genome.fa.s7.2.7.7.80.10.50.1000.186.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  186  of  204  ( 24458 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)
54884523--54884582	9	6.6	9	76	16	61	5	3	6	85	0.84
54886792--54886867	4	19.2	4	72	12	50	67	2	6	23	1.27
54886807--54886832	11	2.4	11	100	0	52	80	0	0	19	0.71
54886818--54886874	27	2.3	26	80	16	68	66	3	7	22	1.31
54886827--54887056	69	3.3	67	78	7	246	59	2	7	30	1.38
54890429--54890783	85	4.2	84	85	4	417	34	21	20	24	1.97
54890429--54890784	43	8.3	42	85	4	446	33	21	19	24	1.97
54896852--54897227	9	43.7	9	66	14	134	30	4	19	45	1.70
54896892--54896957	25	2.6	25	80	0	78	34	3	18	43	1.65
54896912--54897033	16	8.0	16	70	18	82	29	5	18	45	1.73
54896968--54897117	37	3.9	40	87	3	114	28	3	20	47	1.66
54897018--54897117	37	2.7	37	96	0	182	29	3	19	49	1.63
54897344--54897368	12	2.1	12	100	0	50	32	0	16	52	1.44
54897340--54897391	22	2.4	21	87	3	68	38	1	17	42	1.60
54897387--54897424	7	5.6	7	82	17	53	28	0	13	57	1.36
54897334--54897511	96	1.9	95	91	1	293	36	2	14	46	1.60
54897429--54897485	21	2.8	20	78	7	60	38	5	14	42	1.68
54897450--54897529	24	3.1	26	68	23	69	36	5	12	46	1.64
54897450--54897558	52	2.1	52	89	3	166	33	5	12	47	1.65
54898798--54898896	52	1.9	52	95	0	180	31	18	6	44	1.74
54898803--54898881	25	3.0	27	60	14	65	32	18	5	43	1.72
54901217--54901389	86	2.0	86	91	0	283	28	19	23	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54901305--54901522	112	1.9	112	82	5	271	28	25	22	23	1.99
54904047--54904089	4	10.8	4	89	0	68	46	23	0	30	1.52
54904769--54904823	28	2.0	28	82	13	69	76	5	7	10	1.15
54905149--54905178	15	1.9	16	93	6	53	20	6	13	60	1.55
54905572--54905615	21	2.0	22	82	4	54	40	2	4	52	1.34
54905615--54905678	10	6.6	9	79	15	56	56	3	3	37	1.31
54905615--54905678	19	3.3	18	77	14	56	56	3	3	37	1.31
54905819--54905862	17	2.4	18	88	7	63	34	2	2	61	1.21
54906985--54907039	26	2.1	26	100	0	110	34	30	3	30	1.75
54920157--54920212	23	2.4	23	80	11	62	62	8	3	25	1.41
54920238--54920295	22	2.6	22	74	15	57	58	6	1	32	1.35
54925214--54925272	32	2.0	30	83	12	77	52	0	1	45	1.10
54930629--54930680	26	2.0	26	92	0	86	42	28	9	19	1.82
54937538--54937611	31	2.4	31	93	2	121	18	2	33	44	1.64
54939621--54939659	14	2.8	14	88	0	51	20	0	30	48	1.50
54939999--54940059	29	2.1	29	96	0	113	49	8	8	34	1.62
54945767--54945908	43	3.3	42	80	10	121	29	18	21	30	1.97
54945792--54945874	43	1.9	43	87	4	123	33	20	20	25	1.97
54946002--54946046	21	2.1	21	83	0	54	40	26	17	15	1.90
54946620--54946663	17	2.4	18	88	7	63	36	0	2	61	1.09
54947664--54947703	20	2.1	20	86	9	57	45	0	2	52	1.14
54948854--54948923	16	4.4	16	92	0	95	32	0	34	32	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54948904--54949011	39	2.6	42	82	8	123	35	7	25	31	1.84
54949156--54949190	18	2.0	17	88	5	52	54	0	0	45	0.99
54949283--54949324	15	2.7	16	82	14	52	52	2	0	45	1.13
54949292--54949333	15	2.9	15	82	10	52	52	0	0	47	1.00
54949077--54949349	147	1.9	147	96	1	503	46	3	3	46	1.35
54949402--54949444	15	2.8	16	79	10	54	53	2	0	44	1.13
54951046--54951072	11	2.5	11	100	0	54	51	18	7	22	1.70
54951417--54951447	14	2.2	14	100	0	62	45	29	6	19	1.75
54953006--54953313	163	1.8	168	88	6	482	43	14	16	25	1.86
54959924--54959950	14	1.9	14	100	0	54	14	7	48	29	1.71
54965738--54965819	22	3.7	22	93	0	128	28	25	13	32	1.93
54972069--54972277	70	3.0	69	79	4	226	58	3	8	29	1.44
54975842--54975873	4	8.0	4	92	0	55	71	0	3	25	1.00
54976014--54976062	2	24.5	2	100	0	98	51	0	0	48	1.00
54976153--54976205	6	8.5	6	83	8	52	58	3	0	37	1.16
