genome.fa.s6.2.7.7.80.10.50.1000.89.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  89  of  168  ( 20060 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)
26439845--26439904	23	2.6	23	78	0	75	23	0	30	46	1.52
26439900--26439967	25	2.7	25	97	0	127	41	13	0	45	1.43
26439935--26440021	44	2.0	45	90	2	140	50	11	0	37	1.39
26447189--26447264	23	3.3	23	96	0	143	31	26	21	21	1.98
26447476--26447514	18	2.2	17	86	13	53	46	20	0	33	1.51
26449337--26449368	7	4.6	7	100	0	64	59	12	0	28	1.34
26450552--26450586	10	3.2	11	88	12	54	45	0	37	17	1.48
26453321--26453362	12	3.4	12	78	15	50	54	2	0	42	1.13
26454129--26454159	16	1.9	16	93	0	53	45	0	29	25	1.54
26454516--26454543	9	3.1	9	100	0	56	32	10	10	46	1.73
26465702--26465747	17	2.8	17	83	6	51	21	10	19	47	1.80
26465710--26465747	17	2.2	17	90	0	58	18	13	21	47	1.82
26465942--26465978	10	3.6	10	88	3	56	70	0	2	27	1.01
26467738--26467846	42	2.6	42	95	0	191	21	32	25	21	1.98
26468747--26468815	35	2.0	35	85	5	95	34	27	18	18	1.95
26474718--26474909	50	3.7	50	81	4	204	23	29	21	25	1.99
26482278--26482519	50	4.7	51	81	5	256	22	29	22	25	1.99
26482277--26482519	100	2.4	103	83	4	294	22	29	22	25	1.99
26488253--26488294	18	2.3	19	80	12	52	23	23	2	50	1.61
26489351--26489469	23	5.2	23	85	4	159	33	26	17	21	1.96
26489358--26489469	46	2.4	46	93	0	188	33	26	17	21	1.96
26489684--26489722	18	2.2	17	86	13	53	46	20	0	33	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26489907--26489964	30	1.9	30	85	0	80	29	20	8	41	1.82
26504319--26504449	55	2.4	55	84	6	167	28	21	23	26	1.99
26504319--26504473	55	2.8	55	80	3	152	27	20	24	27	1.99
26512252--26512418	30	5.6	30	76	12	150	25	24	11	38	1.90
26512196--26512421	89	2.5	89	85	3	301	25	24	11	38	1.89
26512198--26512425	59	3.8	58	78	9	176	25	23	11	39	1.89
26513415--26513449	13	2.7	13	100	0	70	45	14	0	40	1.45
26514512--26514549	20	1.9	20	94	0	67	21	10	13	55	1.67
26517877--26517934	20	2.9	20	82	7	73	41	18	29	10	1.84
26519903--26520126	27	8.2	28	75	12	146	39	21	9	29	1.85
26519911--26520128	55	4.0	55	79	10	232	39	19	9	31	1.83
26519903--26520128	82	2.7	83	82	4	271	39	21	9	30	1.84
26520371--26520585	27	7.9	27	78	8	204	40	20	7	31	1.81
26520371--26520585	55	3.9	54	79	6	236	40	20	7	31	1.81
26520371--26520585	82	2.6	81	82	7	247	40	20	7	31	1.81
26519972--26520803	459	1.8	459	95	1	1524	30	17	18	33	1.94
26527052--26527188	50	2.7	50	93	0	238	24	24	32	18	1.97
26527052--26527233	100	1.8	100	85	0	256	26	22	30	20	1.98
26527052--26527207	50	3.1	50	89	0	231	25	22	32	19	1.97
26534808--26534940	50	2.7	50	88	4	205	25	23	30	21	1.99
26539135--26539283	27	5.5	27	79	4	140	36	12	20	30	1.90
26539135--26539274	54	2.6	54	84	0	181	37	12	20	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26539135--26539298	54	3.0	52	77	8	159	37	12	19	29	1.89
26551629--26551659	16	1.9	16	93	0	53	29	12	25	32	1.93
26555166--26555212	20	2.4	19	89	3	67	42	8	4	44	1.54
26558250--26558323	37	2.0	37	92	2	123	31	24	9	35	1.87
26560909--26560938	3	10.0	3	100	0	60	66	0	0	33	0.92
26562328--26562361	14	2.4	14	95	0	59	35	11	11	41	1.78
26565116--26565142	3	9.0	3	100	0	54	66	0	0	33	0.92
26565324--26565366	23	1.9	22	90	4	68	55	2	6	34	1.39
26566908--26567172	100	2.6	99	92	2	433	26	22	21	30	1.98
26566910--26567177	50	5.4	50	72	7	229	25	23	20	30	1.99
26567311--26567419	40	2.6	42	88	5	150	27	26	19	26	1.99
26567311--26567790	44	11.2	44	75	14	165	28	25	18	27	1.98
26567300--26567564	88	3.1	86	68	12	211	26	24	18	29	1.98
26567600--26567801	44	4.6	44	93	1	325	30	27	16	25	1.97
26570339--26570404	25	2.6	25	83	9	71	56	6	18	19	1.62
