genome.fa.s11.2.7.7.80.10.50.1000.134.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  134  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)
40853289--40853482	95	2.0	95	97	0	370	30	28	5	35	1.79
40854365--40854706	51	6.9	50	74	11	249	30	26	16	25	1.97
40854522--40854704	101	1.8	101	84	5	253	31	26	16	25	1.97
40870242--40870500	42	6.2	42	84	2	319	30	19	19	30	1.96
40870242--40870500	84	3.1	83	89	2	396	30	19	19	30	1.96
40870489--40870527	16	2.4	16	100	0	78	20	30	28	20	1.98
40873831--40873891	27	2.3	27	85	5	79	36	22	24	16	1.94
40875887--40875911	11	2.3	11	100	0	50	24	12	0	64	1.27
40876114--40876226	59	1.9	60	94	1	201	43	1	2	52	1.25
40878879--40878922	20	2.2	20	84	8	54	54	6	6	31	1.53
40881091--40881116	12	2.2	12	100	0	52	7	15	30	46	1.74
40881185--40881741	113	4.9	114	88	2	744	26	22	25	26	2.00
40881185--40881741	227	2.4	228	86	3	762	26	22	25	26	2.00
40881633--40881887	73	3.4	73	92	3	422	26	22	26	25	2.00
40882142--40882172	15	2.1	15	93	0	53	19	0	45	35	1.51
40882412--40882471	14	4.3	15	77	12	56	26	0	33	40	1.57
40882481--40882515	14	2.5	14	90	9	54	22	0	45	31	1.53
40886186--40886223	15	2.4	17	86	8	53	28	0	2	68	1.03
40889051--40889304	43	6.0	42	79	5	219	22	16	30	30	1.96
40889052--40889304	86	3.0	85	82	5	278	22	16	30	30	1.96
40891597--40891638	21	2.0	21	86	9	59	21	7	21	50	1.72
40896104--40896156	20	2.7	20	79	5	63	41	22	3	32	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40896345--40896419	23	3.2	24	81	3	75	34	17	26	21	1.95
40903452--40903498	14	3.3	14	75	16	51	46	17	4	31	1.67
40903597--40903645	20	2.5	19	83	6	62	40	20	4	34	1.71
40903810--40903899	23	3.8	23	75	7	83	35	18	25	20	1.95
40903819--40903909	23	4.0	22	76	8	74	37	19	23	19	1.94
40904208--40904545	125	2.7	125	92	0	568	30	22	20	26	1.98
40904414--40905044	166	3.8	166	85	4	835	33	19	21	26	1.97
40904414--40905042	333	1.9	332	86	2	897	33	19	21	26	1.97
40905669--40905711	13	3.2	13	77	6	50	16	2	30	51	1.57
40909894--40909940	21	2.2	21	88	0	67	36	19	42	2	1.63
40910381--40910424	22	2.0	22	95	0	79	38	22	29	9	1.85
40910341--40910466	64	2.0	64	95	0	225	31	18	28	21	1.97
40910403--40910505	42	2.4	43	91	1	163	28	16	31	24	1.96
40910297--40910505	106	1.9	109	88	2	316	31	18	28	21	1.97
40910403--40910521	42	2.8	42	85	3	141	28	17	29	24	1.97
40912014--40912142	36	3.8	35	69	15	99	27	17	24	30	1.97
40912007--40912157	66	2.3	66	83	0	185	29	17	24	29	1.97
40912082--40912153	36	2.0	36	88	0	108	26	15	29	29	1.96
40918301--40918342	22	1.9	22	85	0	57	69	0	2	28	1.01
40919100--40919143	20	2.3	19	88	4	61	56	0	0	43	0.99
40923192--40923267	26	2.9	26	76	9	75	36	14	23	25	1.93
40928867--40928986	42	2.8	43	84	2	145	27	15	24	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40933676--40933722	23	2.0	23	100	0	94	42	12	4	40	1.63
40937418--40937524	30	3.6	30	93	0	178	19	21	35	23	1.96
40937450--40937524	15	5.0	15	68	12	64	20	20	36	24	1.95
40937819--40937860	22	2.0	21	85	4	57	28	16	11	42	1.84
40940480--40940520	12	3.3	13	80	10	50	17	4	0	78	0.93
40941420--40941468	25	2.0	24	84	15	64	69	6	12	12	1.35
40941487--40941563	6	13.5	6	73	13	65	76	3	2	16	1.05
40941461--40941523	27	2.3	27	84	10	76	74	6	1	17	1.10
40941462--40941564	40	2.5	41	76	10	104	72	4	2	19	1.15
40941487--40941563	24	3.4	22	79	13	86	76	3	2	16	1.05
40941487--40941564	16	4.6	16	77	15	77	75	3	2	17	1.07
40941461--40941563	12	8.7	11	68	21	66	73	4	2	18	1.13
40941511--40941569	17	3.5	17	88	6	68	72	1	5	20	1.12
40942018--40942060	22	2.0	22	86	4	61	13	9	6	69	1.35
40945236--40945325	33	2.7	33	89	0	135	47	15	18	17	1.82