54976153--54976205	12	4.2	13	81	9	58	58	3	0	37	1.16
54976155--54976199	20	2.2	20	88	0	63	55	4	0	40	1.20
54976219--54976288	26	2.7	25	75	16	63	55	4	5	34	1.43
54976335--54976369	18	1.9	18	88	0	52	54	8	5	31	1.54
54976341--54976441	3	34.0	3	76	5	98	60	4	1	32	1.29
54976454--54976517	30	2.2	30	86	5	87	59	4	17	18	1.54
54977966--54978159	44	4.5	44	70	13	143	26	22	22	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54978183--54978991	46	17.6	46	92	0	1267	30	27	16	25	1.97
54980179--54980223	15	2.9	15	84	15	65	17	11	0	71	1.14
54980186--54980232	17	2.7	18	90	9	80	14	10	0	74	1.07
54980288--54980398	55	2.0	55	100	0	222	27	18	21	32	1.97
54981119--54981156	18	2.1	19	90	5	60	5	7	7	78	1.07
54981089--54981152	25	2.5	25	68	14	58	7	7	7	76	1.16
54985150--54985181	4	8.0	4	92	0	55	71	0	3	25	1.00
54985318--54985348	2	15.5	2	100	0	62	51	0	0	48	1.00
54985441--54985479	2	19.5	2	83	0	51	56	2	0	41	1.13
54985633--54985691	3	19.7	3	75	6	57	62	5	3	28	1.32
54985633--54985684	15	3.5	15	80	15	63	61	3	3	30	1.32
54985618--54985691	12	6.4	12	72	9	55	60	8	2	28	1.39
54986528--54986589	11	6.2	11	72	27	57	41	4	0	53	1.22
54986519--54986655	38	3.5	37	90	7	211	40	2	0	56	1.14
54986551--54986582	16	2.0	16	93	0	55	40	0	0	59	0.97
54986605--54986645	11	3.8	11	84	15	59	41	2	0	56	1.13
54986514--54986655	77	1.9	76	91	7	234	40	2	0	57	1.14
54988611--54988649	19	2.0	20	85	14	55	71	0	5	23	1.05
54991095--54991124	3	10.0	3	92	0	51	36	0	63	0	0.95
54996685--54996799	44	2.8	38	74	20	106	33	25	6	35	1.81
54996927--54996966	21	1.9	21	90	10	64	30	25	17	27	1.97
55003063--55003119	18	2.8	20	71	15	55	61	3	0	35	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55006843--55006999	26	6.1	26	77	5	140	20	18	28	33	1.96
55006845--55006994	52	2.9	52	83	3	169	20	18	26	34	1.95
55018106--55018156	23	2.2	24	85	3	68	41	9	1	47	1.48
55019644--55019711	31	2.2	30	86	2	91	50	8	19	22	1.75
55023657--55023857	82	2.4	83	82	2	235	20	16	31	31	1.95
55023657--55023857	41	4.9	41	82	3	194	20	16	31	31	1.95
55024210--55024256	14	3.3	15	79	8	53	29	0	29	40	1.57
55024275--55024333	7	8.1	7	75	5	55	22	1	45	30	1.62
55024268--55024323	14	3.9	14	73	13	51	23	0	44	32	1.53
55024222--55024304	42	2.0	42	82	0	103	27	0	36	36	1.57
55024268--55024321	21	2.5	21	87	3	72	24	0	42	33	1.55
55024505--55024541	15	2.5	15	91	4	58	27	0	37	35	1.57
55025524--55025755	117	2.0	117	88	3	353	47	12	13	25	1.79
55025641--55025680	22	1.9	21	85	10	55	70	2	2	25	1.13
55025780--55025818	21	1.9	21	94	5	71	74	0	2	23	0.94
55025639--55026041	130	3.0	134	85	6	530	45	11	14	28	1.79
55025877--55025923	22	2.1	22	84	7	60	57	17	14	10	1.65
55029806--55030133	43	7.6	43	87	2	417	23	17	29	29	1.97
55034292--55034319	6	4.7	6	100	0	56	85	0	0	14	0.59
55035665--55035707	3	14.7	3	90	4	70	27	0	2	69	1.00
55043947--55043983	2	19.0	2	94	5	67	48	0	0	51	1.00
55054049--55054100	26	2.0	26	96	0	95	42	28	7	21	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55059948--55059997	15	3.7	13	80	20	50	64	4	2	30	1.23
55061861--55062838	44	21.6	43	67	14	277	28	20	19	31	1.97
55061860--55062155	45	6.6	44	70	16	119	28	19	20	32	1.97
55061860--55062156	89	3.3	88	71	13	271	28	19	20	31	1.97
55062027--55062474	227	2.0	227	84	4	591	27	20	20	31	1.97
55062487--55062901	89	4.6	95	72	11	348	30	19	17	32	1.95
55062447--55062897	181	2.5	181	91	0	722	29	19	18	32	1.96
55063828--55063873	16	3.0	15	90	9	67	2	13	0	84	0.71
55063828--55063870	22	2.0	22	90	4	70	2	13	0	83	0.74
55064261--55064285	13	1.9	13	100	0	50	12	0	0	88	0.53

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