genome.fa.s13.2.7.7.80.10.50.1000.167.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  167  of  199  ( 23770 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)
48925810--48926209	19	21.2	19	66	23	154	54	12	0	32	1.42
48925687--48926073	49	8.1	49	79	13	387	52	13	0	32	1.46
48926121--48926207	20	4.2	21	82	11	99	57	11	0	31	1.34
48925968--48926208	83	2.8	83	72	17	217	54	12	0	31	1.42
48926377--48926408	14	2.2	15	94	5	57	0	40	0	59	0.97
48936012--48936058	22	2.1	23	84	7	62	53	0	4	42	1.20
48940326--48940382	30	1.9	30	82	7	71	26	8	21	43	1.81
48942188--48942223	5	7.2	5	100	0	72	61	0	0	38	0.96
48945167--48945226	21	2.9	21	92	0	93	3	40	20	36	1.69
48948919--48948973	22	2.5	22	88	2	76	45	40	0	14	1.45
48948927--48948960	14	2.3	15	90	5	52	44	41	0	14	1.45
48948919--48948982	22	3.0	21	81	6	74	45	40	0	14	1.44
48949420--48949872	114	4.0	111	73	11	353	28	22	17	31	1.97
48949427--48949857	229	1.9	227	83	8	561	28	22	17	31	1.97
48949828--48949985	75	2.1	75	80	0	172	28	22	14	34	1.94
48949709--48950080	188	2.0	186	80	5	410	26	22	15	34	1.94
48949897--48950170	113	2.4	113	81	2	291	27	21	15	35	1.93
48951120--48951187	25	2.8	24	70	12	59	54	1	7	36	1.37
48951248--48951287	21	1.9	21	89	0	62	65	5	7	22	1.38
48951336--48951371	12	3.0	12	91	0	63	55	0	11	33	1.35
48961487--48961558	36	2.0	36	97	0	135	31	23	16	27	1.96
48967891--48968287	45	8.9	45	85	2	462	29	22	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48974888--48974976	41	2.2	40	95	2	160	40	35	7	15	1.77
48974898--48974994	41	2.4	41	87	5	135	45	36	4	14	1.64
48975335--48975376	21	2.0	21	90	4	66	61	11	9	16	1.55
48976736--48977053	108	2.9	108	86	5	453	28	17	19	33	1.95
48987259--48987294	17	2.2	17	90	9	58	83	0	0	16	0.65
48988511--48988758	44	5.7	44	75	5	216	27	21	25	26	1.99
48988514--48988782	131	2.1	128	81	4	308	26	22	23	27	2.00
48989054--48989138	41	2.1	40	95	2	152	44	37	4	12	1.64
48990907--48991211	108	2.8	109	91	3	474	29	17	20	33	1.95
48991968--48992308	169	2.0	169	97	0	637	19	21	18	40	1.92
49000216--49000323	41	2.6	41	95	0	189	34	17	18	29	1.94
49007266--49007303	18	2.1	19	90	5	60	36	21	31	10	1.87
49011001--49011043	20	2.2	20	91	0	68	67	0	0	32	0.91
49011483--49011548	29	2.2	30	81	5	80	37	0	4	57	1.19
49011668--49011738	29	2.3	30	83	7	81	19	18	14	47	1.82
49013629--49013855	33	6.8	32	65	19	90	27	22	15	34	1.94
49013677--49013788	35	3.3	35	68	14	115	25	23	16	34	1.95
49013661--49013821	68	2.4	66	97	0	259	24	23	16	34	1.95
49018623--49018669	15	3.1	15	81	3	58	36	14	0	48	1.44
49018629--49018682	15	3.4	16	80	10	58	31	18	1	48	1.59
49020354--49020595	50	4.7	50	86	3	286	21	29	22	26	1.99
49022270--49022308	19	2.0	20	90	5	62	33	28	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49025017--49025071	26	2.1	26	83	10	67	40	21	10	27	1.87
49027652--49027822	43	4.0	42	77	11	170	23	17	26	32	1.97
49027665--49027826	84	1.9	84	83	5	211	23	17	27	31	1.97
49029631--49029721	42	2.2	42	98	2	175	18	20	10	49	1.78
49033879--49033935	19	3.1	19	82	7	64	57	8	0	33	1.29
49037312--49037341	11	2.6	12	89	10	53	10	10	10	70	1.36
49040337--49040375	19	2.0	21	85	10	55	30	7	17	43	1.77
49042915--49042944	7	4.3	7	95	0	51	16	53	0	30	1.44
49052773--49052839	9	7.4	9	87	0	89	25	7	22	44	1.78
49052773--49052840	27	2.5	27	92	0	109	25	7	22	45	1.77
49059879--49059927	16	3.1	16	90	0	71	36	2	34	26	1.68
49060081--49060145	27	2.4	26	76	5	67	50	3	0	46	1.17
49060094--49060321	121	1.9	121	93	5	401	48	5	2	43	1.39
49060224--49060264	15	2.7	15	85	7	57	51	0	0	48	1.00
49060694--49060718	13	1.9	13	100	0	50	32	32	24	12	1.91
