genome.fa.s7.2.7.7.80.10.50.1000.29.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  29  of  204  ( 24458 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)
10600453--10600544	10	9.0	10	69	20	57	54	3	2	40	1.29
10600498--10600537	21	1.9	21	85	10	55	45	2	0	52	1.14
10600650--10600753	49	2.1	48	81	11	115	34	5	2	56	1.38
10609954--10610044	42	2.2	42	85	0	128	23	27	24	25	2.00
10610019--10610157	29	4.8	29	95	0	242	17	32	33	16	1.93
10610453--10610483	14	2.2	14	94	0	53	48	12	0	38	1.42
10612695--10612874	43	4.3	43	80	2	195	32	23	15	28	1.95
10616789--10617502	355	2.0	354	96	0	1331	29	23	13	33	1.93
10624558--10624612	29	2.0	28	82	13	69	30	20	1	47	1.60
10626964--10627034	30	2.4	30	90	9	110	16	16	56	9	1.66
10626964--10627014	18	3.2	18	69	30	60	17	19	54	7	1.67
10627072--10627136	27	2.4	27	100	0	130	7	24	46	21	1.77
10640828--10641084	51	5.4	51	74	13	224	31	13	24	30	1.93
10640885--10640970	37	2.3	37	91	0	145	29	12	23	34	1.92
10640835--10641007	88	2.0	86	93	2	292	30	12	23	33	1.92
10641060--10641085	7	3.7	7	100	0	52	42	11	30	15	1.82
10640823--10641082	138	1.9	138	86	1	358	31	13	24	30	1.93
10642724--10642858	41	3.3	40	83	11	175	28	22	27	22	1.99
10645784--10645852	24	2.8	24	76	10	77	39	18	23	18	1.93
10660554--10660648	47	2.0	47	100	0	190	26	23	25	25	2.00
10661440--10661479	14	2.9	14	84	0	53	42	17	7	32	1.77
10669131--10669262	27	4.9	27	70	7	79	34	15	24	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10669244--10669323	27	3.0	27	86	0	106	31	12	31	25	1.92
10673733--10673760	1	28.0	1	100	0	56	0	0	0	100	0.00
10679463--10679505	19	2.2	20	84	12	63	32	18	0	48	1.48
10679634--10679767	38	3.5	39	75	9	105	30	25	19	24	1.98
10679859--10679912	18	3.1	17	81	7	72	35	20	0	44	1.52
10688058--10688101	16	2.8	17	83	13	58	4	18	9	68	1.34
10688417--10688488	33	2.2	32	85	11	94	52	8	0	38	1.32
10691911--10691959	17	2.8	18	78	9	57	59	0	4	36	1.17
10693233--10693290	23	2.3	26	82	8	77	22	24	20	32	1.98
10693858--10693904	24	2.0	24	86	0	67	51	6	8	34	1.58
10693978--10694009	16	1.9	17	93	6	57	75	3	18	3	1.08
10694954--10695005	22	2.4	22	90	6	79	11	26	17	44	1.83
10696433--10696500	11	6.3	10	77	13	64	73	2	22	1	1.05
10696434--10696507	29	2.5	29	73	8	69	71	2	22	2	1.11
10697373--10697511	41	3.5	40	75	8	106	26	18	23	31	1.97
10705665--10705714	8	6.2	8	100	0	100	12	12	12	64	1.51
10712401--10712442	23	1.9	23	90	9	70	35	2	4	57	1.33
10720717--10720769	18	2.7	20	80	8	56	47	0	7	45	1.31
10728739--10728776	19	2.1	19	85	9	53	26	7	0	65	1.19
10738691--10738892	46	4.5	46	94	1	347	33	14	23	28	1.94
10740812--10740873	24	2.6	25	89	5	85	38	20	22	17	1.93
10754883--10754909	3	9.0	3	100	0	54	33	33	0	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10761008--10761064	19	3.1	18	77	7	60	31	3	1	63	1.22
10762088--10762112	5	5.0	5	100	0	50	0	0	80	20	0.72
10777266--10777310	24	1.9	23	86	4	63	53	0	0	46	1.00
10777357--10777394	19	2.0	19	85	10	51	52	5	0	42	1.24
10783953--10784161	43	4.9	43	84	5	248	29	22	23	24	1.99
10783940--10784161	84	2.6	85	84	4	295	28	23	24	23	2.00
10784598--10784659	21	3.0	21	87	0	79	4	45	17	32	1.70
10790181--10790515	9	37.8	9	65	20	111	34	2	17	45	1.61
10790174--10790530	16	21.4	16	67	21	132	34	2	17	45	1.61
10790226--10790264	19	2.1	19	85	9	53	30	0	17	51	1.46
10790246--10790351	25	4.2	24	75	10	88	30	1	20	47	1.61
10790219--10790335	52	2.3	50	83	7	137	29	0	21	47	1.56
10790339--10790382	19	2.3	19	92	0	70	36	0	18	45	1.49
10790454--10790494	13	2.8	15	85	14	59	34	0	19	46	1.50
10791820--10791861	19	2.2	19	100	0	84	9	21	9	59	1.57
