genome.fa.s7.2.7.7.80.10.50.1000.190.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  190  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)
56051092--56051152	27	2.2	27	82	11	70	19	8	8	63	1.47
56051781--56052000	121	1.8	121	83	2	289	39	15	8	36	1.78
56052071--56052112	21	2.1	20	86	8	59	42	0	9	47	1.36
56055758--56055783	7	3.7	7	100	0	52	0	42	0	57	0.98
56058258--56058414	72	2.2	72	83	0	197	33	14	17	34	1.91
56069030--56069083	2	28.5	2	83	10	60	53	0	5	40	1.24
56069030--56069116	35	2.6	32	81	7	84	55	2	8	34	1.42
56069342--56069396	28	2.0	28	85	7	76	49	0	12	38	1.41
56069419--56069566	3	48.7	3	69	7	68	58	4	4	32	1.40
56071331--56071366	16	2.3	16	90	4	56	86	0	5	8	0.72
56072209--56072322	44	2.6	44	85	0	147	28	23	14	33	1.94
56072514--56072802	45	6.5	44	73	3	202	26	24	19	29	1.98
56072513--56072721	89	2.3	89	87	1	294	25	24	19	30	1.98
56072553--56072768	89	2.4	89	85	2	263	25	25	19	29	1.98
56084655--56084724	23	3.0	22	73	15	61	51	8	8	31	1.63
56086003--56086046	14	2.9	15	83	12	54	79	0	2	18	0.83
56086974--56087000	7	3.9	7	100	0	54	0	11	0	88	0.50
56088421--56088541	23	5.2	23	82	6	136	33	4	4	57	1.42
56088421--56088541	24	5.2	23	80	6	109	33	4	4	57	1.42
56088411--56088541	47	2.8	46	82	5	156	33	6	4	55	1.45
56088704--56088779	23	3.5	22	73	21	70	28	5	1	64	1.23
56088708--56088745	18	2.2	17	86	9	51	31	2	2	63	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56088711--56088760	25	1.9	27	84	8	68	30	4	2	64	1.23
56088995--56089053	27	2.1	28	84	3	75	35	6	0	57	1.25
56089216--56089253	17	2.2	18	86	13	53	21	2	13	63	1.42
56090570--56090759	104	1.8	103	93	1	326	21	16	17	43	1.88
56091930--56092245	72	4.4	72	84	1	427	29	14	19	36	1.91
56091936--56092246	144	2.2	144	94	1	534	29	14	19	36	1.91
56095468--56095552	42	2.0	41	84	10	111	29	4	5	60	1.41
56102882--56102924	2	21.5	2	100	0	86	48	0	0	51	1.00
56104964--56105003	16	2.4	16	83	4	53	40	2	0	57	1.12
56113205--56113247	18	2.5	17	85	7	59	48	0	4	46	1.22
56113205--56113255	19	2.8	18	88	5	68	47	0	5	47	1.26
56113211--56113259	19	2.7	18	90	3	71	40	0	6	53	1.26
56114102--56114137	15	2.5	14	86	4	54	61	0	5	33	1.19
56114203--56114246	23	2.0	23	81	4	54	40	9	0	50	1.34
56117005--56117043	16	2.5	16	91	4	62	74	0	7	17	1.05
56117795--56117835	7	5.7	7	85	5	55	63	0	2	34	1.08
56117795--56117837	22	2.0	21	90	4	68	62	0	2	34	1.08
56118238--56118276	21	1.9	20	84	5	51	53	0	2	43	1.14
56135246--56135285	3	13.3	3	94	0	71	30	0	2	67	1.04
56136161--56136197	18	2.0	18	89	5	56	72	5	2	18	1.15
56136575--56136628	28	1.9	28	85	7	74	44	3	7	44	1.49
56136959--56136991	15	2.1	16	88	5	50	24	0	3	72	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56144297--56144322	11	2.4	11	100	0	52	23	0	19	57	1.40
56144670--56144701	15	2.1	15	100	0	64	21	12	25	40	1.88
56147307--56147524	119	1.8	120	85	1	312	33	11	16	38	1.85
56152852--56153164	72	4.3	72	85	1	430	36	18	13	31	1.89
56152848--56153164	144	2.2	144	93	1	528	36	18	13	30	1.90
56160408--56160489	21	3.9	21	70	12	60	58	6	9	25	1.53
56160413--56160498	15	5.7	15	76	5	66	58	4	9	27	1.49
56160454--56160497	18	2.4	18	88	0	61	56	2	11	29	1.46
56160971--56161117	73	2.0	73	97	0	276	33	25	26	14	1.94
56164607--56164821	118	1.8	119	88	1	333	33	11	16	39	1.84
56165220--56165262	22	2.0	22	86	9	61	58	4	6	30	1.45
56172341--56172657	72	4.4	72	84	1	411	37	19	13	29	1.90
56172341--56172657	144	2.2	144	93	1	537	37	19	13	29	1.90
56174597--56174650	28	1.9	29	85	7	76	51	1	0	46	1.11
56178526--56178743	119	1.8	119	88	3	330	33	10	18	38	1.85
