genome.fa.s11.2.7.7.80.10.50.1000.199.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  199  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)
58444759--58444803	18	2.7	16	74	12	54	33	2	0	64	1.06
58445291--58445373	28	3.1	26	75	14	80	44	2	2	50	1.28
58448872--58448981	56	1.9	56	90	5	175	25	10	5	59	1.51
58448887--58449003	56	2.1	56	87	4	166	25	11	5	57	1.56
58450467--58450504	15	2.4	16	86	4	51	78	2	18	0	0.86
58452606--58452647	5	8.4	5	100	0	84	40	0	19	40	1.51
58456103--58456158	28	2.0	29	92	3	96	50	3	12	33	1.58
58462579--58462603	2	12.5	2	100	0	50	52	0	0	48	1.00
58477099--58477507	218	1.9	216	85	7	562	44	5	10	38	1.64
58485370--58485394	13	1.9	13	100	0	50	20	16	0	64	1.30
58489229--58489294	31	2.1	31	88	5	98	27	12	10	50	1.72
58489828--58489859	2	16.0	2	93	0	55	46	0	0	53	1.00
58490494--58490578	39	2.2	39	82	4	100	37	10	10	41	1.74
58493540--58493713	89	2.0	89	87	0	249	44	12	17	26	1.83
58495014--58495193	84	2.1	84	83	6	231	48	11	7	32	1.67
58495211--58495254	23	1.9	23	85	0	61	61	2	2	34	1.21
58495578--58495638	30	2.0	30	87	0	86	29	14	4	50	1.64
58496015--58496249	93	2.5	93	81	6	269	37	19	5	37	1.76
58496306--58496480	47	3.6	50	75	9	184	33	19	4	42	1.72
58496284--58496480	97	2.0	97	88	0	286	34	19	5	41	1.73
58497642--58497681	16	2.5	17	84	12	57	30	5	0	65	1.14
58497646--58497675	15	1.9	16	93	6	53	30	6	0	63	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58499865--58499914	23	2.2	23	85	0	64	52	2	0	46	1.12
58500392--58500483	48	1.9	47	91	2	148	47	14	9	28	1.75
58503454--58503539	30	2.8	31	80	1	111	37	6	17	38	1.77
58504292--58504336	22	2.0	22	91	0	72	48	4	11	35	1.59
58505258--58505317	31	1.9	31	82	0	75	30	13	11	45	1.79
58506526--58506579	18	2.7	19	78	16	56	53	0	5	40	1.24
58506530--58506589	30	1.9	32	83	6	79	58	0	3	38	1.15
58507129--58507154	5	5.2	5	100	0	52	80	0	0	19	0.71
58522410--58522495	29	2.9	30	69	10	77	40	18	18	22	1.91
58524249--58524274	3	8.7	3	100	0	52	30	0	0	69	0.89
58537354--58537391	18	2.1	18	85	14	51	34	0	2	63	1.09
58546719--58547101	134	2.8	134	88	3	540	36	12	19	32	1.88
58550112--58550142	2	15.5	2	100	0	62	0	48	0	51	1.00
58553528--58553573	21	2.1	21	84	8	56	28	0	10	60	1.30
58565641--58565675	17	2.1	17	94	0	61	62	0	0	37	0.95
58567099--58567607	35	14.4	35	66	14	179	48	11	11	28	1.74
58567202--58567284	16	4.9	17	70	16	59	57	12	9	20	1.62
58567099--58567608	17	28.9	17	66	14	160	48	11	11	28	1.74
58567504--58567602	37	2.8	36	80	6	103	40	10	15	34	1.80
58568357--58568439	26	3.2	24	83	10	103	2	19	0	78	0.86
58568374--58568415	13	3.5	12	90	9	68	4	16	0	78	0.91
58568355--58568436	44	1.9	43	85	7	114	2	19	0	78	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58568947--58569109	30	5.5	29	78	6	130	41	4	19	34	1.73
58568947--58569109	59	2.7	59	77	8	152	41	4	19	34	1.73
58579735--58579788	25	2.3	25	75	18	62	53	7	3	35	1.47
58580502--58580570	31	2.3	29	80	11	79	59	0	4	36	1.17
58590485--58590722	117	2.0	117	100	0	476	28	22	17	31	1.97
58594619--58594682	27	2.4	27	97	0	119	17	23	39	20	1.92
58594699--58594739	19	2.2	19	95	0	73	31	0	17	51	1.46
58606775--58606808	14	2.2	16	90	10	54	41	0	0	58	0.98
58614214--58614255	15	2.8	15	85	7	59	45	0	2	52	1.13
58614333--58614374	15	2.7	16	82	14	52	45	0	2	52	1.13
58614324--58614365	15	2.9	15	82	10	52	47	0	0	52	1.00
58614310--58614623	156	2.0	157	93	0	540	47	5	3	43	1.44
58614476--58614510	18	2.0	17	88	5	52	45	0	0	54	0.99
58614476--58614533	16	3.6	16	78	21	52	44	0	1	53	1.10
58614746--58614781	16	2.2	16	100	0	72	38	36	0	25	1.56
