genome.fa.s2.2.7.7.80.10.50.1000.166.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   205   206   

This is table  166  of  206  ( 24623 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)
50354423--50354629	102	2.0	101	90	5	312	50	4	0	43	1.28
50354445--50354629	102	1.8	102	95	3	340	50	4	1	43	1.30
50356015--50356118	49	2.1	49	98	0	199	50	12	5	31	1.64
50359718--50359765	22	2.2	22	92	3	80	56	4	27	12	1.54
50364465--50364493	6	4.8	6	100	0	58	17	48	0	34	1.47
50365389--50365427	17	2.2	17	86	4	51	41	2	5	51	1.38
50369933--50369972	21	2.0	19	85	9	53	47	10	10	32	1.70
50370177--50370220	22	1.9	24	81	9	56	40	9	2	47	1.48
50372775--50372832	21	2.8	21	84	7	66	56	3	1	37	1.26
50372804--50372869	29	2.2	30	84	12	84	59	3	3	34	1.28
50372920--50373042	59	2.1	59	100	0	246	37	14	23	24	1.92
50373426--50373518	9	10.5	8	78	13	69	31	0	3	65	1.08
50373421--50373518	28	3.7	26	78	17	87	32	0	4	63	1.13
50373426--50373518	19	5.1	18	75	16	68	31	0	3	65	1.08
50373881--50373919	21	1.9	19	85	10	51	28	7	2	61	1.37
50376578--50376621	18	2.7	15	78	18	52	56	29	9	4	1.50
50376582--50376616	18	1.9	18	94	0	61	57	25	11	5	1.56
50380599--50380752	25	6.3	25	66	17	81	19	27	19	33	1.96
50380645--50380746	24	4.2	24	74	8	100	18	25	21	34	1.96
50380645--50380753	48	2.3	47	83	3	128	18	25	21	34	1.96
50383790--50384051	131	2.0	131	98	0	506	27	7	28	36	1.84
50393082--50393115	17	2.0	17	100	0	68	17	23	23	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50393864--50393899	2	18.5	2	94	5	65	52	0	0	47	1.00
50405437--50405496	22	2.7	22	78	0	75	3	21	6	68	1.28
50406357--50406406	27	1.9	26	84	8	66	28	2	6	64	1.28
50408248--50408324	34	2.2	34	81	6	84	59	2	3	33	1.29
50410595--50410661	28	2.4	28	80	9	82	64	7	7	20	1.44
50416202--50416286	40	2.2	40	86	2	118	37	18	4	38	1.72
50416292--50416350	30	2.0	30	86	0	82	23	20	15	40	1.90
50421031--50421098	35	1.9	35	96	0	127	20	22	22	35	1.96
50435474--50435553	29	2.7	29	84	3	106	17	11	26	45	1.82
50464419--50464490	36	2.0	35	81	2	81	33	25	11	30	1.90
50487279--50487387	27	4.0	27	80	2	112	35	12	22	28	1.91
50494490--50494519	11	2.7	11	100	0	60	63	10	10	16	1.51
50500018--50500083	21	3.3	19	74	15	60	74	4	0	21	1.00
50500019--50500082	23	2.9	21	73	15	58	75	4	0	20	0.99
50500714--50500789	21	3.7	21	85	7	111	35	11	10	42	1.76
50500727--50500790	19	3.3	19	91	4	92	35	14	9	40	1.78
50501110--50501822	44	16.2	44	65	8	250	25	24	20	30	1.99
50501070--50501868	132	6.1	132	93	0	1337	24	24	20	30	1.99
50503137--50503178	7	5.7	7	83	10	57	11	14	2	71	1.24
50503129--50503161	14	2.4	14	90	5	50	15	15	0	69	1.19
50503137--50503179	8	5.6	8	86	2	54	11	13	2	72	1.22
50503137--50503179	15	2.9	15	89	6	61	11	13	2	72	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50508412--50508479	4	17.0	4	74	17	52	73	4	0	22	1.01
50509029--50509078	24	2.2	22	85	7	64	38	16	6	40	1.73
50511655--50511685	16	1.9	16	100	0	62	35	6	6	51	1.53
50520786--50520816	14	2.2	14	94	0	53	77	0	3	19	0.90
50522349--50522939	44	13.7	44	82	6	654	26	25	17	30	1.97
50522349--50522939	132	4.6	132	82	5	751	26	25	17	30	1.97
50522691--50522756	34	1.9	34	87	0	96	24	27	15	33	1.95
50524200--50524242	15	2.7	15	85	7	50	13	20	0	65	1.27
50547783--50548321	267	2.0	266	95	0	970	30	17	12	38	1.87
50560318--50560360	23	1.9	22	85	4	59	62	0	0	37	0.95
50560318--50560363	22	2.1	22	84	8	58	65	0	0	34	0.93
50560366--50560409	10	4.6	10	83	5	56	34	0	43	22	1.54
50561021--50561095	32	2.3	32	95	0	132	21	1	20	57	1.48
50563164--50563207	20	2.3	18	84	7	52	18	22	0	59	1.38
50567260--50567296	19	2.1	19	90	10	60	51	0	8	40	1.32
