genome.fa.s5.2.7.7.80.10.50.1000.109.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   207   208   

This is table  109  of  208  ( 24913 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)
32999402--32999524	61	2.0	61	80	0	138	44	16	8	30	1.78
32999563--32999697	31	4.4	31	71	15	118	40	17	5	36	1.74
32999475--32999764	92	3.2	91	81	5	307	42	17	6	33	1.76
33004446--33004494	24	2.0	24	96	0	89	24	20	18	36	1.94
33004975--33005014	18	2.2	18	95	0	71	35	15	15	35	1.88
33007403--33007514	54	2.1	54	88	3	163	24	33	25	16	1.96
33025414--33025460	17	2.6	18	80	10	60	57	14	10	17	1.65
33031814--33031849	17	2.2	17	90	5	56	77	0	19	2	0.88
33034288--33034345	22	2.6	22	79	15	75	43	17	6	32	1.75
33037985--33038020	16	2.2	16	100	0	72	25	0	36	38	1.56
33038145--33038453	153	2.0	155	91	2	505	43	4	5	46	1.47
33038389--33038430	15	2.7	16	82	14	52	52	2	0	45	1.13
33038398--33038439	15	2.9	15	82	10	52	52	0	0	47	1.00
33038507--33038558	15	3.6	15	80	12	56	53	1	0	44	1.11
33038626--33038677	15	3.6	15	80	12	56	53	1	0	44	1.11
33038392--33038802	119	3.4	119	95	2	720	49	5	2	42	1.39
33038843--33038890	26	1.9	25	84	16	64	52	2	0	45	1.12
33038798--33039026	92	2.5	92	82	8	218	47	4	3	44	1.41
33040123--33040160	11	3.5	11	100	0	76	26	0	26	47	1.52
33050822--33051176	176	1.9	183	83	9	456	39	5	2	52	1.39
33052407--33052444	9	4.3	9	86	3	51	10	2	28	57	1.45
33054930--33055179	46	5.5	46	93	2	411	33	14	22	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33054930--33055179	91	2.8	91	94	2	425	33	14	22	28	1.94
33057900--33057970	37	1.9	37	88	0	106	36	14	9	39	1.79
33059617--33059774	10	16.6	9	67	13	50	31	2	1	64	1.17
33059617--33059717	19	5.2	19	69	10	71	25	2	2	68	1.18
33059617--33059717	38	2.6	40	80	12	122	25	2	2	68	1.18
33059699--33059764	27	2.4	26	85	9	87	37	1	0	60	1.06
33059645--33059782	10	14.5	10	67	14	60	31	2	2	63	1.21
33059645--33059800	84	1.9	84	82	5	199	29	3	1	64	1.22
33066329--33066375	21	2.2	22	92	3	78	21	38	19	21	1.94
33069510--33069561	22	2.4	22	80	0	59	15	19	34	30	1.93
33071375--33071412	13	2.8	14	80	19	53	65	5	7	21	1.38
33071465--33071526	28	2.2	28	82	5	72	77	3	3	16	1.03
33071488--33071525	20	1.9	19	89	5	58	81	2	2	13	0.90
33071646--33071674	2	14.5	2	100	0	58	51	0	0	48	1.00
33071934--33072000	18	3.6	18	72	23	57	52	8	4	34	1.53
33071950--33072008	10	6.1	10	72	7	50	52	6	5	35	1.50
33073666--33073889	43	5.2	44	71	4	213	25	25	21	28	1.99
33073660--33073927	87	3.1	86	94	1	448	23	24	22	29	1.99
33073673--33073906	44	5.4	44	72	4	213	25	23	22	28	1.99
33073908--33074405	88	5.7	88	90	0	771	19	23	27	29	1.98
33073984--33074391	44	9.3	43	63	12	148	19	23	28	28	1.98
33080332--33080369	13	2.8	14	80	19	53	65	5	7	21	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33080893--33080959	18	3.6	18	72	23	57	52	8	4	34	1.53
33080969--33081008	19	2.1	19	90	4	62	57	7	2	32	1.40
33081182--33081224	11	3.7	11	79	11	50	69	0	4	25	1.07
33081180--33081224	24	1.9	23	90	4	72	66	0	6	26	1.16
33085516--33085631	61	1.9	59	87	5	171	51	4	0	43	1.27
33086854--33086887	16	2.1	16	88	0	50	55	8	0	35	1.31
33091824--33091929	44	2.5	41	75	19	101	36	31	2	29	1.72
33091836--33091929	44	2.1	44	90	4	143	36	31	3	28	1.73
33092551--33092722	42	4.1	42	84	5	222	29	23	18	29	1.98
33093096--33093146	21	2.4	21	83	0	66	3	49	15	31	1.63
33098619--33099397	9	84.4	9	71	15	479	36	1	16	44	1.58
33099352--33099403	18	2.9	18	86	8	63	34	1	15	48	1.56
33098958--33099449	254	1.9	250	88	4	729	36	1	17	45	1.56
33099539--33099580	19	2.2	19	87	8	59	57	0	2	40	1.12
33101474--33101883	127	3.3	125	68	10	339	34	19	15	30	1.93
