genome.fa.s8.2.7.7.80.10.50.1000.48.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  48  of  190  ( 22705 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)
13628208--13628265	25	2.4	25	79	2	64	17	27	20	34	1.95
13628247--13628311	25	2.6	25	78	2	78	12	23	23	41	1.87
13628332--13628398	24	2.8	24	84	4	82	19	28	20	31	1.97
13633320--13633350	2	15.5	2	93	0	53	54	0	0	45	0.99
13633320--13633367	8	5.9	8	82	4	51	52	0	4	43	1.20
13634274--13634320	2	23.5	2	100	0	94	51	0	0	48	1.00
13636509--13636541	2	16.5	2	100	0	66	51	0	0	48	1.00
13637451--13637510	31	1.9	31	89	0	93	46	6	8	38	1.60
13637489--13637541	24	2.1	26	83	13	67	66	7	3	22	1.34
13638037--13638097	31	2.0	31	90	0	95	49	4	4	40	1.46
13646326--13646374	14	3.5	14	75	25	50	0	10	10	79	0.93
13646949--13646980	3	10.7	3	100	0	64	68	0	0	31	0.90
13654760--13654804	10	4.9	10	78	15	53	31	0	2	66	1.04
13654915--13655125	9	22.6	9	68	21	64	34	1	2	61	1.19
13654920--13654988	19	3.6	19	73	11	52	39	2	0	57	1.13
13654953--13654994	19	2.3	19	83	4	50	28	4	2	64	1.26
13654980--13655079	18	5.2	20	73	13	95	34	0	5	61	1.18
13654971--13655028	10	5.9	10	73	18	50	36	0	5	58	1.20
13654971--13655080	37	2.8	39	77	10	109	34	0	4	60	1.17
13654970--13655110	37	3.7	36	73	16	108	34	0	4	60	1.16
13655894--13655935	22	1.9	22	90	0	66	40	7	30	21	1.80
13656253--13656284	15	2.1	15	94	0	55	21	15	12	50	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13665326--13665369	22	2.0	22	90	0	70	34	20	9	36	1.84
13671854--13671880	6	4.5	6	100	0	54	29	0	0	70	0.88
13676748--13676780	17	1.9	17	88	11	50	33	30	18	18	1.94
13691344--13691403	31	1.9	31	83	6	77	38	0	3	58	1.15
13691796--13691844	23	2.1	23	88	0	71	36	10	2	51	1.48
13692795--13692843	23	2.1	23	81	7	55	65	0	16	18	1.28
13696805--13696840	2	18.5	2	94	5	65	50	0	0	50	1.00
13697210--13697240	16	1.9	16	93	0	53	48	16	6	29	1.70
13697409--13697463	19	2.9	19	84	10	60	36	1	7	54	1.39
13697449--13697474	11	2.4	11	100	0	52	30	0	7	61	1.24
13699889--13699971	24	3.3	24	79	11	78	26	6	3	63	1.34
13699899--13699956	26	2.3	24	88	5	80	25	3	5	65	1.29
13699918--13699986	26	2.6	26	83	2	75	30	4	5	59	1.40
13699899--13700000	52	2.0	50	80	3	114	29	3	4	61	1.35
13699990--13700037	21	2.3	19	77	19	51	39	2	4	54	1.32
13700030--13700092	25	2.7	23	74	13	65	22	0	6	71	1.08
13700147--13700180	17	2.0	17	94	0	59	35	5	2	55	1.39
13703582--13703650	13	4.9	14	70	16	54	78	0	20	1	0.83
13703583--13703655	28	2.6	28	82	4	94	76	0	21	1	0.86
13704533--13705072	143	3.8	143	88	2	746	30	21	21	26	1.98
13704829--13705303	232	2.1	232	89	2	724	29	20	23	26	1.99
13704972--13706150	89	12.8	89	69	13	535	29	20	22	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13704974--13705962	44	21.4	44	65	13	202	29	20	23	27	1.99
13704686--13705446	375	2.0	374	84	4	989	30	20	22	26	1.98
13705061--13705728	143	4.7	143	87	2	907	29	19	22	27	1.98
13704543--13705589	518	2.0	518	86	2	1480	30	20	22	26	1.98
13704543--13705840	518	2.5	513	82	5	1368	30	20	22	26	1.98
13705687--13705936	45	5.6	45	68	10	163	30	20	24	25	1.99
13705945--13706182	44	5.3	44	73	12	139	30	21	18	30	1.97
13706028--13706150	46	2.7	46	84	3	160	30	19	20	29	1.97
13707635--13707702	24	2.7	25	80	11	77	26	5	4	63	1.36
13707645--13707702	26	2.3	24	85	5	71	25	5	5	63	1.36
13707736--13707785	19	2.6	19	84	6	66	38	2	2	58	1.21
13707844--13707885	22	1.9	23	85	9	61	28	7	4	59	1.44
13707891--13707924	17	2.0	17	94	0	59	35	5	2	55	1.39
13712314--13712343	2	15.0	2	100	0	60	50	0	0	50	1.00
13713973--13714504	40	12.8	39	80	9	506	21	21	23	33	1.97
13713975--13714505	168	3.2	167	87	6	749	22	20	23	33	1.97