50568303--50568362	29	2.1	27	81	6	66	48	15	11	25	1.78
50572880--50572911	14	2.3	14	100	0	64	46	0	0	53	1.00
50589376--50589416	13	3.1	14	79	10	50	43	14	21	19	1.87
50591502--50591532	16	1.9	16	93	0	53	41	9	0	48	1.36
50596278--50596353	6	12.7	6	86	5	100	69	13	2	14	1.29
50599497--50599534	16	2.4	16	90	0	58	42	7	0	50	1.31
50600860--50602653	895	2.0	896	95	0	3221	28	18	21	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50605230--50605293	11	5.4	12	75	16	62	78	10	1	9	1.04
50605237--50605276	12	3.3	12	85	0	53	80	12	0	7	0.91
50605236--50605307	36	2.0	37	86	2	101	79	9	4	6	1.05
50605238--50605336	30	3.3	29	84	5	101	74	9	6	10	1.21
50607813--50608331	44	11.1	44	68	18	266	32	18	21	27	1.97
50607671--50608361	142	4.9	142	93	0	1141	32	18	20	28	1.96
50607807--50608184	98	4.0	94	65	23	227	32	19	21	26	1.97
50608253--50608356	44	2.4	44	81	3	120	31	19	19	29	1.96
50608499--50608678	50	3.6	50	76	7	204	32	23	18	25	1.97
50608501--50608754	100	2.5	100	85	2	323	33	22	19	24	1.97
50608465--50608727	50	5.3	50	72	8	167	30	23	21	24	1.99
50609742--50609792	25	2.0	25	96	0	93	17	33	27	21	1.96
50610309--50610339	16	1.9	16	93	0	53	41	9	0	48	1.36
50614366--50614410	21	2.1	21	84	8	56	57	15	8	17	1.63
50626209--50626248	21	2.0	21	85	5	55	20	10	2	67	1.31
50636404--50636452	2	24.5	2	100	0	98	0	48	0	51	1.00
50645361--50645543	50	3.6	50	92	0	285	30	25	11	32	1.91
50651224--50651270	22	2.0	24	88	8	71	23	8	0	68	1.17
50655835--50655880	24	1.9	24	86	0	65	45	15	26	13	1.82
50664016--50664143	45	2.9	45	82	12	156	29	18	25	25	1.98
50663846--50664255	217	1.9	214	89	2	633	29	19	22	29	1.98
50664876--50664922	22	2.0	24	88	8	71	23	8	0	68	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50672072--50672202	43	3.1	43	75	4	131	16	16	9	56	1.66
50677731--50677848	59	2.0	59	91	3	193	28	13	11	46	1.77
50679287--50679484	25	7.9	25	80	2	173	26	16	21	34	1.95
50679311--50679482	75	2.3	75	82	4	204	27	16	22	33	1.96
50701072--50701159	41	2.1	41	89	0	131	39	17	15	27	1.90
50711500--50711583	43	2.0	43	83	6	109	33	16	15	34	1.91
50711519--50711623	43	2.4	43	83	0	120	34	17	15	33	1.91
50716430--50716485	24	2.3	24	84	0	67	28	35	14	21	1.92
50722600--50722657	28	2.1	28	100	0	116	27	15	13	43	1.85
50726587--50726621	17	2.1	17	100	0	70	42	11	22	22	1.85
50733087--50733156	26	2.7	26	90	0	104	17	21	24	37	1.94
50735918--50736048	27	4.9	27	79	0	136	31	14	21	32	1.93
50739412--50739635	30	7.5	30	75	6	136	36	13	24	25	1.92
50739414--50739640	60	3.8	60	79	7	237	36	13	24	25	1.92
50745255--50745295	15	2.8	15	88	3	57	68	2	7	21	1.26
50750014--50750091	41	1.9	41	86	5	113	15	17	32	34	1.92
50750073--50750214	38	3.7	38	77	5	135	16	26	28	28	1.97
50753769--50753839	27	2.6	27	90	0	106	42	21	12	23	1.87
50754357--50754433	35	2.2	36	85	2	102	36	24	7	31	1.84
50758646--50758681	13	2.8	13	86	0	54	30	27	0	41	1.56
50761503--50761562	30	2.0	30	96	0	111	35	15	13	36	1.86
50762034--50762074	17	2.5	16	88	4	64	51	0	31	17	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50780330--50780358	7	4.3	7	95	4	51	0	13	0	86	0.58
50781633--50781666	2	17.0	2	93	0	59	50	0	2	47	1.16
50783451--50783489	5	8.0	5	83	16	55	56	0	0	43	0.99
50790465--50790551	25	3.5	24	80	7	86	32	21	22	22	1.98
50793348--50793467	23	5.2	23	75	7	100	40	20	15	23	1.90
50798099--50798141	18	2.5	17	81	7	50	27	2	11	58	1.46
50814639--50814697	29	2.0	29	83	6	75	62	6	8	22	1.47
50816517--50816569	17	3.3	17	70	20	51	64	5	0	30	1.17
50816526--50816586	30	2.1	28	87	6	86	68	3	0	27	1.05
50816661--50816702	22	2.0	22	85	4	59	73	0	4	21	1.01

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   205   206