40945236--40945344	33	3.3	32	82	7	121	46	16	18	18	1.84
40945236--40945386	66	2.3	66	81	6	164	47	15	19	17	1.83
40947318--40947362	21	2.1	21	100	0	90	26	15	13	44	1.83
40947862--40947892	3	10.3	3	92	0	53	29	3	0	67	1.06
40950624--40950656	2	16.5	2	100	0	66	51	0	0	48	1.00
40951626--40951650	13	1.9	13	100	0	50	20	32	32	16	1.94
40952571--40952993	29	14.4	29	83	4	325	22	26	13	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40952601--40953002	58	6.8	58	78	9	379	22	25	13	38	1.91
40952568--40952963	144	2.7	145	85	6	505	22	27	13	37	1.91
40971568--40971689	66	1.9	64	85	6	167	41	3	4	50	1.40
40980927--40981237	129	2.4	133	88	3	450	25	26	16	30	1.97
40980927--40981292	43	8.4	43	82	3	399	25	25	17	31	1.97
40981650--40981749	16	6.1	16	70	17	71	31	3	16	50	1.60
40981824--40981867	23	1.9	23	90	9	72	29	0	22	47	1.51
40981878--40981931	17	3.1	18	74	17	60	59	3	0	37	1.15
40982161--40982211	23	2.3	22	93	3	84	50	1	0	47	1.12
40982136--40982203	30	2.2	31	84	2	84	52	1	0	45	1.09
40982966--40983063	49	2.0	49	100	0	196	34	18	12	34	1.88
40982976--40983076	49	2.1	49	88	1	150	34	18	10	35	1.86
40983384--40983426	21	2.0	21	95	0	77	41	9	4	44	1.57
40984237--40984269	14	2.4	14	100	0	66	21	36	6	36	1.78
40984501--40984558	28	2.1	28	93	0	98	32	25	8	32	1.86
40984706--40984730	13	1.9	13	100	0	50	4	8	8	80	1.03
40984738--40984780	18	2.2	20	88	8	63	2	30	11	55	1.48
40992830--40992863	2	17.5	2	93	6	61	50	0	50	0	1.00
40993050--40993086	17	2.1	18	90	5	58	29	0	2	67	1.04
41002595--41002637	19	2.4	18	84	7	52	55	0	0	44	0.99
41002837--41002915	39	2.0	39	100	0	158	10	12	17	59	1.60
41012468--41012798	26	12.1	26	73	11	216	27	15	27	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41012446--41012786	55	6.2	55	82	1	364	28	15	27	28	1.96
41012451--41012798	110	3.2	110	84	4	445	28	16	26	28	1.97
41014782--41014901	41	3.0	41	73	18	144	45	6	6	41	1.57
41014760--41014878	37	3.1	37	75	17	143	44	5	6	42	1.55
41015628--41016099	236	2.0	236	98	0	917	30	17	23	28	1.97
41022069--41022118	24	2.1	23	85	7	64	50	0	2	48	1.12
41025245--41025283	20	2.0	20	95	5	71	28	10	15	46	1.78
41025230--41025293	33	1.9	33	87	6	94	32	9	15	42	1.79
41025462--41025512	26	2.2	24	78	21	56	60	5	0	33	1.21
41027010--41027049	2	20.0	2	100	0	80	50	0	0	50	1.00
41027450--41027483	6	5.7	6	92	0	59	35	0	64	0	0.94
41027634--41027662	13	2.1	14	93	6	51	34	10	10	44	1.73
41040029--41040053	13	1.9	13	100	0	50	56	28	8	8	1.57
41050750--41050790	21	2.0	21	95	0	73	34	34	26	4	1.78
41058792--41058841	20	2.5	20	86	0	64	26	14	14	46	1.81
41066415--41066558	25	5.8	25	78	4	157	26	20	23	29	1.99
41066416--41066558	75	1.9	75	85	5	200	26	20	23	30	1.98
41069042--41069084	22	2.0	22	90	0	68	4	30	46	18	1.69
41092050--41092258	103	2.0	102	94	0	364	38	4	10	46	1.59
41092121--41092407	146	2.0	146	80	7	325	39	4	10	45	1.58
41093075--41093145	31	2.5	28	80	11	72	22	9	5	61	1.48
41093555--41093584	14	2.1	14	100	0	60	56	6	13	23	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41094392--41094441	20	2.3	20	80	10	55	24	6	14	56	1.60
41094967--41095020	25	2.2	26	83	6	67	24	5	9	61	1.48
41097132--41097174	4	10.8	4	79	0	50	25	30	2	41	1.68
41102272--41102307	17	2.1	17	100	0	72	33	27	22	16	1.95
41115597--41115631	8	4.5	8	96	3	63	80	11	0	8	0.92
41118396--41118439	23	1.9	23	90	0	70	27	2	25	45	1.65
41118458--41118713	42	6.1	42	86	1	352	21	17	22	38	1.93
41121267--41121312	20	2.2	21	84	3	58	39	0	10	50	1.38
41121266--41121313	21	2.3	22	78	10	55	37	0	10	52	1.36
41121024--41121301	145	1.9	147	91	2	454	43	4	9	41	1.58

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