10791826--10791867	19	2.2	19	91	0	66	14	21	7	57	1.61
10796255--10796385	7	18.0	7	67	16	61	32	42	1	22	1.63
10796256--10796365	14	7.5	15	77	11	95	31	43	1	22	1.64
10796281--10796365	29	2.9	30	85	7	102	31	42	2	23	1.67
10797151--10797367	41	5.3	40	71	15	158	35	27	16	20	1.94
10797455--10797561	40	2.7	41	75	15	118	20	24	22	32	1.98
10797448--10797557	39	2.8	38	75	17	109	18	23	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10803856--10804164	109	2.9	109	93	2	500	35	19	15	30	1.92
10804405--10804448	2	22.5	2	90	4	72	47	0	2	50	1.13
10804472--10804533	31	2.0	31	84	9	81	54	6	14	24	1.63
10835167--10835306	46	3.0	46	94	0	244	27	27	9	35	1.87
10836059--10836096	17	2.3	17	90	4	60	44	21	5	28	1.73
10837421--10837490	24	2.8	25	77	14	74	22	21	20	35	1.96
10839461--10839498	20	1.9	20	88	0	58	52	0	10	36	1.36
10840360--10840458	41	2.4	41	91	1	155	39	11	25	24	1.88
10841587--10841621	2	17.5	2	100	0	70	51	0	0	48	1.00
10872836--10872865	6	5.0	6	91	0	51	0	46	3	50	1.18
10874901--10874946	24	2.0	24	86	4	67	43	0	13	43	1.43
10875104--10875133	2	15.0	2	100	0	60	50	0	0	50	1.00
10876289--10876324	18	1.9	18	88	5	54	63	0	2	33	1.08
10882038--10882069	16	2.0	16	93	0	55	65	0	21	12	1.25
10893091--10893137	22	2.1	22	100	0	94	40	10	10	38	1.75
10895560--10895591	2	16.0	2	93	0	55	50	3	0	46	1.17
10896744--10896782	20	2.0	20	94	0	69	48	2	0	48	1.15
10898777--10898815	19	2.1	19	100	0	78	46	0	25	28	1.53
10899275--10899306	14	2.3	14	94	0	55	40	21	6	31	1.78
10922908--10922938	15	2.1	15	100	0	62	45	0	0	54	0.99
10929128--10929178	21	2.4	21	76	0	57	41	23	17	17	1.90
10931852--10931891	20	2.0	20	90	0	62	27	10	12	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10931837--10931903	34	1.9	35	90	3	109	32	7	11	47	1.68
10940092--10940195	53	2.0	53	100	0	208	35	5	21	37	1.77
10940267--10940305	18	2.2	18	90	0	60	35	12	7	43	1.72
10962011--10962062	23	2.3	23	83	12	63	0	15	3	80	0.85
10962357--10962414	11	5.3	11	74	13	57	67	3	1	27	1.17
10962357--10962415	10	5.5	10	76	20	57	66	3	1	28	1.18
10962513--10962562	21	2.4	22	83	10	68	32	0	2	66	1.03
10962527--10962570	21	2.1	21	91	4	72	22	0	6	70	1.11
10968035--10968077	11	3.8	12	81	9	54	74	0	4	20	1.00
10968074--10968113	20	2.0	20	85	0	53	55	7	2	35	1.42
10968491--10968723	9	24.6	9	69	17	120	34	1	2	61	1.20
10968489--10968659	20	8.8	19	69	17	93	32	1	3	63	1.19
10968479--10968660	40	4.6	39	74	18	146	31	1	3	63	1.20
10968612--10968682	29	2.4	30	81	15	94	38	0	1	60	1.06
10968703--10968765	10	6.1	10	74	10	56	25	3	3	68	1.19
10979327--10979358	16	2.0	16	93	0	55	25	15	0	59	1.36
10979488--10979575	46	2.0	44	84	8	115	35	23	15	25	1.95
10983488--10983862	46	8.3	46	88	8	294	36	15	21	27	1.93
10983488--10983788	46	6.3	48	86	10	368	35	14	21	28	1.93
10983422--10983788	98	3.7	97	83	10	467	34	14	21	28	1.93
10983436--10983788	196	1.8	196	91	1	591	35	14	21	28	1.93
10983752--10983971	37	6.0	37	96	1	390	37	16	21	24	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10986222--10986279	25	2.4	25	77	8	66	22	25	17	34	1.96
10986432--10986505	24	3.0	25	76	7	64	20	22	22	33	1.97
10989211--10989259	16	3.1	16	75	18	50	38	16	0	44	1.48
10989492--10989711	25	8.9	25	66	13	80	36	21	22	19	1.95
10989516--10989653	73	1.9	73	82	5	172	33	22	23	20	1.97
10989592--10989639	23	2.1	23	84	0	60	29	22	31	16	1.96
10994866--10995154	50	5.7	50	81	4	271	28	20	27	23	1.99
11001116--11001192	33	2.3	34	82	8	95	59	1	1	37	1.14
11001133--11001178	16	2.8	17	75	18	51	58	2	2	36	1.22
11001292--11001364	20	3.8	19	77	12	60	63	5	2	28	1.31

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