58619417--58619447	14	2.2	14	94	0	53	25	9	0	64	1.24
58619733--58619760	2	14.0	2	100	0	56	50	0	0	50	1.00
58620555--58620615	3	20.3	3	100	0	122	67	0	32	0	0.91
58625871--58626058	85	2.2	85	96	0	340	32	21	13	32	1.92
58626266--58626411	64	2.3	64	89	4	224	41	11	19	26	1.86
58635367--58635400	17	1.9	17	88	5	50	47	5	14	32	1.69
58647628--58647721	29	3.2	29	76	11	93	48	5	2	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58647628--58647721	30	3.2	29	79	7	91	48	5	2	43	1.37
58651303--58651347	2	22.5	2	100	0	90	51	0	0	48	1.00
58653185--58653304	59	2.0	59	100	0	240	46	25	6	21	1.75
58654409--58654484	29	2.6	29	89	0	107	36	7	3	51	1.50
58654884--58654908	13	1.9	13	100	0	50	28	0	24	48	1.52
58661313--58661347	18	1.9	18	94	0	61	5	31	34	28	1.81
58668348--58668399	22	2.3	23	86	6	70	28	25	0	46	1.53
58674282--58674319	6	6.7	6	85	11	53	63	0	0	36	0.95
58675772--58675820	20	2.4	20	79	3	53	18	10	12	59	1.60
58679965--58680043	31	2.6	30	82	11	90	43	2	2	51	1.28
58687163--58687200	4	9.8	4	82	5	51	21	0	2	76	0.91
58687238--58687275	15	2.6	15	91	4	60	15	5	5	73	1.19
58688048--58688074	14	1.9	14	100	0	54	25	29	14	29	1.95
58688884--58688929	16	2.7	18	76	10	51	17	2	10	69	1.27
58688872--58688932	12	5.3	12	72	18	58	16	1	8	73	1.14
58693725--58693871	33	4.4	33	72	7	109	28	23	14	33	1.94
58693645--58693903	101	2.6	101	82	3	292	27	23	16	32	1.96
58695219--58695271	23	2.5	20	75	24	54	64	1	11	22	1.36
58698607--58698694	43	2.0	43	100	0	176	43	13	22	20	1.87
58699101--58699129	14	2.0	15	93	6	51	68	0	0	31	0.89
58699631--58699660	15	2.0	15	100	0	60	46	0	6	46	1.29
58711340--58711554	39	5.5	39	95	0	367	27	28	26	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58716050--58716155	37	2.9	37	91	2	171	24	22	16	35	1.95
58716118--58716439	46	6.2	52	85	9	389	27	22	14	34	1.94
58716161--58716287	59	2.2	58	92	2	209	25	23	13	37	1.92
58716129--58716431	105	2.9	107	81	13	348	27	22	15	34	1.94
58723429--58723504	3	25.3	3	97	0	143	67	1	0	31	0.99
58728046--58728164	20	5.9	20	77	3	114	13	32	19	34	1.90
58735736--58735778	2	21.5	2	100	0	86	48	0	0	51	1.00
58741007--58741056	7	7.0	7	75	20	50	28	2	30	40	1.68
58747641--58747717	3	25.7	3	79	10	86	31	6	0	62	1.21
58752236--58752275	21	1.9	21	94	0	71	57	2	7	32	1.40
58753763--58753788	13	2.0	13	100	0	52	76	0	0	23	0.78
58755328--58756028	44	15.6	44	80	5	490	32	17	19	30	1.95
58755328--58756071	88	8.3	88	79	6	620	32	17	19	30	1.95
58755328--58756071	227	3.3	225	80	3	757	32	17	19	30	1.95
58755795--58755866	21	3.3	21	66	7	63	33	11	25	30	1.90
58755815--58755889	23	3.3	23	66	7	73	33	13	17	36	1.88
58756602--58756641	21	1.9	21	84	0	53	72	5	7	15	1.24
58757822--58757892	3	24.0	3	94	2	117	32	2	0	64	1.08
58763517--58763572	22	2.6	22	72	16	55	42	5	0	51	1.24
58766622--58766981	181	2.0	181	94	0	630	23	20	17	38	1.93
58770834--58771016	71	2.6	71	81	0	204	30	18	20	31	1.96
58776235--58776262	3	9.3	3	100	0	56	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58789280--58789338	21	2.8	21	89	0	91	37	3	20	38	1.69
58789322--58789366	18	2.5	18	89	7	65	37	8	17	35	1.81
58789522--58789573	18	2.9	18	85	5	70	15	13	44	26	1.84
58794922--58794947	2	13.0	2	100	0	52	50	0	0	50	1.00
58799490--58799519	7	4.1	7	95	4	51	0	20	0	80	0.72
58805839--58805874	17	2.1	18	89	5	56	36	2	33	27	1.72
58812487--58812678	48	4.0	48	94	1	332	29	29	11	29	1.92
58821075--58821100	2	13.0	2	100	0	52	0	0	50	50	1.00
58823224--58823335	54	2.1	54	100	0	224	50	7	1	40	1.40
58829474--58829506	17	1.9	17	93	0	57	48	24	6	21	1.72

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