genome.fa.s10.2.7.7.80.10.50.1000.167.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  167  of  202  ( 24201 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)
52238821--52238939	60	2.0	59	88	3	177	22	19	9	48	1.77
52238833--52238960	60	2.2	58	81	2	148	26	18	9	45	1.80
52239384--52239760	136	2.8	135	85	3	497	25	23	18	32	1.97
52240065--52240166	37	2.8	37	78	0	105	28	6	22	42	1.79
52241302--52241336	3	11.7	3	100	0	70	68	0	0	31	0.90
52241640--52241682	19	2.3	19	100	0	86	44	0	9	46	1.35
52250166--52250202	9	4.1	9	92	0	65	45	13	10	29	1.77
52250416--52250475	30	2.0	31	86	3	86	20	40	0	40	1.52
52252062--52252118	29	2.0	29	96	0	105	24	15	5	54	1.62
52257262--52257373	37	3.0	37	68	10	109	29	25	16	28	1.96
52257241--52257360	39	3.1	39	69	9	129	30	26	15	27	1.96
52259381--52259430	26	1.9	26	84	8	66	58	2	0	40	1.10
52266501--52266546	24	2.0	23	86	4	65	58	0	8	32	1.28
52267615--52267643	15	1.9	15	100	0	58	24	0	0	75	0.80
52267617--52267650	15	2.4	14	90	5	50	17	0	2	79	0.86
52270812--52270853	21	2.0	21	100	0	84	38	4	19	38	1.73
52271437--52271480	17	2.7	16	89	10	63	68	0	4	27	1.09
52273003--52273102	41	2.5	40	85	3	137	48	8	21	23	1.76
52273074--52273192	24	5.0	24	83	6	154	48	8	26	16	1.74
52274332--52274382	26	2.0	26	88	0	75	35	7	21	35	1.83
52274330--52274380	13	3.9	13	73	0	57	33	7	23	35	1.84
52274612--52274669	24	2.5	23	77	8	64	50	1	3	44	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52277788--52277831	12	3.8	12	81	3	54	40	0	0	59	0.98
52278932--52278963	7	4.6	7	100	0	64	28	0	12	59	1.34
52280142--52280419	23	12.2	23	75	12	225	49	24	0	25	1.53
52280128--52280411	90	3.1	91	84	7	312	48	25	0	25	1.54
52280142--52280415	113	2.4	113	84	5	365	49	24	0	25	1.53
52280414--52280777	117	3.1	117	95	0	647	38	9	8	43	1.67
52283805--52284136	123	2.7	123	92	1	547	31	22	16	28	1.96
52287759--52287810	24	2.2	24	89	0	77	51	11	1	34	1.49
52291154--52291196	21	2.0	22	86	4	61	11	20	23	44	1.84
52291254--52291556	42	7.2	43	92	3	474	24	32	20	22	1.98
52291254--52291556	127	2.4	127	90	3	479	24	32	20	22	1.98
52291254--52291556	85	3.6	85	91	4	479	24	32	20	22	1.98
52291587--52291640	22	2.3	23	81	9	65	44	0	7	48	1.31
52295091--52295166	29	2.5	30	80	4	82	48	5	2	43	1.39
52295092--52295147	30	1.9	30	88	3	87	50	5	1	42	1.35
52295896--52295930	15	2.4	15	90	4	54	45	34	0	20	1.51
52295908--52296020	37	3.2	36	67	19	103	45	30	6	17	1.73
52296060--52296193	66	2.0	66	98	0	259	41	7	5	45	1.54
52296313--52296672	41	8.8	41	94	0	614	28	30	24	16	1.97
52296313--52296672	122	2.9	123	94	0	632	28	30	24	16	1.97
52296710--52296787	39	2.0	38	87	9	113	19	20	20	39	1.92
52299201--52299234	13	2.6	13	90	0	50	67	0	5	26	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52299196--52299249	16	3.5	15	76	16	56	70	0	3	25	1.04
52305260--52305331	14	5.1	14	77	0	81	19	15	12	52	1.74
52308958--52308985	2	14.0	2	100	0	56	50	0	0	50	1.00
52310585--52310642	26	2.3	26	85	14	77	32	8	6	51	1.59
52311657--52311696	21	2.0	21	85	5	55	42	2	2	52	1.28
52313400--52313428	10	3.0	10	95	5	51	62	10	27	0	1.28
52315953--52315978	13	2.0	13	100	0	52	23	30	30	15	1.95
52318673--52318729	21	2.6	22	75	13	55	31	1	19	47	1.60
52319212--52319919	358	2.0	354	89	2	1087	28	13	19	38	1.90
52321054--52321091	19	2.0	20	89	5	60	10	13	0	76	1.02
52321164--52321248	6	13.7	6	80	7	62	5	7	9	77	1.11
52321154--52321243	26	3.5	26	72	14	78	6	7	8	76	1.15
52321140--52321219	38	2.1	39	83	2	99	8	8	6	76	1.16
52331103--52331162	27	2.2	28	88	8	88	68	0	5	26	1.10
52332027--52332074	16	2.9	16	76	14	53	22	4	2	70	1.15
