genome.fa.s10.2.7.7.80.10.50.1000.37.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  37  of  202  ( 24201 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)
10930577--10931009	214	2.0	214	97	0	812	38	7	15	39	1.75
10931926--10932088	45	3.6	45	85	3	193	41	15	19	23	1.90
10939470--10939640	85	2.0	85	90	0	270	19	15	12	53	1.73
10942151--10942204	23	2.2	24	80	9	65	44	22	16	16	1.86
10942163--10942211	23	2.1	23	96	0	89	42	20	20	16	1.89
10943836--10943887	24	2.2	24	92	0	86	36	1	9	51	1.46
10951326--10951368	12	3.7	11	84	9	50	53	4	0	41	1.21
10951338--10951396	12	5.0	12	75	17	52	59	1	0	38	1.08
10951351--10951404	24	2.3	23	81	15	65	62	1	0	35	1.06
10954017--10954161	34	4.3	34	76	10	161	35	22	22	19	1.96
10954017--10954158	68	2.1	68	84	5	180	35	23	22	19	1.96
10956866--10957017	62	2.3	68	73	15	156	40	25	7	25	1.82
10959212--10959257	18	2.5	19	76	16	51	67	0	4	28	1.10
10966884--10966913	15	2.0	15	93	0	51	56	10	6	26	1.57
10968527--10968867	96	3.5	96	89	2	468	26	17	20	35	1.95
10968527--10968989	96	4.8	98	84	5	408	26	17	20	34	1.96
10968835--10969040	97	2.2	92	84	5	259	26	16	22	33	1.96
10968691--10968985	145	2.0	144	89	3	459	27	16	21	34	1.95
10969043--10969219	88	2.0	90	89	2	277	25	22	22	29	1.99
10969099--10969629	44	12.1	43	65	16	173	26	23	19	30	1.98
10969176--10969781	131	4.6	131	92	1	957	26	23	19	30	1.98
10971798--10971873	22	3.4	22	84	13	102	18	7	3	69	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10971811--10971880	14	4.8	14	69	22	54	18	4	4	72	1.17
10972744--10972806	25	2.5	24	77	12	65	63	3	14	19	1.43
10974093--10974132	21	1.9	21	84	0	53	22	30	0	47	1.52
10977850--10977882	15	2.3	15	89	5	50	75	3	9	12	1.14
10979863--10979891	15	1.9	15	100	0	58	20	0	34	44	1.52
10979898--10980070	96	1.8	95	88	3	267	28	1	27	42	1.63
10984942--10985032	43	2.1	43	84	6	114	35	10	8	45	1.71
10985319--10985604	43	6.7	42	82	5	267	22	16	30	30	1.96
10985642--10985686	22	2.1	21	87	4	63	40	28	17	13	1.88
10987580--10987605	9	2.9	9	100	0	52	42	11	0	46	1.40
10987761--10987809	20	2.5	19	87	6	71	57	2	0	40	1.10
10990170--10990453	118	2.4	116	79	7	265	28	14	20	36	1.92
10996581--10996644	31	2.1	31	100	0	128	48	12	6	32	1.66
11003343--11003428	35	2.5	35	80	0	109	26	22	16	34	1.95
11005101--11005222	56	2.1	58	93	3	212	28	18	4	47	1.69
11014158--11014201	22	1.9	24	90	9	74	47	0	11	40	1.39
11014301--11014339	20	2.0	20	84	0	51	51	7	7	33	1.59
11019302--11019439	46	3.0	45	91	2	204	28	26	9	35	1.88
11024947--11025084	46	3.0	46	95	1	242	28	26	11	34	1.91
11030649--11030782	35	3.8	36	83	4	148	12	11	35	40	1.80
11033043--11033087	20	2.0	23	84	16	60	44	2	8	44	1.47
11034176--11034210	16	2.2	16	90	10	54	37	20	5	37	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11035195--11035235	20	2.0	20	86	9	57	58	0	0	41	0.98
11041868--11041902	6	5.8	6	100	0	70	68	14	0	17	1.21
11042966--11043309	156	2.2	156	85	6	457	36	15	20	28	1.92
11044915--11045066	60	2.5	60	89	1	234	52	7	6	32	1.56
11045466--11045502	18	2.1	18	100	0	74	40	10	27	21	1.86
11046295--11046338	21	2.1	21	83	8	54	56	9	18	15	1.65
11050606--11050998	87	4.5	87	94	0	660	28	23	24	23	1.99
11050706--11050929	42	5.2	43	62	18	113	29	24	22	24	1.99
11051091--11051218	44	2.9	44	77	6	143	28	21	25	23	1.99
11055906--11055971	21	3.1	21	77	16	57	65	0	3	31	1.08
11057617--11057654	20	2.0	20	89	5	60	52	2	2	42	1.29
11066776--11066821	23	1.9	23	82	8	56	43	13	10	32	1.78
11070650--11070717	27	2.6	27	86	6	95	33	0	0	66	0.92
11070650--11070726	26	2.9	26	83	7	93	32	0	1	66	1.00
11079955--11080006	2	26.5	2	96	3	97	50	0	0	50	1.00
