genome.fa.s10.2.7.7.80.10.50.1000.98.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  98  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)
29885344--29885407	19	3.3	19	77	14	60	28	0	3	68	1.04
29885359--29885435	28	2.8	28	80	7	77	27	2	3	66	1.22
29895220--29895285	31	2.1	31	91	0	105	50	0	6	43	1.27
29895235--29895293	16	3.8	16	69	13	59	49	0	6	44	1.29
29896096--29896173	39	2.0	39	97	0	147	41	14	12	32	1.83
29896525--29896557	17	1.9	17	93	0	57	36	6	0	57	1.23
29901623--29901936	96	3.3	96	90	4	471	38	17	2	41	1.62
29902373--29902540	57	2.8	60	70	19	154	51	2	9	35	1.50
29903471--29903514	22	2.0	22	82	8	54	47	9	0	43	1.35
29904035--29904086	15	3.2	15	73	19	50	44	0	1	53	1.11
29904119--29904158	16	2.4	17	91	4	64	35	0	0	65	0.93
29904173--29904231	17	3.1	18	72	27	59	44	0	1	54	1.10
29904183--29904226	22	2.0	22	86	0	61	40	0	2	56	1.11
29906944--29906969	13	2.0	13	100	0	52	46	0	0	53	1.00
29908600--29908695	43	2.2	43	84	0	138	20	27	32	19	1.97
29909652--29909934	30	9.5	29	70	12	146	21	25	13	39	1.89
29909650--29909815	89	1.9	89	87	2	244	21	25	11	40	1.87
29909715--29909875	60	2.7	60	85	2	209	23	24	11	40	1.87
29909774--29909943	89	1.9	89	82	1	214	21	24	14	40	1.90
29909643--29909905	30	8.8	30	71	7	178	21	25	13	39	1.90
29909652--29909934	149	1.9	149	90	0	449	21	25	13	39	1.89
29919169--29919336	29	5.7	29	70	17	87	20	25	13	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29919134--29919401	89	3.0	88	86	4	360	20	25	15	38	1.91
29919127--29919428	30	10.2	30	70	8	145	19	24	16	39	1.92
29919376--29919451	23	3.0	23	76	20	80	14	22	19	43	1.87
29926149--29926201	23	2.3	23	96	0	97	16	3	35	43	1.67
29929501--29929543	17	2.5	17	96	0	77	16	11	9	62	1.53
29933105--29933141	19	1.9	19	88	0	56	48	27	0	24	1.51
29944787--29944812	12	2.2	12	100	0	52	38	38	15	7	1.76
29949926--29950034	42	2.6	42	88	0	164	25	34	21	18	1.96
29951459--29951637	50	3.6	50	83	3	184	27	22	29	20	1.98
29956402--29956517	48	2.6	44	81	11	153	30	14	25	30	1.95
29956453--29956589	58	2.4	58	91	3	217	34	13	24	27	1.93
29956558--29956597	7	5.7	7	93	0	71	45	12	27	15	1.82
29962172--29962412	50	4.9	50	80	4	229	27	19	29	22	1.98
29967680--29967811	50	2.5	53	86	7	171	25	31	18	25	1.98
29971626--29971674	9	5.1	9	76	13	53	22	26	4	46	1.69
29975198--29975323	49	2.6	49	81	7	141	25	26	19	27	1.99
29983766--29983909	56	2.7	54	81	11	156	27	28	19	25	1.99
29984471--29985750	645	2.0	635	84	6	1665	35	18	11	34	1.87
29989662--29989730	35	2.0	35	88	0	102	31	17	21	28	1.96
29990250--29990313	27	2.3	28	86	7	87	31	18	17	32	1.94
29990218--29990313	28	3.5	27	80	8	104	30	18	20	30	1.97
29992225--29992299	27	2.8	28	70	13	75	28	20	16	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29999047--29999072	5	5.2	5	100	0	52	42	19	19	19	1.90
30000096--30000132	9	4.1	9	92	0	65	29	10	13	45	1.77
30000185--30000215	9	3.4	9	90	0	53	38	22	12	25	1.90
30006120--30006313	27	7.2	27	90	0	289	43	21	19	16	1.88
30006426--30006499	26	2.8	27	79	4	71	21	21	21	35	1.96
30008858--30009978	412	2.7	405	79	4	1176	30	13	23	32	1.93
30011881--30011952	21	3.4	21	75	7	83	13	29	18	38	1.89
30011842--30011967	42	3.0	42	86	0	162	16	26	17	38	1.91
30011842--30011986	42	3.5	42	84	0	155	16	25	17	40	1.91
30015590--30015746	42	3.7	43	81	6	144	16	25	16	41	1.89
30015633--30015704	21	3.4	21	75	7	83	13	29	18	38	1.89
30017353--30017406	3	18.0	3	100	0	108	66	0	0	33	0.92
30017499--30017593	44	2.1	47	88	5	142	48	3	9	38	1.52
30025112--30025140	2	14.5	2	100	0	58	48	0	51	0	1.00
30025290--30025325	2	18.0	2	100	0	72	50	0	50	0	1.00
