genome.fa.s7.2.7.7.80.10.50.1000.42.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  42  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)
14345738--14345774	16	2.3	16	85	0	56	72	0	5	21	1.04
14346655--14346710	22	2.5	23	82	11	71	23	7	3	66	1.33
14356807--14356844	19	2.1	19	90	5	60	57	5	2	34	1.35
14356804--14356872	27	2.6	26	77	11	68	56	5	1	36	1.32
14356851--14356892	21	2.0	21	81	9	50	71	4	2	21	1.16
14359141--14359198	31	1.9	30	86	10	82	36	13	8	41	1.76
14365131--14365256	51	2.5	50	75	6	137	35	10	5	48	1.61
14365691--14365792	52	2.0	52	96	0	186	33	24	18	23	1.97
14365743--14365827	42	2.0	43	90	2	136	28	25	17	28	1.98
14366205--14366339	66	2.0	66	92	0	225	14	26	18	40	1.88
14371704--14372256	9	61.0	9	80	4	585	32	2	17	47	1.62
14371704--14372256	100	5.6	100	89	2	713	32	2	17	47	1.62
14372291--14372348	12	5.0	12	79	8	66	29	3	18	48	1.65
14372441--14372478	9	4.4	9	83	12	53	44	0	10	44	1.38
14372443--14372474	16	2.0	16	93	0	55	40	0	12	46	1.42
14372627--14372684	29	2.0	29	100	0	116	41	3	24	31	1.71
14376765--14376805	22	1.9	21	85	14	57	56	24	0	19	1.42
14376832--14376907	23	3.3	23	71	23	77	47	22	2	27	1.64
14380908--14381107	41	4.9	40	90	2	283	38	29	17	15	1.91
14380865--14381107	82	3.0	81	85	4	285	36	27	18	16	1.93
14380832--14381093	123	2.1	122	82	7	309	36	26	19	17	1.94
14381949--14382064	62	1.9	60	82	10	146	62	3	1	32	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14382081--14382137	10	6.0	10	72	24	52	66	1	3	28	1.18
14382082--14382137	9	6.0	9	76	15	51	66	1	3	28	1.19
14382462--14382508	22	2.1	22	96	0	85	42	12	12	31	1.81
14382848--14382902	19	2.8	20	81	8	60	34	3	0	61	1.13
14392498--14392557	31	1.9	31	86	6	86	41	13	8	36	1.74
14403086--14403144	7	8.4	7	80	10	59	61	0	0	38	0.96
14407175--14407202	2	14.0	2	100	0	56	50	0	0	50	1.00
14408212--14408239	2	14.0	2	100	0	56	50	0	0	50	1.00
14417228--14417274	23	2.1	23	88	7	71	65	2	0	31	1.04
14417253--14417308	18	3.1	18	78	17	55	58	1	5	33	1.31
14417825--14417962	40	3.5	39	80	5	152	36	24	22	16	1.94
14417994--14418294	41	7.3	41	93	0	512	17	20	30	30	1.96
14418474--14418573	30	3.3	30	78	8	114	37	26	2	35	1.68
14419831--14419898	25	2.6	25	84	13	77	58	0	4	36	1.18
14419848--14419898	9	5.6	10	78	17	58	58	0	1	39	1.09
14419928--14419986	23	2.5	24	83	8	77	49	3	0	47	1.18
14419928--14419986	24	2.5	23	83	13	75	49	3	0	47	1.18
14419949--14419997	22	2.2	23	85	3	64	48	8	2	40	1.44
14421131--14421172	12	3.8	12	75	18	54	73	0	26	0	0.83
14421136--14421194	9	6.6	9	73	13	50	66	0	33	0	0.92
14421130--14421194	16	4.0	16	73	16	53	67	0	32	0	0.91
14421129--14421190	21	2.9	21	87	4	88	69	0	30	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14421268--14421333	10	7.1	9	80	14	64	80	0	18	1	0.79
14421268--14421321	13	4.2	13	79	15	58	79	0	20	0	0.73
14421271--14421333	16	4.1	16	78	19	71	80	0	17	1	0.78
14421267--14421333	9	6.9	10	81	13	70	79	0	19	1	0.82
14421595--14421629	15	2.3	15	90	5	52	85	0	11	2	0.69
14421952--14421990	20	2.0	20	94	0	69	38	12	10	38	1.78
14422172--14422470	36	8.4	35	72	13	200	30	14	11	44	1.79
14422172--14422497	18	18.3	18	70	11	174	30	13	11	45	1.78
14422373--14422479	16	6.4	16	78	10	90	27	13	14	45	1.81
14422514--14422548	18	1.9	18	88	0	52	37	8	8	45	1.65
14423811--14423840	15	1.9	16	93	6	53	13	16	0	70	1.18
14430013--14430048	10	3.5	10	92	3	54	88	8	2	0	0.59
14430013--14430059	18	2.5	18	86	6	58	87	6	6	0	0.68
14430013--14430060	14	3.4	14	82	8	53	87	6	6	0	0.67
14430934--14432052	75	14.5	76	88	7	1413	27	15	20	36	1.93
14430917--14431986	236	4.6	228	86	8	1427	27	15	19	37	1.92