52332534--52332566	9	3.7	9	84	15	50	54	9	0	36	1.32
52332534--52332568	18	1.9	18	100	0	70	51	11	0	37	1.38
52335755--52335809	25	2.2	25	100	0	110	36	21	16	25	1.94
52339259--52339329	18	4.1	18	71	15	60	49	1	22	26	1.58
52340400--52340459	30	2.0	30	90	0	93	18	26	30	25	1.98
52341519--52341543	13	1.9	13	100	0	50	40	8	12	40	1.72
52341920--52341960	21	2.0	21	85	9	57	43	4	4	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52345663--52345699	19	1.9	19	89	10	58	45	27	0	27	1.54
52346174--52346293	34	3.5	33	91	6	170	34	32	11	21	1.90
52354005--52354059	27	2.0	27	82	6	67	47	3	1	47	1.30
52362377--52362430	25	2.1	26	83	10	67	29	3	3	62	1.29
52367832--52367912	40	2.0	40	95	0	144	30	25	4	38	1.77
52371858--52371891	16	2.1	17	88	5	52	35	20	11	32	1.89
52375748--52375809	19	3.3	19	72	20	58	33	4	0	61	1.17
52382076--52382115	20	2.0	20	86	13	57	47	12	0	40	1.41
52383435--52383462	5	5.6	5	100	0	56	64	35	0	0	0.94
52389468--52389548	36	2.3	35	83	10	96	27	7	7	58	1.52
52395275--52395312	17	2.2	17	90	0	58	42	34	5	18	1.73
52397386--52397436	21	2.4	21	86	0	75	3	47	15	33	1.64
52397321--52397480	87	1.8	87	89	0	239	14	30	16	39	1.88
52402924--52403095	94	1.8	93	87	3	256	43	3	10	42	1.56
52403027--52403119	37	2.5	37	92	0	132	39	4	8	47	1.54
52403059--52403130	20	3.8	20	68	17	62	36	5	5	52	1.48
52403455--52403511	10	5.5	10	79	8	60	33	26	8	31	1.87
52403462--52403511	21	2.4	21	100	0	100	34	28	10	28	1.89
52404289--52404323	18	1.9	18	94	0	61	37	20	31	11	1.88
52405532--52405576	21	2.1	21	83	0	54	48	35	2	13	1.54
52405544--52405606	7	9.0	7	76	0	54	44	36	1	17	1.59
52405544--52405589	21	2.2	21	88	0	65	47	34	2	15	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52406415--52406887	227	2.1	229	80	5	523	24	19	20	34	1.96
52406491--52406936	114	3.9	114	86	2	601	24	19	19	36	1.95
52406479--52406976	114	4.4	113	84	4	599	23	19	19	36	1.95
52408422--52408447	13	2.0	13	100	0	52	46	15	7	30	1.74
52410375--52410680	43	7.2	43	82	4	334	26	29	18	24	1.98
52410375--52410666	128	2.3	127	84	3	361	26	29	19	25	1.98
52411543--52411648	22	4.8	22	89	0	158	28	26	14	31	1.95
52412230--52412255	5	5.2	5	100	0	52	19	0	0	80	0.71
52413320--52413374	12	4.7	12	77	20	62	45	7	0	47	1.30
52413311--52413399	35	2.6	36	75	10	105	42	5	1	50	1.33
52413335--52413455	58	2.1	58	84	3	154	41	6	3	48	1.45
52413693--52413730	15	2.6	15	84	16	53	36	34	0	28	1.58
52413693--52413731	14	2.7	14	88	11	53	35	35	0	28	1.58
52413986--52414048	14	4.4	14	80	7	65	31	44	3	20	1.67
52413996--52414071	22	3.5	22	76	3	66	35	40	2	21	1.67
52414071--52414112	14	2.9	14	89	6	66	35	38	0	26	1.57
52414067--52414113	15	3.3	15	88	8	71	40	34	0	25	1.56
52414188--52414302	57	2.0	57	100	0	230	40	12	5	41	1.65
52414516--52414714	41	4.9	41	91	1	310	28	28	21	21	1.98
52414707--52414793	43	2.0	43	95	0	156	29	20	27	21	1.98
52414808--52414922	40	2.9	39	84	3	149	22	24	20	33	1.97
52414932--52414956	12	2.1	12	100	0	50	32	36	24	8	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52415644--52415703	28	2.1	29	84	6	79	58	0	0	41	0.98
52416270--52416344	30	2.5	29	76	8	71	42	1	14	41	1.54
52422812--52422875	27	2.4	27	86	0	83	18	20	26	34	1.96
52437726--52437763	15	2.5	15	84	12	51	50	0	0	50	1.00
52440896--52440928	13	2.4	14	90	5	50	72	3	0	24	0.98
52441481--52441554	34	2.2	34	85	7	107	33	2	14	48	1.58
52441700--52441726	6	4.5	6	100	0	54	48	0	0	51	1.00
52454456--52454530	38	2.0	38	94	0	132	36	17	2	44	1.63
52455267--52455304	2	19.0	2	100	0	76	50	0	0	50	1.00
52459958--52460145	37	5.2	35	68	18	102	29	22	11	36	1.89

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