30026896--30027075	98	1.9	96	85	4	254	46	4	2	46	1.37
30027354--30027394	14	2.8	15	81	7	57	58	0	7	34	1.26
30032759--30032875	39	3.0	39	92	0	180	45	23	2	28	1.66
30043180--30043211	16	2.0	16	93	0	55	25	15	0	59	1.36
30043349--30043433	46	1.9	43	85	7	116	32	27	16	23	1.96
30043435--30043629	51	3.8	51	79	8	236	31	27	16	24	1.97
30043437--30043621	101	1.8	102	89	3	293	31	26	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30050651--30050684	17	2.0	17	94	0	59	58	8	11	20	1.59
30051133--30051199	18	3.5	20	76	15	61	32	35	4	26	1.77
30070317--30070376	29	2.1	29	100	0	120	28	28	30	13	1.94
30074449--30074503	28	2.0	28	96	0	101	12	41	5	40	1.66
30090207--30090564	176	2.0	176	90	1	565	32	15	24	26	1.96
30091123--30091147	13	1.9	13	100	0	50	44	0	0	56	0.99
30092869--30093048	89	2.0	89	95	0	324	35	7	16	40	1.77
30095187--30095370	92	2.0	92	100	0	368	41	6	3	48	1.45
30097934--30098279	123	2.8	123	91	1	559	28	15	22	34	1.94
30102838--30102890	23	2.4	22	78	6	61	45	3	13	37	1.61
30102838--30102881	23	2.0	23	86	4	63	45	4	13	36	1.64
30104227--30104282	27	2.1	27	86	0	76	23	26	21	28	1.99
30104242--30104346	27	3.9	27	77	5	86	25	22	21	29	1.99
30104234--30104354	27	4.5	27	67	8	75	26	23	20	28	1.99
30123454--30123507	27	2.0	27	92	0	90	24	22	7	46	1.77
30124678--30124706	13	2.1	14	93	6	51	68	13	6	10	1.37
30125108--30125135	12	2.3	12	100	0	56	35	14	10	39	1.81
30127066--30127104	20	2.0	20	89	0	60	38	20	25	15	1.92
30132123--30132189	14	4.3	15	78	10	64	47	7	17	26	1.74
30135719--30135972	126	2.0	126	96	0	472	29	17	23	29	1.97
30147127--30147180	23	2.4	22	78	12	56	27	1	27	42	1.66
30148767--30148959	50	3.7	50	81	4	206	27	22	27	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30149208--30149246	12	3.2	12	85	0	51	51	5	23	20	1.67
30155537--30155627	25	3.7	25	73	17	82	27	23	21	27	1.99
30182411--30182435	13	1.9	13	100	0	50	28	40	0	32	1.57
30196854--30196887	7	4.9	7	100	0	68	29	0	0	70	0.87
30196977--30197033	21	2.7	21	81	10	62	31	0	1	66	1.02
30197270--30197321	22	2.2	24	83	6	63	42	5	1	50	1.37
30197701--30197746	19	2.4	19	79	13	51	43	0	2	54	1.12
30197838--30197882	13	3.1	14	79	20	56	46	0	0	53	1.00
30199032--30199075	22	2.0	22	100	0	88	36	18	13	31	1.90
30199618--30199681	30	2.1	31	82	2	76	53	10	3	32	1.52
30207374--30207442	35	2.0	35	97	0	129	23	18	5	52	1.67
30207561--30207595	18	1.9	18	88	0	52	51	0	11	37	1.38
30216740--30216775	17	2.1	17	94	0	63	25	33	5	36	1.79
30217643--30217712	35	2.0	35	88	0	104	24	24	24	27	2.00
30220439--30220540	50	2.1	49	88	1	150	30	8	12	48	1.72
30221700--30221834	71	1.9	71	81	0	162	22	17	26	33	1.96
30224514--30224549	18	2.0	18	94	0	63	22	30	0	47	1.52
30224519--30224562	18	2.4	18	85	7	54	20	29	2	47	1.62
30237568--30237706	56	2.6	53	85	6	167	23	29	21	25	1.99
30237519--30237706	50	3.7	50	80	9	184	24	27	20	27	1.99
30241661--30241696	18	1.9	19	88	5	56	41	2	0	55	1.14
30245814--30245839	2	13.0	2	100	0	52	0	0	50	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30248035--30248587	278	2.0	279	86	1	779	31	18	15	34	1.92
30250122--30250150	2	14.5	2	100	0	58	48	0	0	51	1.00
30250259--30250296	14	2.7	14	95	0	67	39	0	10	50	1.37
30250252--30250287	18	2.0	18	88	0	54	38	0	13	47	1.44
30250575--30250715	75	1.9	75	83	2	185	33	4	18	43	1.72
30250797--30250876	41	2.0	41	84	0	106	27	13	21	37	1.91
30251064--30251137	33	2.2	34	85	2	96	28	12	14	44	1.81
30257867--30257891	10	2.5	10	100	0	50	40	0	12	48	1.40
30257995--30258058	6	10.7	6	100	0	128	32	0	17	50	1.46
30258336--30258476	75	1.9	75	80	5	169	34	4	17	43	1.70

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