genome.fa.s1.2.7.7.80.10.50.1000.107.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  107  of  187  ( 22383 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)
31737734--31737835	32	3.2	32	76	1	107	19	21	21	37	1.95
31745926--31746012	42	2.1	42	91	4	140	20	28	22	27	1.99
31757114--31757238	60	2.1	60	94	2	218	31	11	0	57	1.34
31759969--31760111	27	5.3	27	86	1	189	38	20	18	22	1.93
31759969--31760111	53	2.7	53	84	5	189	38	20	18	22	1.93
31763255--31763380	43	2.9	43	81	4	121	28	15	24	30	1.96
31775563--31775601	18	2.1	19	85	4	53	41	15	15	28	1.87
31775524--31776012	247	2.0	247	92	0	807	30	29	16	24	1.96
31783978--31784053	34	2.2	35	92	2	127	35	5	9	50	1.57
31783937--31784023	43	2.0	43	95	2	158	37	4	10	47	1.58
31784067--31784162	19	4.9	19	70	11	68	53	4	2	40	1.32
31784050--31784355	59	5.2	59	92	0	504	48	3	4	44	1.38
31784243--31784280	19	2.0	20	89	5	60	52	5	0	42	1.24
31787093--31787135	18	2.4	18	88	3	61	76	2	2	18	1.00
31787097--31787143	18	2.7	18	83	3	51	76	4	4	14	1.09
31788565--31788604	20	2.0	20	95	0	71	65	0	7	27	1.20
31790170--31790316	50	2.9	50	73	0	132	27	21	19	30	1.98
31790389--31791315	44	21.7	44	81	7	971	29	25	16	28	1.97
31790604--31790675	37	1.9	38	85	2	101	23	25	19	31	1.98
31790427--31791315	126	7.0	126	81	7	672	29	25	16	28	1.96
31790389--31791320	170	5.5	169	86	5	1155	29	25	16	28	1.97
31791360--31791607	79	3.0	78	77	12	280	18	23	27	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31791439--31791621	88	2.1	88	88	2	269	20	21	27	30	1.98
31798559--31798622	21	3.4	19	83	12	69	34	20	7	37	1.81
31798567--31798622	21	2.8	19	84	10	76	35	19	8	35	1.83
31798578--31798621	21	2.1	21	95	0	79	38	15	9	36	1.80
31803941--31804038	48	2.0	48	100	0	196	32	15	10	41	1.80
31807512--31807614	41	2.5	41	90	3	154	33	26	16	23	1.95
31808788--31808828	11	3.5	11	90	6	55	39	12	12	36	1.80
31811542--31811581	19	2.1	19	85	4	53	47	7	2	42	1.45
31811609--31811826	103	2.1	103	79	3	233	36	17	10	35	1.84
31812794--31812847	17	3.2	17	75	14	58	66	16	5	11	1.40
31813582--31813615	11	3.0	11	86	4	50	5	29	0	64	1.17
31823210--31823269	32	1.9	31	82	3	75	25	3	16	55	1.57
31827810--31828042	27	8.7	26	88	3	322	42	22	20	14	1.88
31829988--31830022	16	2.2	16	94	0	61	60	8	0	31	1.27
31845069--31845112	15	2.9	15	100	0	88	34	18	13	34	1.90
31848825--31849109	50	5.7	50	86	0	363	21	29	22	26	1.99
31854965--31855017	20	2.7	20	77	16	56	15	18	3	62	1.47
31855657--31855777	25	4.7	26	70	6	93	28	19	25	25	1.99
31855659--31855777	52	2.3	52	91	0	193	29	20	25	25	1.99
31860033--31860108	31	2.5	31	97	0	143	28	14	10	46	1.78
31868907--31868938	16	1.9	17	93	6	57	46	0	9	43	1.35
31869602--31869632	15	2.1	15	93	0	53	54	0	6	38	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31882036--31882085	26	1.9	26	87	0	73	46	10	2	42	1.49
31883230--31883413	78	2.4	78	82	5	230	29	12	12	45	1.79
31886113--31886153	20	2.0	21	85	4	57	75	4	4	14	1.14
31887475--31887665	40	4.8	40	83	1	213	35	17	29	17	1.93
31887524--31887588	20	3.2	20	71	16	62	27	18	35	18	1.94
31887473--31887665	80	2.4	80	86	1	253	35	18	29	17	1.93
31887537--31887611	20	3.8	20	73	7	71	30	21	33	14	1.93
31887557--31887620	20	3.2	20	69	8	58	29	18	32	18	1.95
31887427--31887666	40	6.0	40	76	5	209	35	17	29	17	1.93
31888014--31888052	19	2.2	18	86	9	53	35	7	5	51	1.53
31888565--31888598	13	2.6	13	90	0	50	17	0	5	76	0.98
31894069--31894126	30	1.9	30	92	0	98	20	6	27	44	1.77
31906440--31906479	20	2.0	20	85	0	53	42	7	10	40	1.67
31907811--31907879	25	2.8	25	82	4	68	30	23	21	24	1.99
31907836--31907896	25	2.4	25	83	5	70	29	21	22	26	1.99
