genome.fa.s11.2.7.7.80.10.50.1000.180.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  180  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)
53535220--53535499	124	2.2	125	85	6	363	30	15	20	32	1.94
53536041--53536098	12	5.2	12	72	16	61	36	0	24	39	1.55
53536022--53536098	22	3.5	22	89	3	111	40	0	24	35	1.56
53542663--53542749	41	2.1	41	87	4	122	59	13	0	26	1.35
53542674--53542761	41	2.1	41	91	0	140	61	11	0	27	1.30
53545180--53545247	32	2.1	32	91	5	111	52	17	0	29	1.45
53552543--53552717	88	2.0	86	81	6	201	34	8	10	45	1.70
53554081--53554122	21	2.0	21	85	0	57	30	9	23	35	1.87
53554933--53554999	29	2.3	29	84	5	82	64	5	4	25	1.36
53555526--53555550	5	5.0	5	100	0	50	80	0	0	20	0.72
53562690--53562765	32	2.4	34	82	10	106	47	2	23	26	1.65
53562775--53562862	38	2.3	38	94	0	149	37	15	14	31	1.89
53566682--53566744	29	2.2	29	88	5	94	66	1	0	31	1.01
53566682--53566756	29	2.6	28	77	8	80	65	1	0	33	1.01
53566797--53566860	20	3.3	19	76	12	67	65	4	4	25	1.31
53570204--53570237	14	2.3	15	90	5	52	79	0	2	17	0.86
53571004--53571081	30	2.8	28	84	9	97	37	1	39	21	1.62
53571404--53571450	21	2.3	20	79	17	53	38	2	2	57	1.23
53571403--53571511	9	11.6	9	67	19	53	31	1	1	65	1.14
53574422--53574474	21	2.5	21	90	0	88	22	7	39	30	1.82
53578542--53578592	11	4.6	12	77	22	58	54	0	0	45	0.99
53578553--53578604	24	2.2	24	86	13	72	57	1	0	40	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53578549--53578604	14	4.3	13	80	13	53	57	1	0	41	1.09
53585251--53585308	21	2.8	21	81	5	64	46	17	22	13	1.83
53585255--53585405	42	3.6	42	80	3	135	48	15	21	14	1.80
53585261--53585399	21	6.6	21	71	4	84	47	15	21	15	1.82
53587557--53587599	22	2.0	22	90	0	68	20	11	9	58	1.61
53589173--53589241	27	2.6	27	83	0	93	21	33	34	10	1.87
53589305--53589373	4	16.8	4	78	21	56	71	0	28	0	0.87
53589303--53589420	15	8.0	14	72	20	73	71	0	28	0	0.87
53589317--53589386	30	2.4	30	90	7	108	70	0	30	0	0.88
53589287--53589409	23	5.2	23	74	14	90	66	0	33	0	0.92
53589732--53590610	155	5.7	157	85	6	1143	51	7	10	30	1.64
53589764--53590610	463	1.8	466	89	4	1327	51	7	10	30	1.65
53596351--53596384	11	3.2	11	87	4	52	73	8	0	17	1.08
53596815--53596861	26	1.9	26	83	12	64	57	0	2	40	1.11
53611289--53611560	113	2.4	114	83	9	349	22	21	26	29	1.99
53611289--53611565	114	2.4	114	83	8	350	23	21	25	29	1.99
53612889--53612978	39	2.3	39	86	5	130	17	2	40	40	1.62
53615798--53615860	22	2.7	23	79	18	69	46	0	3	50	1.17
53615792--53615872	12	7.5	11	71	25	50	45	0	2	51	1.14
53615995--53616447	9	52.8	9	65	24	180	44	21	1	32	1.60
53615992--53616075	43	2.0	43	82	0	105	50	23	0	26	1.50
53616227--53616274	19	2.5	19	82	0	60	43	20	2	33	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53616302--53616329	13	2.2	13	100	0	56	39	25	0	35	1.56
53616065--53616410	25	13.4	26	80	15	263	44	20	1	33	1.59
53616301--53616425	59	2.2	56	84	12	157	47	20	0	31	1.56
53616315--53616447	43	3.1	43	82	10	141	46	21	1	30	1.60
53621834--53622004	66	2.6	65	84	4	200	39	18	28	13	1.89
53621976--53622019	21	2.1	21	91	0	70	36	18	43	2	1.63
53621983--53622026	21	2.1	21	86	0	61	34	20	43	2	1.64
53621995--53622087	42	2.2	42	84	3	116	34	15	44	6	1.72
53621995--53622087	21	4.4	20	71	12	62	34	15	44	6	1.72
53622382--53622470	43	2.1	43	89	4	135	33	28	17	20	1.95
53622440--53622531	42	2.2	42	86	2	121	25	28	22	23	2.00
53622397--53622531	43	3.2	43	81	5	123	27	28	20	22	1.99
53622624--53622666	22	2.0	22	90	0	68	41	25	20	11	1.86
53627682--53627842	83	1.9	83	98	0	313	43	24	8	23	1.81
53632255--53632285	2	15.5	2	100	0	62	48	0	0	51	1.00