33101388--33101889	251	2.0	251	92	0	826	32	19	16	31	1.94
33102258--33102310	7	7.6	7	84	0	61	43	35	0	20	1.52
33102260--33102310	21	2.4	21	86	0	75	43	37	0	19	1.51
33102492--33102563	21	3.4	21	75	7	56	37	41	1	19	1.60
33102585--33102632	25	1.9	25	82	0	60	50	22	2	25	1.60
33102581--33102673	39	2.4	40	83	5	127	51	20	1	26	1.54
33105831--33105963	7	18.7	7	71	9	72	45	33	0	20	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33105831--33106021	14	13.4	14	70	11	93	45	32	1	20	1.61
33106326--33106563	41	5.9	41	82	1	255	30	26	19	23	1.98
33106332--33106546	81	2.6	82	82	2	245	30	25	18	25	1.98
33116369--33116411	6	6.5	6	84	10	50	18	60	2	18	1.47
33124809--33124848	18	2.2	18	90	0	62	22	15	5	57	1.57
33131236--33131293	19	3.1	18	74	16	55	75	5	17	1	1.06
33136485--33136517	13	2.4	14	90	10	50	78	0	0	21	0.75
33160427--33160482	29	1.9	29	96	0	103	35	17	14	32	1.90
33170560--33170610	25	2.0	26	88	3	77	41	3	1	52	1.31
33173363--33173401	3	13.0	3	100	0	78	33	0	0	66	0.92
33178847--33179323	88	5.4	88	93	0	810	27	27	24	20	1.99
33179336--33179457	44	2.8	44	83	5	158	27	18	27	27	1.98
33179820--33179985	44	3.8	44	80	5	167	30	21	22	25	1.99
33179822--33180032	45	4.7	46	78	9	181	29	22	22	25	1.99
33180582--33180675	19	4.9	19	93	0	161	36	9	15	38	1.81
33180582--33180698	38	3.0	38	92	5	180	35	8	16	39	1.79
33180882--33180926	23	2.0	23	81	0	54	22	0	15	62	1.33
33181154--33181184	3	10.7	3	93	6	55	32	0	0	67	0.91
33184018--33184068	24	2.2	23	92	3	84	52	3	5	37	1.44
33187662--33187708	22	2.2	22	85	11	62	40	4	0	55	1.19
33196369--33196403	2	17.5	2	100	0	70	51	0	48	0	1.00
33205636--33205662	14	1.9	14	100	0	54	48	0	14	37	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33206381--33206519	50	2.8	50	86	3	181	32	14	15	38	1.87
33209433--33209637	100	2.0	100	89	1	313	28	7	25	38	1.83
33210592--33210678	43	2.0	44	90	2	140	49	2	24	24	1.62
33211867--33211904	19	2.0	19	100	0	76	31	10	0	57	1.32
33223693--33223789	47	2.1	47	98	0	185	18	13	11	56	1.66
33225480--33225529	22	2.3	22	100	0	100	60	8	18	14	1.58
33226488--33226525	6	6.2	6	93	3	58	0	63	0	36	0.95
33226497--33226545	6	8.2	6	93	0	62	0	55	0	44	0.99
33229509--33229594	33	2.6	33	77	14	97	46	17	8	27	1.76
33229588--33229628	20	2.0	20	90	0	64	43	12	12	31	1.79
33229611--33229649	15	2.7	15	92	4	62	35	15	10	38	1.81
33232912--33232944	16	2.0	17	88	5	50	12	9	18	60	1.57
33242641--33242688	16	2.9	16	75	3	51	33	6	6	54	1.51
33251088--33251490	172	2.3	170	80	3	430	27	26	20	26	1.99
33251070--33251491	43	9.8	43	83	4	368	27	26	20	26	1.99
33251828--33251887	21	2.9	21	82	0	75	6	43	15	35	1.72
33251869--33251994	66	1.9	67	85	4	175	15	28	16	38	1.90
33252094--33252137	18	2.5	17	88	3	61	36	43	0	20	1.52
33253007--33253061	28	2.0	28	85	7	76	40	7	5	47	1.54
33253426--33253463	15	2.5	16	83	12	53	36	44	0	18	1.50
33254014--33254354	41	8.3	41	78	5	287	31	25	24	18	1.97
33254427--33254542	40	2.9	38	75	6	108	24	22	19	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33257976--33258078	51	2.0	51	96	0	188	35	16	6	40	1.75
33261866--33262022	66	2.4	66	88	3	228	24	25	19	31	1.98
33261881--33262022	33	4.3	32	71	7	106	25	23	19	32	1.97
33261908--33262020	33	3.5	32	73	8	111	24	24	18	31	1.97
33261881--33262134	33	7.5	33	65	11	84	26	22	17	33	1.96
33265002--33265070	33	2.0	33	81	10	77	43	23	0	33	1.54
33266425--33266476	25	2.1	25	100	0	104	46	3	15	34	1.64
33267270--33267324	20	2.8	20	86	8	69	72	5	0	21	1.04
33268141--33268209	29	2.3	31	90	5	106	44	18	10	26	1.81
33268610--33268654	17	2.7	16	80	10	54	62	2	2	33	1.20

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   207   208