31907860--31907915	25	2.3	24	81	3	58	32	21	21	25	1.98
31915394--31915450	25	2.3	24	84	3	69	28	22	19	29	1.98
31915459--31915537	25	3.2	25	81	3	79	35	21	20	22	1.96
31919439--31919487	13	4.0	12	89	10	73	83	6	2	8	0.87
31919421--31919487	25	2.6	25	84	13	82	80	4	4	10	0.99
31920487--31920524	19	2.0	19	100	0	76	52	5	10	31	1.58
31922241--31922335	29	3.2	28	73	4	73	30	15	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31924543--31924623	26	3.2	26	61	22	62	29	24	24	20	1.99
31924342--31924633	50	5.8	50	90	0	377	26	22	29	21	1.99
31929656--31929822	50	3.3	50	84	1	219	20	30	22	26	1.98
31930947--31930987	21	1.9	22	85	5	57	46	12	2	39	1.54
31934712--31934797	29	2.9	29	72	8	84	31	10	16	41	1.82
31936952--31936994	20	2.2	20	100	0	86	30	20	30	18	1.97
31961434--31961463	16	1.9	16	93	6	53	50	20	0	30	1.49
31967659--31967688	16	1.9	16	93	6	53	50	20	0	30	1.49
31975067--31975130	27	2.4	27	97	0	119	48	0	0	51	1.00
31977050--31977079	15	2.1	15	93	6	53	53	6	0	40	1.27
31977623--31977722	39	2.5	41	90	3	150	35	3	0	62	1.11
31977634--31977718	8	8.3	10	69	20	52	34	3	0	62	1.12
31980922--31981006	3	28.7	3	76	15	70	36	3	0	60	1.14
31981042--31981099	2	28.5	2	80	3	62	43	5	1	50	1.35
31981238--31981306	18	3.9	17	75	18	70	39	5	0	55	1.24
31981215--31981306	2	48.0	2	69	12	50	40	7	1	51	1.38
31981248--31981327	37	2.2	36	78	12	85	40	6	1	52	1.35
31981671--31981708	20	1.9	20	89	10	60	28	13	0	57	1.36
31981750--31982060	106	2.9	107	87	2	448	29	16	18	35	1.92
31982244--31982288	22	2.0	22	83	8	56	46	11	6	35	1.66
31987087--31987131	3	15.0	3	100	0	90	66	0	0	33	0.92
32003352--32003459	56	1.9	55	92	1	180	38	9	12	39	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32008440--32008708	25	10.8	26	72	14	169	33	19	26	20	1.96
32008458--32008708	74	3.4	74	76	13	223	34	19	26	19	1.96
32008832--32008872	8	5.1	8	100	0	82	26	0	12	60	1.31
32011279--32011385	55	1.9	55	92	3	180	38	9	13	39	1.76
32011776--32011821	18	2.6	18	92	0	74	45	10	26	17	1.81
32014303--32014338	16	2.2	16	100	0	72	25	0	36	38	1.56
32014574--32014608	18	2.0	17	88	5	52	54	0	0	45	0.99
32014461--32014776	156	2.0	157	94	0	553	43	3	5	47	1.42
32014710--32014751	15	2.7	16	82	14	52	52	2	0	45	1.13
32014719--32014760	15	2.9	15	82	10	52	52	0	0	47	1.00
32014745--32014932	61	3.1	60	66	17	172	47	6	3	43	1.45
32014713--32014952	120	2.0	120	96	1	446	47	5	3	42	1.45
32014829--32014880	15	3.6	15	80	12	56	53	1	0	44	1.11
32018695--32018732	9	4.3	9	84	15	53	55	0	0	44	0.99
32018709--32018756	23	2.1	23	84	0	60	45	2	2	50	1.25
32022191--32022229	2	19.5	2	100	0	78	51	0	48	0	1.00
32024791--32024838	20	2.3	22	86	10	66	45	6	10	37	1.64
32026378--32026610	50	4.7	49	80	3	209	27	21	28	22	1.99
32026378--32026559	50	3.7	49	83	1	213	26	21	29	22	1.99
32026812--32026860	20	2.5	20	81	15	66	57	6	24	12	1.58
32030673--32030736	20	3.2	20	74	14	60	28	21	31	18	1.97
32030740--32030782	20	2.2	20	86	0	59	48	16	23	11	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32035263--32035335	36	2.0	36	84	5	94	21	24	9	43	1.82
32037570--32037616	24	2.0	24	91	0	76	19	38	21	21	1.94
32038335--32038382	20	2.4	20	92	0	87	31	22	27	18	1.97
32038391--32038504	60	1.9	60	83	0	147	46	18	24	10	1.80
32038391--32038504	20	5.7	20	81	2	122	46	18	24	10	1.80
32046926--32046977	20	2.6	20	90	0	86	40	21	26	11	1.87
32051136--32051168	17	2.0	17	88	5	50	63	12	6	18	1.48
32054166--32054332	20	8.4	19	78	7	122	43	14	26	15	1.85
32054172--32054332	39	4.1	39	76	7	164	42	14	27	15	1.85
32054167--32054332	59	2.8	58	80	2	197	43	14	26	15	1.85

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