53634656--53634706	26	2.0	26	84	0	66	43	9	13	33	1.77
53634672--53634731	26	2.3	26	85	0	75	41	3	20	35	1.68
53642371--53642423	18	2.9	18	82	2	61	41	45	1	11	1.51
53642395--53642419	13	1.9	13	100	0	50	40	48	0	12	1.40
53642431--53642491	17	3.4	17	70	12	59	31	3	14	50	1.59
53642426--53642500	37	2.0	37	100	0	150	33	5	16	45	1.69
53642499--53642538	9	4.4	9	93	0	71	25	10	22	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53660228--53660422	41	4.8	41	76	7	189	17	23	23	35	1.95
53660286--53660464	82	2.2	82	83	0	214	17	22	25	34	1.96
53660224--53660487	123	2.1	123	79	2	280	17	23	22	36	1.94
53661761--53661831	37	1.9	37	91	0	115	22	1	40	35	1.63
53664228--53664254	14	1.9	14	100	0	54	14	25	14	44	1.84
53669267--53669436	66	2.6	65	86	5	218	41	19	27	12	1.87
53669418--53669519	42	2.4	42	88	0	141	33	16	43	6	1.75
53669407--53669519	21	5.4	21	82	0	118	33	16	42	7	1.76
53669827--53670031	43	4.8	43	80	1	214	23	16	30	28	1.96
53669834--53670031	86	2.3	86	83	0	243	24	17	30	27	1.97
53669997--53670140	43	3.3	43	86	1	182	22	28	22	26	1.99
53670017--53670159	43	3.3	43	86	2	182	27	31	18	21	1.97
53670290--53670362	28	2.5	29	86	8	112	30	24	26	19	1.98
53670943--53670986	23	1.9	23	90	0	70	13	29	13	43	1.83
53680288--53680329	19	2.3	19	87	4	59	38	0	0	61	0.96
53685446--53685518	24	3.0	24	91	0	128	30	15	12	42	1.83
53687887--53687962	35	2.2	35	97	0	143	65	10	10	13	1.47
53690280--53690995	100	7.2	99	85	3	861	32	21	19	25	1.97
53690280--53690995	199	3.6	200	85	4	880	32	21	19	25	1.97
53690289--53690860	50	11.6	50	77	8	535	32	20	20	26	1.97
53690888--53691017	50	2.6	50	76	2	136	31	23	20	23	1.98
53691961--53691994	5	6.8	5	100	0	68	17	0	0	82	0.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53691962--53692008	20	2.4	19	85	3	58	21	0	2	76	0.89
53695725--53695749	11	2.3	11	100	0	50	0	8	0	92	0.40
53695753--53696248	264	1.9	263	79	8	569	31	12	11	44	1.77
53697625--53697757	56	2.3	57	83	3	151	31	12	9	45	1.75
53697838--53697904	31	2.2	31	83	0	80	34	20	17	26	1.96
53698196--53698233	19	2.0	19	89	0	58	31	0	0	68	0.90
53703394--53703451	29	2.0	29	89	3	89	20	44	0	34	1.52
53703401--53703460	29	2.1	28	81	9	68	25	48	0	26	1.52
53711118--53711163	23	2.0	23	91	4	76	21	6	8	63	1.46
53711120--53711251	60	2.3	55	79	11	133	21	12	11	53	1.70
53721748--53721789	22	1.9	22	85	0	57	30	14	16	38	1.89
53724219--53724254	18	2.0	18	88	0	54	30	0	8	61	1.26
53724288--53724339	20	2.8	18	80	11	59	51	0	3	44	1.19
53724294--53724332	20	2.0	20	94	0	69	48	0	2	48	1.15
53724428--53724467	20	2.0	20	95	0	71	45	12	10	32	1.75
53724418--53724482	34	1.9	33	87	9	96	41	12	9	36	1.75
53728169--53728228	3	20.0	3	78	0	66	30	36	0	33	1.58
53728168--53728221	27	2.0	27	92	0	90	31	38	0	29	1.57
53732553--53732578	13	2.0	13	100	0	52	0	0	23	76	0.78
53735826--53735860	2	17.5	2	100	0	70	48	0	0	51	1.00
53736015--53736093	2	40.0	2	84	2	88	54	1	2	41	1.22
53740907--53740938	16	2.0	16	100	0	64	25	18	6	50	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53741856--53741889	16	2.1	16	94	0	59	26	2	26	44	1.69
53742205--53742243	17	2.2	18	86	4	53	53	7	0	38	1.30
53742880--53742904	2	12.5	2	100	0	50	0	48	0	52	1.00
53752132--53752161	4	7.5	4	92	0	51	53	0	23	23	1.46
53755720--53755757	3	12.7	3	100	0	76	31	0	0	68	0.90
53759752--53759797	4	11.5	4	86	9	67	76	0	2	21	0.90
53768184--53768227	20	2.2	20	84	8	54	29	4	0	65	1.12
53768196--53768236	20	2.1	19	86	9	55	31	2	2	63	1.20
53770268--53770329	26	2.5	25	82	7	81	41	1	1	54	1.19
53793780--53793834	24	2.3	23	87	9	76	65	1	0	32	1.03

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