genome.fa.s2.2.7.7.80.10.50.1000.175.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  175  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)
53344578--53344659	42	2.0	42	100	0	164	45	14	9	30	1.77
53346805--53346852	21	2.3	21	85	0	60	29	43	0	27	1.55
53346810--53346852	14	3.1	14	74	12	52	27	44	0	27	1.55
53346939--53347097	67	2.3	69	86	7	216	44	25	1	28	1.62
53347578--53347803	41	5.8	40	69	13	141	31	25	19	23	1.98
53347578--53347708	40	3.2	41	80	3	122	29	24	22	22	1.99
53347920--53347952	13	2.6	13	95	4	59	12	15	27	45	1.81
53368890--53368921	17	1.9	17	93	6	57	62	12	15	9	1.54
53369072--53369096	5	5.0	5	100	0	50	80	0	0	20	0.72
53370090--53370140	24	2.1	24	92	0	84	45	5	25	23	1.75
53380373--53380693	159	2.0	159	98	0	624	21	27	16	34	1.95
53382138--53382734	50	12.0	50	71	5	438	32	23	20	23	1.98
53382144--53382724	100	5.8	99	85	4	774	32	24	20	23	1.98
53384419--53384527	51	2.1	50	80	15	127	26	4	3	65	1.29
53396784--53396826	21	2.0	21	90	0	68	48	6	20	23	1.73
53398197--53398288	7	13.3	7	87	7	75	21	1	0	77	0.84
53398197--53398288	14	6.7	13	88	11	107	21	1	0	77	0.84
53398197--53398288	21	4.4	20	85	11	116	21	1	0	77	0.84
53402358--53402424	20	3.4	19	82	10	73	19	25	0	55	1.43
53412496--53412639	72	2.0	72	100	0	288	18	18	25	38	1.92
53417026--53417052	7	3.9	7	100	0	54	0	11	0	88	0.50
53418231--53418272	5	8.4	5	79	10	50	76	0	0	23	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53418231--53418273	15	2.9	15	82	10	61	76	0	0	23	0.78
53423654--53423686	17	2.0	17	88	5	50	21	6	6	66	1.35
53430728--53430770	21	2.2	20	87	8	61	18	37	18	25	1.94
53438107--53438259	41	3.7	40	81	6	182	22	32	14	30	1.94
53438108--53438259	82	1.9	82	86	5	218	22	32	14	30	1.94
53445445--53445598	41	3.8	41	88	4	222	21	29	15	33	1.94
53449391--53449426	17	2.1	17	94	0	63	41	11	0	47	1.39
53457318--53457366	24	2.1	22	82	17	55	53	2	14	30	1.52
53457362--53457417	24	2.4	23	80	11	60	64	1	5	28	1.26
53459108--53459360	89	2.8	88	86	2	335	20	24	25	28	1.99
53459202--53459347	45	3.3	44	65	12	109	17	26	26	29	1.98
53459767--53460105	88	3.9	87	72	9	271	28	24	17	29	1.97
53459746--53460103	173	2.1	173	89	3	542	29	23	18	28	1.98
53459324--53460321	391	2.6	376	82	9	1102	26	24	19	28	1.99
53459608--53460320	44	16.4	44	68	13	228	27	24	19	28	1.98
53459878--53460276	216	1.8	216	88	2	604	28	23	18	29	1.98
53459767--53460147	88	4.4	87	71	10	251	28	24	18	29	1.98
53459746--53460275	173	3.1	171	81	6	500	28	23	19	28	1.98
53460170--53460277	43	2.5	44	83	7	132	32	21	17	28	1.96
53459919--53460320	216	1.9	217	88	4	614	28	24	19	28	1.98
53461429--53461507	14	5.9	14	86	5	74	6	16	0	77	0.97
53461437--53461469	7	4.7	7	92	0	57	12	24	0	63	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53461429--53461502	21	3.6	19	82	8	67	6	17	0	75	1.01
53461465--53461508	7	6.4	7	97	2	81	0	11	0	88	0.51
53462399--53462441	15	2.8	15	89	3	68	2	13	0	83	0.74
53466971--53467026	24	2.4	23	80	11	60	64	1	5	28	1.26
53473845--53473887	2	21.5	2	95	0	77	46	0	0	53	1.00
53476278--53476329	26	2.0	26	81	7	61	11	5	13	69	1.35
53497520--53497562	2	21.5	2	100	0	86	51	0	0	48	1.00
53498909--53498975	31	2.2	29	82	10	73	22	19	8	49	1.76
53502208--53502262	25	2.3	24	81	12	60	29	10	1	58	1.43
53503885--53503924	20	2.0	20	90	0	62	27	10	12	50	1.72
53503870--53503936	34	1.9	35	90	3	109	31	8	13	46	1.74
53503864--53503940	14	5.0	15	71	20	52	33	9	14	42	1.77
53509196--53509242	13	3.3	14	85	8	60	40	10	2	46	1.50
53515931--53515997	3	22.0	3	96	3	125	32	0	0	67	0.91
53522464--53522715	19	12.6	19	70	22	153	29	0	13	55	1.44
53522507--53522715	61	3.5	58	74	16	167	30	0	13	56	1.38
