genome.fa.s10.2.7.7.80.10.50.1000.156.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  156  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)
48796524--48796570	2	23.5	2	100	0	94	51	0	0	48	1.00
48796887--48796923	13	2.7	14	84	16	51	21	5	5	67	1.31
48796930--48796963	15	2.3	15	94	0	59	23	0	11	64	1.26
48797273--48797469	98	2.0	98	96	2	360	27	10	24	38	1.87
48799052--48799097	24	1.9	24	90	0	74	50	13	19	17	1.78
48801437--48801470	6	5.7	6	100	0	68	85	14	0	0	0.60
48801443--48801497	18	3.0	19	84	5	60	78	7	9	5	1.10
48804006--48804280	3	92.3	3	79	6	247	28	3	4	64	1.28
48804380--48804406	2	13.5	2	100	0	54	48	0	0	51	1.00
48804524--48804570	2	23.5	2	100	0	94	51	0	0	48	1.00
48804887--48804923	13	2.7	14	84	16	51	21	5	5	67	1.31
48804930--48804963	15	2.3	15	94	0	59	23	0	11	64	1.26
48805238--48805434	98	2.0	98	94	0	349	27	10	23	37	1.88
48816769--48816928	83	1.9	84	88	1	241	34	23	20	22	1.97
48816769--48816928	42	3.9	41	87	2	221	34	23	20	22	1.97
48816900--48817075	42	4.2	41	82	3	199	23	19	22	34	1.96
48816900--48817077	84	2.1	83	84	3	232	24	19	21	34	1.97
48817294--48817340	21	2.2	21	88	0	67	46	0	14	38	1.45
48822935--48823606	146	4.6	147	93	3	1078	24	17	15	43	1.87
48822935--48823606	291	2.3	292	91	4	1092	24	17	15	43	1.87
48825372--48825841	148	3.2	146	86	5	684	22	18	14	43	1.87
48846961--48847044	27	3.1	27	92	0	141	14	22	40	22	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48846961--48847063	27	3.8	27	87	2	136	17	22	37	22	1.94
48847125--48847171	18	2.5	20	79	10	62	63	2	34	0	1.06
48847121--48847174	22	2.4	23	84	12	76	64	1	33	0	1.04
48854024--48854163	8	16.4	8	65	17	50	50	15	0	32	1.49
48854050--48854253	27	8.1	26	79	15	225	52	12	0	33	1.46
48854050--48854243	76	2.6	76	91	4	317	53	12	1	32	1.46
48854003--48854253	49	5.1	49	80	12	223	52	14	0	32	1.47
48854332--48854389	22	2.7	22	89	2	82	62	8	0	29	1.25
48854557--48854591	3	12.3	3	88	11	56	0	34	0	65	0.93
48854561--48854591	11	2.8	11	100	0	62	0	35	0	64	0.94
48854553--48854603	14	3.9	13	80	17	61	0	35	0	64	0.94
48854927--48854993	27	2.5	28	76	16	79	22	11	10	55	1.66
48855115--48855147	15	2.2	15	94	0	57	72	0	27	0	0.85
48857578--48857616	21	1.9	21	89	5	62	58	10	2	28	1.44
48859451--48859502	24	2.2	24	89	0	77	53	7	3	34	1.48
48861418--48861469	24	2.2	24	89	0	77	55	9	1	32	1.43
48869431--48869478	21	2.4	19	75	6	51	50	2	4	43	1.33
48870583--48870624	11	4.0	11	75	12	52	52	23	7	16	1.68
48870637--48870939	151	2.0	151	98	0	579	26	16	17	39	1.90
48874887--48874931	18	2.5	18	82	7	56	40	17	4	37	1.70
48882577--48882625	25	2.0	24	84	15	64	44	2	0	53	1.12
48888158--48888189	12	2.7	12	95	0	55	21	18	37	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48895834--48897982	759	2.8	754	84	4	2708	22	14	21	41	1.89
48898891--48898924	12	2.9	12	91	4	52	5	17	0	76	0.98
48897976--48903007	768	6.6	767	83	3	6142	22	14	20	41	1.89
48903402--48903436	12	2.9	12	91	0	52	0	22	0	77	0.78
48904753--48904852	41	2.4	41	94	0	173	17	23	29	31	1.96
48903271--48906950	755	4.8	762	80	8	3731	23	14	21	41	1.90
48907172--48907202	15	2.1	15	93	0	53	70	0	3	25	1.02
48909006--48909061	5	11.0	5	81	11	60	76	0	5	17	0.96
48909006--48909060	11	4.8	11	81	14	67	78	0	5	16	0.93
48913232--48913263	16	2.0	16	93	0	55	71	6	3	18	1.20
48915513--48915547	12	2.9	12	91	0	52	0	22	0	77	0.78
48916281--48916314	12	2.8	12	90	0	50	0	23	0	76	0.79
48914431--48916913	768	3.2	766	88	1	3578	23	14	21	40	1.90
48924880--48925034	43	3.7	41	76	10	152	24	18	27	29	1.98
48924922--48925026	41	2.5	42	82	3	113	25	18	26	29	1.98
