327409--43327561	55	2.8	56	80	2	164	15	24	18	40	1.90
43331948--43331972	3	8.3	3	100	0	50	68	0	32	0	0.90
43343408--43343438	14	2.1	15	94	5	55	83	6	3	6	0.88
43349939--43350027	30	3.0	30	79	6	101	33	32	14	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43350089--43350131	18	2.4	18	92	0	68	20	27	9	41	1.83
43353640--43354211	123	4.6	123	94	1	921	28	18	17	35	1.94
43354347--43354467	34	3.6	33	76	8	102	42	14	0	41	1.52
43354388--43354438	26	2.0	25	88	7	77	45	17	0	37	1.49
43354401--43354482	34	2.4	36	82	9	93	43	9	0	46	1.36
43363582--43363615	17	2.0	17	100	0	68	35	17	11	35	1.87
43364891--43364958	29	2.2	29	84	7	82	29	5	13	51	1.64
43364901--43364958	29	2.0	30	89	3	91	29	5	13	51	1.63
43365142--43365209	31	2.4	27	79	18	75	42	13	10	33	1.78
43375153--43375219	12	5.6	12	75	7	73	1	41	34	22	1.63
43380928--43381067	43	3.3	43	77	7	133	27	16	27	29	1.97
43391294--43391344	26	2.0	26	84	3	68	64	3	0	31	1.11
43391306--43391354	26	2.0	24	88	8	71	63	6	0	30	1.19
43403103--43403134	14	2.2	15	94	5	57	56	6	6	31	1.49
43403192--43403224	13	2.4	14	90	5	50	33	3	0	63	1.10
43403619--43403714	48	2.0	48	89	0	147	26	18	13	41	1.88
43409575--43409615	15	2.7	15	85	10	57	41	4	0	53	1.22
43409575--43409619	16	2.9	16	87	9	58	42	6	0	51	1.28
43412153--43412177	13	1.9	13	100	0	50	40	12	8	40	1.72
43414423--43414575	77	2.0	75	89	2	234	26	15	2	54	1.54
43416861--43416919	6	8.6	7	75	20	54	64	0	5	30	1.15
43416873--43416986	3	37.0	3	75	18	101	61	0	7	30	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43416882--43417010	56	2.3	57	89	6	199	61	0	9	28	1.32
43416922--43417028	27	3.9	26	74	20	85	62	1	10	25	1.37
43417083--43417207	4	30.2	4	72	7	72	65	4	8	21	1.38
43417269--43417376	53	2.0	53	92	0	180	45	14	29	10	1.78
43418338--43418374	18	2.1	18	95	5	67	18	0	21	59	1.38
43423059--43423159	40	2.5	40	91	0	166	31	29	16	21	1.96
43432189--43432231	22	2.0	22	86	4	61	53	11	0	34	1.37
43435785--43435857	36	2.0	36	89	0	110	47	10	8	32	1.68
43435898--43435978	43	1.9	42	90	7	128	39	8	18	33	1.81
43435901--43435995	43	2.2	42	81	5	111	42	9	14	33	1.78
43436034--43436124	45	2.0	45	95	0	164	39	10	14	35	1.81
43436569--43436608	21	1.9	21	94	0	71	10	12	37	40	1.77
43436725--43436796	36	2.0	36	91	5	119	33	2	45	18	1.63
43443907--43444926	49	20.9	49	97	1	1890	32	6	29	31	1.83
43445045--43445123	37	2.1	37	90	0	122	24	18	31	25	1.98
43446340--43446368	15	1.9	15	100	0	58	31	6	13	48	1.69
43455013--43455053	16	2.5	16	88	4	55	82	12	2	2	0.86
43458299--43458360	28	2.2	29	88	11	101	41	12	14	30	1.83
43458308--43458363	28	2.0	28	100	0	112	42	14	17	25	1.87
43461866--43461938	36	2.0	36	100	0	146	36	10	32	19	1.86
43485635--43485722	25	3.5	25	77	10	90	31	19	25	23	1.98
43485675--43485730	25	2.2	25	87	0	76	35	21	26	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43486860--43486949	27	3.3	27	71	17	94	21	11	5	62	1.48
43486853--43486964	56	2.0	55	98	1	215	21	10	5	62	1.47
43486850--43486939	29	3.2	30	70	17	93	24	11	3	61	1.45
43486871--43486959	27	3.2	28	68	16	85	19	10	6	64	1.46
43492608--43492726	58	2.1	58	95	0	211	32	10	15	41	1.81
43493182--43493236	28	1.9	28	85	10	76	18	21	41	18	1.90
43501621--43501654	5	6.6	5	86	6	50	17	0	2	79	0.86
43501622--43501654	11	3.1	11	91	4	50	15	0	3	81	0.80
43505278--43505441	42	3.7	42	84	8	186	29	27	14	28	1.95
43505348--43505484	49	2.9	48	85	4	179	30	27	13	27	1.94
43505363--43505531	47	3.6	46	82	3	176	30	27	14	26	1.95
43505568--43505708	31	4.5	31	91	0	210	25	27	18	28	1.98
43505684--43505812	50	2.5	51	88	5	190	26	23	16	34	1.95
43511645--43511726	26	3.2	26	96	0	155	30	6	26	36	1.81
43522102--43522126	7	3.6	7	100	0	50	28	0	24	48	1.52
43537767--43538088	127	2.5	127	86	3	434	35	20	17	27	1.95
43538855--43538883	14	2.1	14	100	0	58	41	6	13	37	1.72
43543899--43543941	3	14.3	3	100	0	86	32	0	0	67	0.91
43550314--43550354	21	2.0	21	90	0	64	24	19	29	26	1.98
43550745--43550773	14	2.0	15	93	6	51	55	6	37	0	1.27
43555017--43555053	19	2.0	19	85	15	51	45	0	0	54	1.00
43555285--43555324	16	2.5	16	100	0	80	40	37	0	22	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43556296--43556414	3	41.0	3	78	9	104	2	29	0	67	1.10
43561681--43561718	18	2.1	18	100	0	76	47	34	0	18	1.49
43562463--43562718	74	3.4	73	85	5	336	33	20	21	25	1.97
43562463--43562702	35	6.5	35	68	12	131	32	20	21	25	1.98
43566261--43566310	25	2.0	25	100	0	100	44	12	16	28	1.83
43578941--43580062	561	2.0	561	99	0	2226	35	20	19	23	1.96
43581288--43581355	28	2.4	29	87	5	86	51	4	17	26	1.64
43593084--43593172	25	3.6	25	80	4	92	21	25	22	30	1.99
43599486--43599637	76	2.0	76	96	0	277	26	17	27	28	1.97
43607006--43607160	65	2.4	65	98	0	301	37	16	27	18	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