53522489--53522690	80	2.5	80	92	3	334	30	0	13	56	1.38
53522568--53522711	40	3.6	40	69	18	129	30	0	13	55	1.39
53522702--53522822	60	2.0	60	85	4	165	33	1	12	52	1.49
53528545--53528586	21	2.0	21	85	0	57	50	2	7	40	1.43
53532781--53532806	6	4.3	6	100	0	52	19	0	0	80	0.71
53532891--53532939	25	1.9	26	84	12	66	28	2	10	59	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53536848--53536936	33	2.7	33	77	5	92	26	10	43	19	1.82
53538670--53538756	27	3.4	27	65	20	78	58	12	13	14	1.63
53538655--53538773	49	2.4	49	95	1	211	62	12	11	13	1.56
53538887--53539686	109	7.4	108	81	5	802	58	14	1	26	1.46
53538880--53539686	219	3.7	218	83	6	930	57	14	1	26	1.46
53539435--53539625	101	1.9	101	90	0	301	54	16	1	26	1.51
53539737--53539822	4	21.5	4	100	0	172	50	24	0	25	1.50
53541666--53541713	2	24.0	2	100	0	96	50	0	0	50	1.00
53547381--53547455	37	2.0	37	94	0	132	38	0	24	37	1.55
53550180--53550230	25	2.0	25	100	0	102	47	3	37	11	1.59
53551975--53552086	35	3.1	35	73	7	116	30	23	23	23	1.99
53551975--53552161	75	2.5	73	84	3	223	31	21	23	24	1.99
53558773--53558802	15	2.0	15	93	0	51	10	6	10	73	1.25
53560415--53560486	37	1.9	38	83	8	94	43	2	2	51	1.30
53566064--53566098	18	1.9	18	88	0	52	25	17	11	45	1.81
53566130--53566171	21	2.0	21	85	0	57	38	19	7	35	1.79
53566598--53566736	73	1.9	75	86	3	201	30	22	11	35	1.90
53566904--53566937	2	17.0	2	100	0	68	50	0	0	50	1.00
53566939--53566991	25	2.1	25	100	0	106	56	7	24	11	1.60
53567756--53567808	17	3.2	16	76	7	52	50	0	20	28	1.48
53570466--53570578	55	2.1	55	93	0	190	23	7	16	52	1.69
53583020--53583129	41	2.7	42	84	2	143	34	28	18	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53584295--53584326	16	1.9	17	93	6	57	37	21	0	40	1.54
53584488--53584642	42	3.7	42	72	17	144	29	28	20	21	1.98
53588848--53588890	10	4.4	10	77	16	54	25	9	32	32	1.88
53589386--53589428	22	2.0	22	95	0	77	9	20	27	41	1.83
53589565--53589687	42	2.9	42	80	6	115	24	21	27	26	1.99
53589562--53589920	43	8.4	43	76	5	233	27	28	20	24	1.99
53589607--53589920	86	3.7	86	77	6	280	27	28	19	24	1.99
53590313--53590425	21	5.4	21	84	0	118	5	42	16	35	1.71
53590402--53590542	66	2.1	66	88	5	205	12	28	18	40	1.87
53590402--53590565	66	2.5	66	86	4	197	12	27	18	40	1.87
53592671--53592727	25	2.3	25	84	0	69	36	5	14	43	1.67
53592729--53592812	9	9.8	9	65	10	50	39	2	16	41	1.62
53592856--53592927	33	2.3	31	82	4	90	40	2	12	44	1.57
53592751--53593070	81	3.9	82	84	9	316	40	2	13	44	1.56
53592910--53592948	9	4.6	9	87	12	64	33	0	23	43	1.54
53592911--53592943	16	2.1	16	100	0	66	30	0	24	45	1.53
53592969--53593020	22	2.4	21	83	6	68	42	0	13	44	1.44
53592856--53593060	56	3.6	54	72	16	125	39	2	12	45	1.57
53594427--53594484	30	1.9	30	89	0	89	41	3	24	31	1.71
53594696--53594727	13	2.5	13	94	0	55	31	0	12	56	1.37
53594822--53595050	50	4.4	50	83	6	253	27	23	28	20	1.99
53594822--53595050	100	2.2	103	86	5	311	27	23	28	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53597508--53597553	22	2.1	21	88	11	67	13	6	0	80	0.89
53597866--53597904	17	2.2	18	90	4	62	35	17	7	38	1.79
53597950--53598192	91	2.7	91	96	2	440	46	25	1	26	1.62
53598174--53598212	21	1.9	21	89	5	62	38	41	0	20	1.53
53598757--53599467	113	6.3	113	93	0	1138	30	24	23	21	1.99
53598757--53599467	227	3.1	225	92	2	1131	30	24	23	21	1.99
53598757--53599467	340	2.1	338	91	1	1138	30	24	23	21	1.99
53599436--53599570	40	3.4	39	74	9	123	22	19	20	37	1.94
53600134--53600186	18	3.0	17	91	5	79	39	1	1	56	1.21
53599957--53600214	119	2.2	120	84	5	332	42	1	4	51	1.30

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