48925196--48925227	16	1.9	17	93	6	57	40	0	21	37	1.54
48928078--48928110	16	2.0	17	88	5	50	57	6	0	36	1.23
48931730--48931777	21	2.3	22	82	17	66	37	12	27	22	1.90
48933480--48933536	26	2.2	26	100	0	114	33	0	15	50	1.44
48942045--48942099	26	2.1	27	83	10	69	38	5	21	34	1.77
48944901--48944933	17	1.9	17	100	0	66	45	6	0	48	1.27
48948472--48948545	29	2.6	29	83	8	98	58	14	12	14	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48949470--48949500	9	3.4	9	90	0	53	25	12	22	38	1.90
48949554--48949590	9	4.1	9	92	0	65	45	13	10	29	1.77
48959795--48959841	23	2.0	23	95	0	85	48	14	4	31	1.63
48966034--48966278	89	2.7	89	88	4	325	25	5	11	57	1.56
48966241--48966294	16	3.2	17	79	7	58	25	5	9	59	1.50
48966314--48966363	19	2.5	20	75	21	50	56	0	6	38	1.24
48968902--48968954	19	2.7	20	82	5	63	56	16	18	7	1.63
48969437--48969595	79	2.0	78	85	1	210	42	16	13	28	1.85
48973203--48973280	6	13.5	6	80	10	83	32	14	5	48	1.65
48973203--48973267	23	2.8	23	97	0	121	32	12	4	50	1.60
48975342--48975405	22	2.8	23	90	4	94	48	1	1	48	1.20
48975379--48975435	16	3.6	16	92	0	96	45	3	5	45	1.43
48975468--48975638	18	9.3	18	63	21	61	39	4	7	49	1.49
48975460--48975643	93	2.0	93	96	0	341	39	4	7	48	1.52
48978768--48978798	16	1.9	16	100	0	62	12	3	32	51	1.56
48983702--48983829	37	3.1	42	65	12	104	56	8	7	28	1.56
48983669--48983888	80	2.8	79	85	3	271	56	9	7	27	1.57
48984121--48984192	33	2.2	33	87	5	101	23	12	48	15	1.79
48986793--48986842	27	1.9	26	84	8	66	54	2	0	44	1.11
48986816--48986869	16	3.1	18	73	21	53	55	1	1	40	1.21
48986820--48986856	14	2.5	15	84	16	51	54	2	0	43	1.14
48986817--48986854	16	2.5	15	87	8	58	52	2	0	44	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48995510--48995561	11	4.7	11	79	9	52	25	30	1	42	1.66
48995506--48995561	22	2.6	22	78	15	64	25	28	1	44	1.64
48995532--48995609	40	2.0	40	84	5	104	25	26	1	46	1.61
48996517--48996554	20	1.9	20	89	10	60	36	2	5	55	1.37
48996723--48996748	7	3.7	7	100	0	52	26	0	15	57	1.38
48997395--48997437	18	2.4	18	84	0	50	18	25	9	46	1.79
48997988--48998518	171	3.1	169	86	3	708	45	30	1	23	1.61
48997988--48998518	21	24.9	21	84	4	679	45	30	1	23	1.61
48998575--48998615	22	1.9	21	85	5	55	43	31	2	21	1.66
48999438--48999697	21	12.3	21	83	5	337	43	32	0	23	1.57
48999435--48999697	64	4.1	64	83	4	329	43	32	0	23	1.57
49003212--49003261	24	2.1	24	81	7	57	56	2	0	42	1.11
49004195--49004242	22	2.3	22	82	10	57	41	4	6	47	1.48
49004245--49004290	23	2.1	23	88	8	69	58	0	0	41	0.98
49005325--49005349	8	3.1	8	100	0	50	36	0	0	64	0.94
49006973--49007007	18	2.0	17	94	5	61	42	0	0	57	0.99
49013200--49013345	43	3.4	43	92	0	229	26	29	21	22	1.99
49013689--49013737	21	2.3	21	85	0	62	4	40	18	36	1.70
49013708--49013854	66	2.2	66	85	2	188	14	27	16	40	1.88
49013735--49013877	66	2.2	66	82	2	162	18	25	15	41	1.89
49014154--49014236	38	2.2	38	97	0	157	56	8	9	25	1.59
49017422--49017464	15	2.9	15	78	0	50	58	0	2	39	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49017625--49017673	23	2.1	25	82	14	61	44	0	20	34	1.52
49017640--49017803	69	2.4	69	87	0	238	44	4	7	42	1.55
49018387--49018444	26	2.2	26	96	0	107	41	3	15	39	1.64
49018817--49018841	12	2.1	12	100	0	50	60	8	8	24	1.52
49019244--49019289	24	1.9	24	91	8	76	28	0	43	28	1.55
49019980--49020006	4	6.8	4	100	0	54	22	0	0	77	0.76
49020468--49020543	36	2.1	36	97	0	143	31	28	18	21	1.97
49020777--49020811	17	2.1	17	94	0	61	28	51	0	20	1.47
49020777--49020821	17	2.8	16	83	6	56	31	46	0	22	1.52
49021509--49021548	19	2.0	21	85	9	57	35	5	5	55	1.44

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