genome.fa.s2.2.7.7.80.10.50.1000.32.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  32  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)
9401066--9401134	34	2.1	32	84	12	88	31	0	1	66	1.00
9401513--9401578	26	2.5	26	77	0	69	42	6	15	36	1.71
9407154--9407191	12	3.1	12	88	7	58	86	2	10	0	0.66
9408222--9408265	21	2.1	21	86	0	61	38	6	34	20	1.79
9408287--9408989	100	7.0	100	90	0	971	33	22	19	25	1.97
9408302--9408986	50	13.7	50	72	3	509	33	22	18	25	1.97
9409014--9409136	45	2.5	50	80	7	130	36	17	17	28	1.93
9409140--9409302	44	3.7	44	78	3	139	29	21	20	28	1.98
9409322--9409414	45	2.1	45	85	0	123	33	18	23	24	1.97
9412287--9412388	41	2.5	41	87	3	143	27	18	25	28	1.98
9441136--9441175	16	2.5	16	79	0	53	47	2	22	27	1.64
9442774--9442824	24	2.2	24	86	10	70	39	0	3	56	1.18
9442865--9442913	23	2.1	23	88	7	73	22	2	6	69	1.21
9442983--9443015	16	2.1	16	94	0	57	51	3	0	45	1.16
9454323--9454398	7	11.0	7	69	12	50	36	2	0	60	1.11
9454328--9454398	27	2.7	26	82	6	88	38	2	0	59	1.12
9460238--9460318	25	3.3	25	81	5	76	33	18	25	22	1.97
9460261--9460339	25	3.2	24	74	15	63	34	17	26	21	1.96
9460335--9460400	24	2.8	24	88	0	96	37	16	25	19	1.93
9460384--9460435	25	2.1	24	82	10	61	34	21	26	17	1.95
9460496--9460558	25	2.5	25	97	0	117	38	22	25	14	1.92
9464972--9465013	22	2.0	21	85	4	57	30	0	19	50	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9465476--9465521	24	2.0	23	82	4	56	15	21	21	41	1.90
9470832--9470937	31	3.4	31	86	0	131	32	8	15	44	1.76
9470889--9470956	31	2.2	31	81	5	75	27	7	23	41	1.81
9471061--9471188	43	3.0	43	90	2	204	25	14	25	33	1.95
9472664--9472689	2	13.0	2	100	0	52	50	0	0	50	1.00
9496242--9496279	3	12.7	3	100	0	76	68	0	0	31	0.90
9496350--9496383	17	1.9	18	94	5	61	64	0	5	29	1.17
9498816--9498856	13	3.0	14	83	13	50	58	0	0	41	0.98
9503743--9503793	23	2.3	22	80	12	59	50	3	21	23	1.65
9518188--9518217	3	10.0	3	92	0	51	0	0	36	63	0.95
9518719--9518754	3	12.0	3	93	0	63	30	0	36	33	1.58
9519331--9519365	2	18.0	2	94	5	63	51	0	0	48	1.00
9522415--9522440	1	26.0	1	100	0	52	0	0	0	100	0.00
9530076--9530121	19	2.4	19	92	0	74	10	28	17	43	1.82
9537845--9537875	16	1.9	16	93	0	53	38	0	0	61	0.96
9539816--9539872	30	1.9	30	92	0	96	43	22	8	24	1.81
9539816--9539881	30	2.2	30	86	0	87	43	22	10	22	1.84
9543288--9543359	21	3.4	21	73	7	74	48	16	18	16	1.81
9543286--9543423	42	3.3	42	79	0	141	45	15	20	18	1.85
9545954--9546000	20	2.3	20	85	7	60	76	2	12	8	1.09
9548757--9548830	6	12.3	6	94	0	130	50	13	16	20	1.78
9556067--9556172	43	2.5	43	80	7	108	27	19	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9556880--9556939	2	30.0	2	100	0	120	0	0	50	50	1.00
9560661--9560685	12	2.1	12	100	0	50	40	0	0	60	0.97
9561251--9561283	7	4.7	7	100	0	66	15	12	0	72	1.12
9570594--9570799	108	1.9	108	88	2	315	32	14	24	28	1.95
9570595--9570833	108	2.2	108	84	4	295	34	13	23	28	1.93
9570916--9570963	23	2.1	23	84	3	62	20	8	25	45	1.79
9576042--9576086	18	2.3	20	81	18	67	4	46	17	31	1.68
9576044--9576080	18	2.1	18	100	0	74	5	45	21	27	1.73
9584179--9584224	21	2.2	21	92	0	74	54	10	15	19	1.70
9585318--9585351	12	2.8	12	90	0	50	76	8	0	14	1.01
9586594--9586636	22	2.0	22	100	0	86	37	13	25	23	1.92
9587879--9587922	21	2.1	21	95	0	79	34	4	15	45	1.67
9593720--9593749	2	15.0	2	100	0	60	50	0	0	50	1.00
9595995--9596029	17	2.1	17	88	0	52	85	2	11	0	0.69
9597221--9597286	31	2.1	31	82	2	78	36	1	12	50	1.49
9600902--9600936	5	6.8	5	87	6	52	60	0	0	40	0.97
