genome.fa.s10.2.7.7.80.10.50.1000.129.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  129  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)
39983724--39983798	30	2.5	30	84	0	96	24	25	10	40	1.87
39983783--39983862	30	2.7	30	78	0	106	18	30	12	38	1.88
39983753--39983953	60	3.4	60	72	8	185	22	28	14	34	1.93
39983841--39983916	30	2.5	31	80	4	84	26	26	11	35	1.91
39983753--39983953	90	2.2	90	81	4	228	22	28	14	34	1.93
39991397--39991473	30	2.5	31	82	14	106	16	29	9	44	1.79
39991455--39991528	30	2.5	30	84	2	96	25	28	10	35	1.90
40006769--40006819	25	2.0	25	88	0	75	27	11	37	23	1.90
40009364--40009429	30	2.2	29	82	15	73	56	7	0	36	1.28
40018545--40018579	18	2.0	18	94	5	63	11	28	48	11	1.74
40022529--40022568	11	3.6	11	89	0	53	77	0	17	5	0.94
40022962--40023265	42	7.3	42	85	1	369	37	24	17	20	1.94
40022967--40023265	126	2.4	126	86	1	413	37	24	17	20	1.94
40023668--40023738	11	6.6	11	76	19	62	0	11	5	83	0.81
40024930--40025031	51	2.0	51	90	3	161	26	14	31	27	1.95
40039660--40039702	4	10.8	4	79	0	50	41	0	30	27	1.56
40044002--40044053	19	2.6	21	76	8	56	40	11	3	44	1.59
40044389--40044414	3	8.7	3	100	0	52	0	0	30	69	0.89
40044481--40044506	2	13.0	2	100	0	52	50	0	0	50	1.00
40044521--40044567	16	3.1	15	77	17	53	59	0	4	36	1.17
40052217--40052343	58	2.2	59	82	2	159	49	3	4	42	1.39
40055771--40055863	46	2.0	46	89	0	141	22	5	10	61	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40057285--40057379	46	2.1	46	86	4	129	24	6	8	61	1.48
40058094--40058136	10	4.4	9	81	16	50	6	6	2	83	0.88
40066799--40066848	16	3.2	16	76	18	52	56	2	2	40	1.22
40067158--40067210	24	2.2	24	86	6	72	37	5	11	45	1.64
40071023--40071076	19	2.8	19	94	0	99	37	9	16	37	1.81
40071012--40071083	38	2.0	36	84	10	94	37	9	16	36	1.82
40080375--40080443	20	3.3	20	72	21	61	26	0	4	69	1.07
40080383--40080442	17	3.5	17	79	6	68	26	0	5	68	1.10
40084579--40084625	23	2.0	23	92	8	78	38	12	38	10	1.78
40088085--40088119	8	4.2	8	85	7	52	45	2	0	51	1.16
40089277--40090089	114	7.1	114	89	2	1181	24	22	24	28	1.99
40090671--40090714	14	3.1	14	83	3	52	29	2	31	36	1.70
40090858--40090897	7	5.7	7	90	0	53	25	0	45	30	1.54
40090915--40091134	83	2.6	85	89	7	329	29	1	25	44	1.63
40091542--40091720	84	2.1	83	84	6	218	28	16	21	33	1.95
40093251--40093400	25	6.2	25	70	18	104	46	20	2	32	1.62
40093251--40093549	9	34.8	9	66	19	149	46	19	2	32	1.63
40093313--40093517	41	5.2	41	74	14	148	46	19	2	31	1.63
40093411--40093560	25	5.9	25	74	13	121	46	20	2	30	1.64
40093270--40093589	34	9.4	34	69	15	191	46	18	2	32	1.61
40093257--40093545	16	17.9	16	66	24	128	46	19	2	31	1.61
40093742--40093805	25	2.5	26	89	2	103	43	15	1	39	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40095368--40095665	43	6.9	43	81	4	314	29	19	29	21	1.97
40095397--40095662	129	2.1	129	85	4	349	28	18	30	22	1.97
40098660--40098709	26	1.9	26	87	0	73	54	4	6	36	1.44
40098660--40098709	13	3.8	13	78	0	55	54	4	6	36	1.44
40101466--40101496	15	2.0	16	93	6	55	0	16	0	83	0.64
40101746--40101795	24	2.0	25	84	3	66	68	8	4	20	1.32
40103077--40103103	9	3.0	9	100	0	54	66	0	0	33	0.92
40105784--40105817	17	1.9	18	88	5	52	55	20	2	20	1.56
40106266--40106312	3	15.3	3	78	12	51	61	2	4	31	1.27
40106294--40106333	21	1.9	21	84	0	53	62	2	2	32	1.22
40107790--40107908	41	2.8	42	81	8	134	20	24	23	31	1.98
40107887--40107988	44	2.4	43	84	11	122	28	21	21	28	1.99
40107706--40108362	223	3.0	222	82	2	755	28	20	18	32	1.96
40108161--40108541	179	2.1	179	91	0	602	31	19	17	31	1.95
40107932--40108764	402	2.1	402	89	0	1265	30	20	17	32	1.95
40108334--40109037	223	3.2	222	88	2	1045	30	20	17	32	1.95