13713952--13714504	124	4.4	126	88	5	754	21	20	24	33	1.97
13713975--13714508	84	6.4	83	84	8	635	21	20	23	33	1.97
13714726--13714832	44	2.4	46	75	13	114	23	23	23	29	1.99
13714784--13715496	88	8.1	88	85	1	871	23	23	23	28	1.99
13714921--13715227	44	7.0	43	64	14	106	24	25	23	25	2.00
13715921--13716116	108	1.8	108	85	2	277	45	10	17	26	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13716082--13716182	45	2.3	43	80	10	112	52	8	12	25	1.68
13716454--13716509	18	3.1	18	87	7	69	1	12	3	82	0.88
13716454--13716510	25	2.3	25	84	6	80	1	14	3	80	0.92
13718244--13718427	62	3.0	62	97	0	341	31	6	21	40	1.79
13732905--13732936	16	2.0	17	88	11	50	43	12	15	28	1.83
13740423--13740461	18	2.0	20	85	9	55	48	10	12	28	1.74
13752475--13752514	14	2.9	14	84	0	53	32	7	17	42	1.77
13752483--13752549	35	1.9	35	87	3	100	31	10	13	44	1.77
13752498--13752537	20	2.0	20	85	0	53	27	12	12	47	1.77
13753890--13753959	27	2.6	27	80	8	79	51	20	2	25	1.61
13755610--13755679	35	2.1	34	85	12	94	40	2	12	44	1.58
13755704--13755779	34	2.2	34	97	0	143	31	2	11	53	1.51
13755779--13755845	20	3.2	23	61	30	58	43	10	8	37	1.71
13762623--13762762	63	2.2	63	96	0	253	52	12	18	17	1.75
13769288--13770837	670	2.3	660	81	5	1760	38	12	12	35	1.82
13778925--13779058	58	2.2	60	82	11	152	44	2	5	48	1.37
13779460--13779497	12	3.3	12	82	14	53	76	13	0	10	1.02
13779500--13779543	12	3.4	12	79	14	52	50	36	4	9	1.55
13779638--13779750	4	27.8	4	70	15	54	23	8	0	67	1.24
13779638--13779686	25	2.0	25	84	8	64	22	12	0	65	1.26
13779688--13779719	15	2.1	15	94	0	55	28	0	0	71	0.86
13782945--13782983	11	3.5	11	82	0	51	15	10	15	58	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13785026--13785068	20	2.1	21	82	4	52	51	16	11	20	1.75
13787553--13787739	40	4.6	40	76	10	164	33	28	14	22	1.94
13793023--13793157	40	3.3	40	80	5	155	31	26	17	25	1.97
13793673--13793711	16	2.4	16	86	4	51	46	15	0	38	1.46
13799879--13799908	14	2.2	14	94	5	53	33	0	13	53	1.40
13802723--13802762	22	1.9	21	85	10	55	17	5	2	75	1.10
13807244--13807535	50	5.9	49	80	7	259	30	21	27	20	1.98
13809385--13809414	12	2.5	12	94	0	51	23	40	30	6	1.80
13810401--13810427	9	3.0	9	100	0	54	33	11	22	33	1.89
13816628--13816687	30	2.0	30	93	0	102	26	3	15	55	1.56
13824414--13824491	34	2.3	34	90	0	120	34	2	16	46	1.61
13824412--13824526	34	3.5	31	82	10	99	32	3	18	46	1.66
13824765--13824847	36	2.3	36	81	4	87	30	7	19	43	1.78
13824818--13824855	18	2.1	18	90	0	58	36	13	13	36	1.83
13825475--13825522	17	2.9	16	75	9	51	39	10	6	43	1.64
13841118--13841144	14	1.9	14	100	0	54	44	18	7	29	1.77
13856977--13857001	13	1.9	13	100	0	50	16	16	0	68	1.22
13866463--13866519	30	1.9	30	82	13	73	47	3	0	49	1.18
13866817--13866859	21	2.0	21	82	8	52	67	4	4	23	1.28
13877434--13877461	14	2.0	14	100	0	56	35	7	28	28	1.84
13890110--13890138	14	2.0	15	93	6	51	27	6	20	44	1.77
13899621--13899680	27	2.3	27	97	2	113	38	10	16	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13901212--13901237	12	2.2	12	100	0	52	23	0	15	61	1.33
13907401--13907431	12	2.5	12	94	5	53	9	32	6	51	1.60
13909862--13909982	25	4.8	25	71	10	86	36	19	23	21	1.95
13914272--13914314	20	2.2	20	87	4	61	51	13	16	18	1.77
13914347--13914391	20	2.2	20	88	0	63	66	4	11	17	1.38
13914414--13914458	20	2.2	20	84	7	56	35	4	4	55	1.40
13920126--13920318	51	3.8	50	85	3	244	30	27	16	25	1.96
13920232--13920314	26	3.2	26	65	27	68	33	26	13	26	1.93
13920131--13920318	102	1.9	101	86	3	270	30	27	15	25	1.96
13925426--13925508	40	2.1	40	100	0	166	21	19	8	50	1.73

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