14432095--14432125	16	1.9	16	93	0	53	64	6	12	16	1.47
14432374--14432510	30	4.6	30	76	9	120	33	27	2	36	1.72
14432998--14433061	22	3.0	20	77	22	67	79	0	18	1	0.81
14432998--14433061	11	6.1	10	78	18	60	79	0	18	1	0.81
14433326--14433368	17	2.5	17	92	7	70	88	0	11	0	0.52
14433990--14434223	18	13.2	18	73	10	148	27	14	11	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14438019--14438272	91	2.8	91	90	3	352	30	5	24	40	1.76
14438011--14438852	23	36.9	23	73	11	509	30	5	23	40	1.78
14438103--14438731	137	4.6	137	81	6	774	30	6	23	40	1.79
14438225--14438588	160	2.3	160	91	0	593	30	6	23	39	1.79
14438400--14438680	114	2.5	114	93	1	476	29	6	23	40	1.79
14439756--14440002	43	5.8	43	87	2	331	21	17	32	29	1.96
14447263--14447383	31	3.9	31	73	12	90	38	3	0	58	1.14
14447332--14447383	11	4.9	11	80	17	65	42	1	0	55	1.10
14447300--14447383	42	2.0	43	84	9	111	38	2	0	59	1.10
14450471--14450551	25	3.2	25	89	5	110	17	32	18	32	1.94
14450471--14450567	25	3.9	25	86	6	99	17	29	20	31	1.96
14450471--14450583	50	2.3	50	80	10	117	18	28	21	31	1.97
14452850--14452883	18	1.9	18	88	5	52	47	26	8	17	1.77
14453590--14453715	39	3.2	38	76	6	103	42	22	5	29	1.76
14459760--14459835	28	2.6	28	80	18	75	46	2	6	44	1.43
14459760--14459835	27	2.6	29	80	18	77	46	2	6	44	1.43
14460674--14460698	7	3.6	7	100	0	50	12	16	0	72	1.13
14461488--14461564	14	5.0	15	71	20	52	42	14	9	33	1.77
14461504--14461543	20	2.0	20	90	0	62	50	12	10	27	1.72
14461492--14461558	34	1.9	35	90	3	109	46	13	8	31	1.74
14464634--14464694	31	2.0	31	87	6	90	34	11	9	44	1.74
14479746--14479839	19	4.8	19	88	5	143	38	10	14	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14479746--14479839	40	2.4	38	91	3	143	38	10	14	36	1.81
14479818--14479862	23	2.0	22	86	4	63	37	6	17	37	1.76
14479828--14479872	23	2.0	23	82	4	56	33	6	15	44	1.73
14480453--14480501	25	2.0	25	95	0	89	28	8	4	59	1.45
14481168--14481364	98	2.0	98	93	0	340	28	10	23	38	1.87
14494295--14494319	7	3.6	7	100	0	50	28	0	12	60	1.32
14494969--14495004	18	2.0	18	94	0	63	25	27	8	38	1.84
14495264--14495311	21	2.3	20	82	3	60	33	37	27	2	1.69
14495529--14496151	23	27.1	23	74	16	501	49	24	0	26	1.52
14495634--14496142	45	11.2	45	87	5	708	49	24	0	25	1.53
14495577--14496142	90	6.2	90	87	5	748	48	25	0	25	1.53
14495531--14496145	68	8.9	67	76	15	471	48	25	0	25	1.52
14496145--14496388	116	2.1	116	93	1	409	39	8	7	44	1.63
14499390--14499762	124	3.0	124	88	0	539	33	21	15	29	1.94
14512264--14512303	21	1.9	21	84	0	53	55	0	12	32	1.38
14512606--14512658	19	2.7	19	85	2	61	9	9	3	77	1.11
14513208--14513288	33	2.5	31	81	18	87	60	2	2	34	1.23
14513208--14513287	31	2.5	30	82	17	83	60	2	2	35	1.24
14518201--14518255	21	2.6	21	91	0	92	21	9	40	29	1.84
14518518--14518569	22	2.3	22	77	9	52	50	5	1	42	1.37
14522915--14522952	18	2.2	17	86	9	51	21	7	2	68	1.28
14525140--14525191	27	1.9	27	88	7	79	67	1	5	25	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14529348--14529404	14	4.3	14	82	8	66	71	5	3	19	1.19
14531495--14531541	23	2.0	23	83	0	58	40	10	10	38	1.75
14534000--14534154	36	4.0	36	81	15	202	27	20	15	36	1.93
14534036--14534190	46	3.6	46	80	16	222	28	22	14	34	1.93
14533959--14534190	82	2.9	82	94	1	398	27	22	15	34	1.94
14538544--14538729	46	4.0	46	96	0	327	29	28	8	33	1.87
14540632--14540692	6	9.8	6	77	13	61	77	3	19	0	0.91
14551897--14551942	23	2.1	23	84	15	62	43	8	4	43	1.55
14552742--14552781	2	20.0	2	100	0	80	50	0	0	50	1.00
14553902--14553941	18	2.2	18	86	8	55	67	12	0	20	1.22

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