40108025--40108808	42	17.6	44	68	12	273	30	20	17	32	1.95
40107717--40108981	625	2.0	621	85	2	1692	29	20	17	32	1.96
40107932--40108981	402	2.6	396	81	6	965	30	20	16	32	1.95
40110259--40110385	45	2.7	45	85	4	164	13	25	21	40	1.89
40111346--40111389	11	4.0	11	80	11	54	0	22	0	77	0.77
40111346--40111388	5	8.0	5	80	14	50	0	20	0	79	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40111345--40111387	22	2.0	21	90	4	68	0	18	0	81	0.69
40111346--40111414	22	2.8	25	79	16	65	5	20	0	73	1.03
40111344--40111415	6	12.0	6	76	16	51	5	20	0	73	1.03
40114297--40114339	19	2.3	18	80	11	50	39	6	20	32	1.80
40115678--40115702	12	2.1	12	100	0	50	40	0	8	52	1.31
40116237--40116270	17	1.9	18	88	5	52	55	20	2	20	1.56
40116728--40116777	3	16.3	3	80	12	57	62	2	4	32	1.25
40116742--40116792	25	2.0	25	88	7	77	60	0	3	35	1.15
40116759--40116800	21	2.0	21	81	9	50	59	2	2	35	1.23
40120788--40120861	33	2.2	33	85	7	96	14	22	4	58	1.54
40120835--40120921	27	3.1	27	71	12	68	11	22	1	64	1.33
40128046--40128075	15	1.9	16	93	6	53	73	0	3	23	0.98
40130580--40130626	23	2.0	23	100	0	94	25	8	8	57	1.57
40139556--40139645	27	3.3	27	81	9	112	17	21	17	43	1.88
40146190--40146288	41	2.4	40	85	6	126	31	22	19	27	1.98
40146500--40146689	67	2.9	63	70	14	145	40	15	8	35	1.78
40146647--40146734	40	2.2	40	95	4	160	42	14	10	32	1.80
40147616--40147689	31	2.4	31	95	2	130	33	8	4	54	1.49
40154237--40154262	2	13.0	2	100	0	52	50	0	0	50	1.00
40154649--40154751	41	2.5	41	93	0	170	33	22	18	26	1.97
40154963--40155148	63	2.9	63	75	11	171	39	16	6	37	1.75
40162167--40162230	27	2.4	27	78	5	67	25	21	12	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40162419--40162480	26	2.4	26	86	0	79	35	25	12	25	1.92
40162397--40162629	53	4.4	53	75	4	195	30	22	12	33	1.92
40162557--40162623	27	2.5	26	78	7	73	28	22	13	35	1.92
40164487--40164562	33	2.3	34	81	6	84	17	7	36	38	1.79
40168207--40168261	27	2.0	27	89	0	83	32	16	14	36	1.89
40171767--40171850	33	2.5	33	88	0	114	16	10	33	39	1.83
40171767--40171868	33	3.1	34	83	7	102	18	10	33	37	1.86
40185388--40185540	43	3.6	43	87	2	202	30	24	18	26	1.98
40187639--40187677	7	5.6	7	100	0	78	71	0	0	28	0.86
40191258--40191288	6	5.0	6	92	7	53	51	0	0	48	1.00
40191258--40191288	13	2.5	12	94	5	53	51	0	0	48	1.00
40198251--40198331	43	1.9	43	89	2	128	53	2	22	22	1.58
40202143--40202175	11	2.8	12	86	9	50	18	6	0	75	1.00
40203129--40203211	6	14.5	6	70	12	50	74	7	2	15	1.14
40203131--40203165	16	2.3	15	90	5	52	77	5	0	17	0.96
40203129--40203211	24	3.7	22	75	9	78	74	7	2	15	1.14
40203176--40203213	17	2.3	17	86	4	51	76	5	2	15	1.08
40211115--40211258	72	2.0	72	94	0	252	32	15	11	39	1.84
40217453--40217499	25	2.0	24	84	16	62	42	0	19	38	1.51
40217484--40217532	20	2.5	20	83	6	64	51	2	22	24	1.59
40221163--40221188	2	13.0	2	100	0	52	50	0	50	0	1.00
40226908--40226940	15	2.2	15	94	0	57	51	0	6	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40227702--40227787	43	2.0	43	90	0	136	48	1	24	25	1.58
40229865--40229903	20	2.0	20	94	0	69	43	15	12	28	1.83
40231847--40231901	23	2.3	23	84	3	74	30	12	29	27	1.93
40234890--40234922	14	2.2	16	89	10	52	30	3	0	66	1.06
40237535--40237828	126	2.3	126	91	0	473	34	19	19	26	1.96
40241194--40241240	21	2.2	21	88	0	67	2	23	44	29	1.65
40241494--40241536	18	2.4	18	88	0	59	44	9	27	18	1.80
40243379--40243415	11	3.4	11	92	0	65	40	0	35	24	1.55
40243381--40243437	22	2.5	24	83	13	77	43	0	31	24	1.54
40244631--40244663	11	2.9	12	86	13	52	66	0	0	33	0.92

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   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