11085283--11085464	91	2.0	91	98	0	355	35	10	18	35	1.86
11096431--11096488	14	3.6	17	75	17	61	48	1	0	50	1.11
11096979--11097005	5	5.4	5	100	0	54	0	40	0	59	0.98
11098129--11098161	16	2.0	17	88	5	50	39	0	0	60	0.97
11098696--11098814	60	2.0	60	91	0	193	32	1	13	52	1.51
11099066--11099336	103	2.7	103	95	2	485	26	0	15	57	1.43
11099498--11099583	40	2.1	40	82	6	102	32	20	24	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11099514--11099590	40	1.9	40	89	0	118	32	24	20	22	1.98
11099676--11099788	41	2.8	41	90	0	172	20	20	30	29	1.97
11100206--11100263	27	2.1	27	90	6	91	24	0	41	34	1.55
11101192--11101235	21	2.1	21	87	4	63	25	50	4	20	1.67
11103572--11103851	46	6.6	46	78	16	300	36	13	21	28	1.92
11103654--11103805	36	3.9	36	75	15	151	38	14	18	28	1.90
11103608--11103834	82	2.8	81	91	0	364	36	15	19	28	1.93
11107950--11108137	43	4.3	43	87	5	252	22	19	26	31	1.97
11107973--11108137	89	1.9	89	90	0	267	21	20	26	31	1.98
11110443--11111057	76	7.9	77	91	5	934	25	7	10	56	1.60
11110443--11111057	159	3.9	154	90	6	934	25	7	10	56	1.60
11110443--11111057	235	2.6	231	92	2	1014	25	7	10	56	1.60
11112238--11112776	106	5.1	106	91	1	850	32	16	18	32	1.93
11114867--11114984	44	2.7	44	82	2	139	26	22	22	27	1.99
11114911--11115683	129	6.0	129	89	0	1111	26	21	21	30	1.98
11115045--11115628	44	13.6	44	68	13	304	26	21	22	29	1.99
11126942--11127262	106	3.0	105	93	0	543	32	17	18	31	1.94
11132433--11132519	45	1.9	45	88	0	129	41	6	12	39	1.70
11133012--11133093	30	2.7	30	92	0	137	24	23	6	46	1.75
11133012--11133087	15	5.1	15	67	10	57	25	22	6	46	1.76
11142296--11142334	17	2.3	17	90	0	60	46	2	2	48	1.29
11142448--11142481	17	1.9	18	88	5	52	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11142379--11142518	60	2.3	61	86	2	192	51	2	4	41	1.36
11142619--11142655	17	2.2	17	90	0	56	56	0	2	40	1.13
11142674--11142724	25	2.0	25	85	7	68	47	3	1	47	1.32
11142628--11142773	69	2.1	69	86	5	197	48	3	4	43	1.41
11142868--11143013	70	2.1	71	85	3	197	45	3	2	47	1.33
11142916--11143034	19	6.8	17	70	19	66	42	2	0	53	1.20
11142975--11143034	18	3.3	18	81	6	59	41	3	0	55	1.16
11142879--11143153	71	3.8	71	71	10	211	43	4	2	49	1.35
11142978--11143025	9	5.2	9	80	5	51	37	4	0	58	1.18
11152018--11152056	20	2.0	19	90	5	60	35	5	2	56	1.35
11152571--11152622	24	2.2	24	85	0	68	38	3	7	50	1.50
11160166--11160217	24	2.2	24	89	0	77	36	3	9	50	1.54
11160822--11160864	23	1.9	23	90	4	70	37	0	2	60	1.10
11163659--11163684	12	2.2	12	100	0	52	38	15	7	38	1.76
11164977--11165066	30	2.8	32	80	5	103	47	3	10	38	1.53
11164931--11165076	33	4.5	33	73	13	117	51	4	7	36	1.49
11165705--11165743	20	2.0	20	84	0	51	74	10	0	15	1.07
11166212--11166282	35	2.1	33	82	12	83	35	15	32	16	1.91
11166360--11166423	26	2.5	25	80	14	76	28	1	1	68	1.07
11166390--11166430	20	2.0	20	90	9	64	31	0	2	65	1.05
11167342--11167369	14	2.0	14	100	0	56	7	28	0	64	1.20
11167322--11167366	19	2.2	22	88	11	69	6	24	0	68	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11170138--11170261	56	2.2	56	80	10	135	45	1	4	49	1.30
11170396--11170448	16	3.3	16	94	0	97	20	33	5	39	1.76
11173757--11173849	36	2.7	35	88	9	138	33	7	26	32	1.85
11173886--11174000	21	5.7	20	69	7	70	53	9	11	25	1.66
11174171--11174302	20	6.4	20	74	10	106	54	10	12	21	1.68
11174171--11174335	21	8.0	21	72	9	108	56	10	12	21	1.65
11174172--11174335	42	4.0	41	83	4	170	56	10	11	21	1.64
11174527--11174644	47	2.5	47	80	0	137	41	20	6	31	1.78
11174916--11174954	11	3.5	11	86	6	60	2	20	0	76	0.90
11175019--11175064	21	2.2	21	84	0	56	41	10	21	26	1.86

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