9610867--9610905	15	2.6	14	84	11	51	66	0	2	30	1.05
9621193--9621253	30	2.0	30	100	0	122	36	3	24	36	1.72
9640177--9640482	27	11.4	27	88	1	409	40	19	19	19	1.92
9640841--9640904	33	1.9	34	84	9	87	25	21	23	29	1.99
9645392--9645435	18	2.3	18	84	7	52	22	22	40	13	1.89
9645599--9645736	27	5.1	27	78	13	133	38	21	8	31	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9645599--9645812	54	3.9	54	81	6	168	39	22	9	28	1.85
9645642--9645813	27	6.3	27	68	11	100	39	24	9	26	1.85
9645768--9645826	27	2.2	27	81	6	66	45	18	10	25	1.81
9646279--9646334	27	2.1	27	89	0	85	19	23	23	33	1.97
9649594--9649618	13	1.9	13	100	0	50	32	12	0	56	1.36
9656039--9656079	19	2.2	19	100	0	82	39	36	14	9	1.79
9669527--9669580	16	3.3	15	80	12	54	83	7	3	5	0.91
9670005--9670140	55	2.5	55	84	4	170	44	18	25	11	1.83
9671338--9672097	51	15.4	51	81	7	913	28	17	24	29	1.97
9671885--9672060	41	4.0	41	73	13	145	27	18	25	27	1.98
9671737--9672092	92	3.8	92	86	2	469	27	17	24	30	1.98
9674283--9674316	17	1.9	18	88	5	52	17	2	20	58	1.51
9675709--9675757	21	2.3	21	80	10	55	34	0	14	51	1.43
9678176--9678465	42	6.8	42	89	3	384	34	22	19	24	1.97
9678198--9678441	85	2.9	84	91	1	398	34	22	19	24	1.97
9678198--9678441	127	1.9	127	94	0	425	34	22	19	24	1.97
9678176--9678465	85	3.4	84	86	3	375	34	22	19	24	1.97
9678963--9679031	21	3.3	21	89	0	102	2	40	18	37	1.66
9685049--9685186	41	3.1	41	63	25	100	48	5	5	40	1.49
9685055--9685195	44	3.0	49	65	23	138	48	4	7	39	1.52
9685018--9685195	92	1.9	92	100	0	356	48	4	6	39	1.50
9685200--9685224	12	2.1	12	100	0	50	32	0	16	52	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9685243--9685280	7	5.6	7	82	17	53	28	0	13	57	1.36
9685285--9685341	21	2.8	19	79	12	60	40	5	12	42	1.65
9685306--9685414	52	2.1	52	89	3	166	33	5	12	47	1.65
9693646--9693677	8	4.0	8	100	0	64	50	0	0	50	1.00
9715410--9715770	44	8.2	44	90	0	490	27	24	18	28	1.98
9720204--9720238	2	17.5	2	100	0	70	48	0	0	51	1.00
9730064--9730209	41	3.6	41	84	5	136	31	29	19	19	1.96
9730105--9730304	41	4.9	41	90	1	278	34	24	19	22	1.97
9730949--9730983	17	2.1	17	89	5	54	31	14	5	48	1.67
9740915--9740951	16	2.3	16	95	0	65	18	54	5	21	1.64
9744016--9744149	66	2.0	66	98	0	259	35	17	20	26	1.94
9746433--9746471	5	7.8	5	100	0	78	41	0	0	58	0.98
9746504--9746558	16	3.6	15	83	11	67	74	7	18	0	1.04
9746504--9746558	14	3.6	14	77	15	56	74	7	18	0	1.04
9747582--9747631	23	2.2	23	85	0	64	20	26	20	34	1.96
9747695--9747774	25	3.2	25	75	10	74	22	30	18	28	1.98
9755614--9755715	50	2.0	50	86	3	143	37	4	13	44	1.66
9769923--9769969	10	4.9	10	84	7	62	31	0	0	68	0.90
9769923--9769966	19	2.3	19	92	0	70	29	0	0	70	0.88
9769923--9769965	11	4.2	11	77	17	56	27	0	0	72	0.85
9769923--9769970	9	4.9	9	83	16	60	33	0	0	66	0.92
9770566--9770634	31	2.2	31	86	0	102	42	10	11	36	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9774420--9774453	2	17.0	2	100	0	68	0	50	0	50	1.00
9779530--9779569	21	1.9	21	94	0	71	30	0	22	47	1.52
9779873--9779933	29	2.1	28	84	3	77	26	14	16	42	1.87
9780860--9780926	29	2.3	29	81	0	80	43	17	14	23	1.87
9787941--9787987	16	2.9	16	100	0	94	25	12	4	57	1.54
9794103--9794138	18	1.9	19	88	5	56	41	0	19	38	1.52
9794185--9794290	48	2.2	46	87	9	151	25	15	25	33	1.95
9797393--9797417	11	2.3	11	100	0	50	24	8	16	52	1.70
9808944--9809043	29	3.3	29	87	4	137	31	6	20	43	1.76
9809013--9809096	37	2.3	37	82	10	102	29	3	17	48	1.64

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