26574192--26574220	3	9.7	3	100	0	58	68	31	0	0	0.89
26574219--26574260	3	14.0	3	100	0	84	66	0	0	33	0.92
26574369--26574414	4	11.5	4	100	0	92	76	0	0	23	0.79
26574465--26574507	23	1.9	22	90	4	68	55	2	6	34	1.39
26574776--26574813	20	1.9	20	88	0	58	63	2	0	34	1.09
26575189--26575246	22	2.6	22	81	7	64	41	17	5	36	1.72
26580641--26580734	47	2.0	47	91	0	152	23	17	13	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26588508--26588553	23	2.0	23	91	8	76	26	8	21	43	1.81
26593792--26593983	101	1.9	102	89	3	298	23	17	27	31	1.97
26593788--26593983	51	3.9	49	77	4	187	23	16	28	31	1.96
26593985--26594073	45	2.0	45	93	0	151	24	17	23	33	1.96
26600686--26600805	42	2.9	42	86	5	154	32	15	21	30	1.94
26602084--26602140	28	2.0	28	100	0	114	28	24	14	33	1.94
26602136--26602178	15	2.9	15	82	0	50	16	25	9	48	1.75
26618007--26618040	16	2.1	17	88	5	52	76	11	0	11	1.02
26626722--26626760	12	3.2	12	85	0	51	20	23	5	51	1.67
26627013--26627148	50	2.7	50	82	0	155	22	29	21	27	1.99
26629511--26629573	21	3.0	21	88	2	90	30	3	33	33	1.74
26630706--26630768	10	6.3	9	77	17	54	25	15	26	31	1.96
26630706--26630768	30	2.1	30	100	0	126	25	15	26	31	1.96
26633758--26633802	19	2.3	20	88	3	65	6	13	2	77	1.05
26633746--26633818	36	2.1	33	82	7	83	6	15	4	73	1.19
26638639--26638700	10	5.9	10	74	10	52	33	32	3	30	1.74
26638639--26638701	21	3.0	21	88	2	90	33	33	3	30	1.74
26642693--26642731	12	3.2	12	85	0	51	20	23	5	51	1.67
26643100--26643142	22	2.0	22	100	0	86	23	25	13	37	1.92
26647689--26647729	15	2.7	15	85	14	57	80	19	0	0	0.71
26647689--26647727	13	2.8	14	88	7	53	79	20	0	0	0.73
26647690--26647730	16	2.6	16	84	7	57	82	17	0	0	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26647737--26647778	19	2.3	18	87	4	57	83	0	14	2	0.75
26648270--26648302	7	4.7	7	88	11	50	72	0	15	12	1.12
26648270--26648302	13	2.4	14	90	10	50	72	0	15	12	1.12
26649644--26650610	50	19.5	50	67	7	486	29	23	25	21	1.99
26649639--26650644	99	10.1	99	89	2	1464	29	23	25	21	1.99
26652117--26652171	3	18.0	3	78	17	60	32	1	3	61	1.24
26652090--26652171	22	3.6	22	78	15	78	32	3	3	59	1.32
26652117--26652170	14	3.8	14	87	7	65	33	1	3	61	1.25
26670376--26670459	23	3.5	25	73	16	70	32	20	23	23	1.98
26673047--26673085	19	2.0	21	85	10	55	61	0	28	10	1.28
26674243--26674362	29	4.1	29	82	4	152	37	12	27	22	1.90
26674242--26674351	58	1.9	58	90	3	177	38	10	29	22	1.87
26685102--26685177	39	2.0	39	92	2	127	25	15	22	36	1.93
26687315--26687417	31	3.5	30	71	20	99	51	3	5	38	1.44
26687319--26687429	57	1.9	58	85	5	154	51	3	6	38	1.45
26688698--26688828	45	2.9	45	96	0	244	22	18	27	32	1.97
26692897--26693150	101	2.5	101	85	6	345	30	25	16	27	1.97
26697776--26697811	18	1.9	19	88	5	56	58	2	27	11	1.46
26699935--26700003	34	2.1	34	83	2	86	27	27	20	24	1.99
26702684--26702872	51	3.8	49	82	4	216	27	15	26	29	1.96
26711910--26712047	51	2.7	50	84	1	168	23	15	28	31	1.96
26713823--26713885	27	2.3	28	91	2	101	7	14	38	39	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26715893--26716071	50	3.6	50	83	3	207	28	21	28	21	1.99
26717759--26717813	24	2.3	24	80	0	74	43	3	21	30	1.70
26720800--26720829	12	2.5	12	94	0	51	6	30	40	23	1.80
26726382--26726457	40	1.9	40	86	5	109	32	21	32	13	1.91
26726382--26726445	20	3.2	20	78	8	76	31	20	35	12	1.90
26726442--26726524	39	2.1	39	84	6	105	31	18	32	18	1.94
26746329--26746492	60	2.8	58	78	5	168	33	24	15	26	1.95
26755694--26755915	63	3.6	63	80	2	245	32	21	21	24	1.98
26756008--26756076	33	2.1	33	91	0	111	42	18	13	26	1.87
26756063--26756105	18	2.4	18	88	0	59	37	23	11	27	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