49065389--49066184	16	51.9	16	71	19	483	30	1	17	50	1.53
49065687--49066157	184	2.6	183	84	7	607	31	1	17	50	1.53
49065734--49066066	44	7.2	44	84	7	387	30	0	16	51	1.51
49065982--49066054	21	3.4	21	74	7	65	32	1	15	50	1.52
49066053--49066190	9	16.0	9	70	17	96	33	2	18	45	1.62
49065449--49066161	41	17.7	41	73	19	275	30	0	17	50	1.53
49066040--49066163	25	5.0	25	77	9	103	33	0	19	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49066111--49066183	20	4.1	19	73	22	77	31	1	16	50	1.53
49066185--49066214	12	2.5	12	88	0	51	40	6	10	43	1.64
49066607--49067052	153	3.0	151	90	3	666	31	8	6	53	1.58
49067326--49067414	18	4.8	18	81	14	110	42	0	12	44	1.42
49067318--49067450	39	3.5	37	82	13	146	43	0	12	43	1.46
49067328--49067379	22	2.4	22	78	12	61	44	0	13	42	1.44
49074692--49074726	8	4.4	8	85	0	52	82	0	17	0	0.66
49075251--49075303	21	2.5	21	100	0	106	22	0	37	39	1.54
49075705--49075760	17	3.4	16	78	14	60	67	1	3	26	1.16
49075708--49075768	16	3.8	15	79	14	68	70	1	3	24	1.11
49075708--49075775	33	2.1	33	83	8	86	69	1	4	25	1.16
49076313--49076373	26	2.5	24	82	12	79	57	0	1	40	1.08
49081721--49081791	6	11.7	6	76	8	72	19	4	1	74	1.06
49083461--49083869	46	8.9	46	91	0	656	27	17	27	27	1.98
49084888--49085131	41	6.0	40	87	7	253	33	26	19	20	1.97
49084888--49085131	82	3.0	82	83	5	307	33	26	19	20	1.97
49087037--49087418	46	8.3	46	86	2	518	27	15	27	29	1.96
49087471--49087714	44	5.6	43	76	8	197	30	18	24	27	1.97
49087403--49087682	132	2.1	132	91	0	461	32	16	23	27	1.96
49089474--49089502	2	15.0	2	92	7	51	48	0	0	51	1.00
49089474--49089523	14	3.4	14	80	5	55	42	4	0	54	1.19
49094484--49094608	60	2.1	60	98	1	243	41	15	16	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49096175--49096204	15	2.0	15	100	0	60	46	0	20	33	1.51
49097935--49097978	23	2.0	22	90	4	70	56	2	6	34	1.38
49100403--49100456	23	2.4	23	90	3	83	50	1	1	46	1.23
49101198--49101378	53	3.7	53	72	21	194	48	8	3	39	1.51
49101212--49101395	93	2.0	93	96	0	341	48	8	4	38	1.54
49101217--49101387	18	9.3	18	63	23	63	48	8	4	39	1.52
49101422--49101499	22	3.2	23	80	12	86	51	2	2	43	1.29
49106905--49106991	44	2.0	44	90	0	138	13	14	18	52	1.74
49108683--49108713	16	1.9	16	93	0	53	48	0	3	48	1.17
49108733--49108766	3	11.7	3	87	6	52	64	0	0	35	0.94
49108733--49108766	15	2.4	14	95	5	59	64	0	0	35	0.94
49109899--49109928	3	10.0	3	100	0	60	0	33	0	66	0.92
49110801--49110840	20	2.1	19	90	4	62	25	2	27	45	1.66
49117410--49117486	25	3.1	25	83	3	84	35	5	16	42	1.71
49117414--49117502	25	3.5	24	76	11	72	35	5	16	41	1.72
49117488--49117517	12	2.5	12	94	0	51	40	6	10	43	1.64
49117631--49117674	22	2.0	22	81	0	52	56	2	4	36	1.32
49117772--49117868	18	5.3	18	80	12	108	42	1	11	45	1.47
49117764--49117868	35	2.8	37	87	9	142	43	0	10	44	1.45
49128579--49128656	34	2.3	34	93	0	129	34	1	3	60	1.23
49128869--49128934	33	1.9	35	87	6	100	45	12	4	37	1.62
49134168--49134224	27	2.1	29	83	9	75	52	35	3	8	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49135049--49135105	22	2.6	22	77	0	69	38	7	1	52	1.39
49135067--49135116	26	2.0	25	84	4	64	32	10	2	56	1.44
49151836--49151874	18	2.2	17	86	13	53	33	0	20	46	1.51
49151979--49152007	8	3.6	8	100	0	58	24	13	27	34	1.93
49173553--49173621	34	2.0	34	100	0	138	55	20	10	14	1.68
49173561--49173619	20	3.2	20	68	26	67	54	20	8	16	1.68
49178563--49178957	26	15.2	26	70	13	181	28	7	4	58	1.45
49178563--49178626	29	2.4	28	87	10	89	28	4	0	67	1.11
49178678--49178756	29	2.8	29	81	13	101	29	2	3	64	1.24
49178766--49178819	28	1.9	28	88	0	81	25	7	7	59	1.51

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