56192224--56192466	72	3.4	72	83	4	328	37	18	13	30	1.90
56193637--56193826	104	1.8	103	93	1	326	43	17	16	21	1.88
56195257--56195294	17	2.2	18	90	4	60	63	15	2	18	1.43
56195470--56195528	27	2.1	28	84	3	75	57	1	5	35	1.31
56195766--56195835	23	3.0	23	80	12	70	64	1	4	30	1.21
56195791--56195831	18	2.4	17	84	8	57	63	2	2	31	1.20
56195842--56195879	19	2.1	19	85	9	53	47	2	7	42	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56196000--56196131	23	5.7	23	77	7	124	56	3	6	33	1.41
56196000--56196131	47	2.8	46	81	5	158	56	3	6	33	1.41
56200189--56200429	72	3.3	72	84	3	351	36	20	14	29	1.92
56211359--56211384	2	13.0	2	100	0	52	50	0	0	50	1.00
56213463--56213498	14	2.6	14	95	0	63	19	22	13	44	1.86
56214851--56214907	11	5.0	11	77	12	53	84	7	5	3	0.87
56214849--56214906	26	2.3	26	85	8	75	84	6	5	3	0.86
56214863--56214903	21	2.0	21	85	9	57	85	4	4	4	0.83
56214849--56214894	13	3.6	12	85	11	56	84	6	4	4	0.85
56214850--56214906	13	4.7	12	75	16	55	85	5	5	3	0.80
56215338--56215385	18	2.6	19	93	3	80	81	2	16	0	0.79
56215337--56215386	26	1.9	26	84	8	66	82	2	16	0	0.77
56215724--56215919	108	1.8	108	88	2	304	25	17	10	46	1.80
56216357--56216795	86	5.1	86	91	1	610	27	23	23	26	2.00
56216544--56216680	44	3.2	44	64	19	115	21	24	24	29	1.99
56216822--56217154	46	7.4	46	67	10	170	27	18	23	30	1.98
56216751--56217154	134	3.0	134	95	0	720	27	19	22	30	1.98
56220361--56220501	70	2.0	70	100	0	282	43	9	8	37	1.69
56225779--56225820	22	1.9	22	85	0	57	45	23	14	16	1.84
56227952--56227987	18	1.9	18	88	5	54	58	2	0	38	1.13
56233074--56233160	34	2.6	34	90	0	129	52	12	10	24	1.70
56233464--56233523	30	2.0	30	93	0	102	58	11	3	26	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56241885--56241997	3	37.0	3	85	11	142	32	2	0	63	1.14
56242604--56242743	72	1.9	72	88	0	208	29	17	18	34	1.94
56243315--56243394	39	2.1	39	100	0	160	36	10	17	36	1.83
56243512--56243536	7	3.6	7	100	0	50	60	0	28	12	1.32
56244010--56244054	13	3.1	15	81	15	58	31	0	13	55	1.38
56244012--56244057	15	3.1	15	76	14	51	34	0	13	52	1.40
56250589--56250639	24	2.1	23	82	13	59	72	1	9	15	1.19
56252843--56252903	31	2.0	31	90	0	95	39	4	3	52	1.39
56254973--56255023	3	17.0	3	100	0	102	66	0	0	33	0.92
56268111--56268165	29	1.9	28	85	3	74	32	9	3	54	1.49
56273536--56273839	72	4.2	72	88	0	446	36	20	13	30	1.90
56273536--56273839	144	2.1	144	95	1	538	36	20	13	30	1.90
56275603--56275700	3	33.0	3	74	10	85	33	4	3	59	1.32
56278750--56278806	22	2.7	21	76	12	55	33	0	3	63	1.12
56291910--56291965	23	2.4	23	82	5	69	55	3	3	37	1.35
56292164--56292232	23	3.2	23	79	16	69	66	0	8	24	1.19
56292196--56292230	15	2.3	15	90	9	54	65	0	5	28	1.15
56292270--56292322	26	2.0	26	82	14	63	71	0	3	24	1.02
56292880--56292937	5	11.4	5	77	18	50	79	0	5	15	0.90
56292891--56292934	16	2.7	16	89	3	61	81	0	4	13	0.83
56292886--56292937	23	2.3	22	83	9	61	80	0	3	15	0.85
56293525--56293554	15	1.9	15	93	6	51	83	3	0	13	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56297516--56297589	36	2.1	36	94	0	130	43	10	17	28	1.83
56308733--56308757	10	2.5	10	100	0	50	52	20	12	16	1.75
56319112--56319142	4	7.8	4	100	0	62	77	0	0	22	0.77
56328897--56329044	72	2.1	72	85	2	199	37	18	14	29	1.91
56334459--56334488	16	1.9	15	93	6	51	53	6	0	40	1.27
56343085--56343137	24	2.2	24	82	0	70	56	3	3	35	1.35
56343091--56343136	24	1.9	24	90	0	74	52	4	4	39	1.41
56350504--56350572	23	3.2	23	79	16	69	66	0	8	24	1.19
56350536--56350570	15	2.3	15	90	9	54	65	0	5	28	1.15
56355431--56355478	25	2.0	25	91	4	80	29	0	0	70	0.87

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