genome.fa.s2.2.7.7.80.10.50.1000.103.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   205   206   

This is table  103  of  206  ( 24623 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)
30391056--30391105	25	2.0	25	96	0	91	30	20	30	20	1.97
30396152--30396314	86	1.9	86	96	0	299	31	7	25	35	1.83
30402807--30402889	29	2.9	29	73	7	78	37	15	19	27	1.92
30413633--30413677	19	2.3	19	84	3	54	35	15	4	44	1.67
30415983--30416028	9	5.1	9	94	0	83	34	13	10	41	1.79
30421824--30422213	44	8.6	44	76	10	338	32	18	20	28	1.96
30423901--30423970	3	23.3	3	100	0	140	32	0	0	67	0.91
30424188--30424254	31	2.2	31	91	0	116	31	16	7	44	1.75
30437131--30437660	266	2.0	266	86	0	745	28	11	22	38	1.88
30438779--30438832	28	1.9	28	88	0	81	29	20	27	22	1.98
30438774--30438839	28	2.4	27	80	7	78	30	19	25	24	1.98
30439038--30439228	32	6.0	32	83	0	211	39	17	18	23	1.92
30439037--30439227	96	2.0	96	85	0	256	40	17	18	23	1.91
30439229--30439308	26	3.1	27	75	7	85	37	23	18	20	1.94
30439424--30439476	24	2.2	24	86	0	70	47	22	7	22	1.76
30439438--30439486	24	2.0	24	88	0	71	46	22	6	24	1.74
30439507--30439569	27	2.3	27	88	0	90	23	23	15	36	1.94
30439518--30439583	27	2.4	27	87	5	89	24	19	24	31	1.98
30440648--30440703	3	18.7	3	78	7	60	33	5	0	60	1.19
30440727--30440807	25	3.2	25	73	13	92	32	6	6	55	1.49
30440727--30440807	27	3.1	26	74	11	94	32	6	6	55	1.49
30446942--30447003	3	20.3	3	76	15	56	69	3	1	25	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30446942--30447014	12	6.6	11	74	16	55	68	4	1	26	1.15
30449454--30449685	44	5.3	44	65	8	148	26	31	22	19	1.98
30449445--30449751	88	3.5	88	91	1	499	28	28	22	19	1.98
30449445--30449795	88	4.0	88	88	2	483	28	28	22	19	1.98
30449762--30449883	44	2.8	43	83	7	140	28	19	25	26	1.99
30450247--30450852	44	13.9	43	69	14	235	29	21	21	26	1.99
30450554--30450660	45	2.5	40	84	13	160	21	24	24	29	1.99
30450357--30450838	263	1.8	262	79	5	562	29	22	22	26	1.99
30452103--30452137	18	1.9	18	88	0	52	22	2	11	62	1.41
30452140--30452179	15	2.9	14	82	17	57	35	5	0	60	1.19
30452203--30452283	25	3.2	25	72	6	81	29	7	6	56	1.51
30452203--30452292	27	3.4	25	73	8	81	31	7	6	54	1.55
30461813--30461953	69	2.0	69	100	0	282	34	13	15	36	1.87
30462176--30462208	13	2.4	14	90	5	50	27	0	3	69	1.03
30462211--30462260	17	2.9	17	77	14	57	24	6	4	66	1.32
30462800--30462844	21	2.1	22	83	4	56	46	2	0	51	1.13
30466999--30467056	4	14.5	4	96	0	107	25	0	24	50	1.50
30467611--30467696	25	3.5	24	75	3	73	32	13	18	34	1.90
30467611--30467818	50	4.2	50	81	2	202	28	12	20	37	1.90
30467633--30467824	25	7.7	25	79	6	129	26	13	21	38	1.91
30467635--30467823	75	2.5	75	80	6	204	26	13	21	38	1.91
30470219--30470281	27	2.3	28	86	2	83	26	28	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30471774--30471825	19	2.7	19	79	8	61	59	3	0	36	1.16
30471837--30471877	18	2.3	18	87	8	57	73	2	2	21	1.07
30472719--30472778	11	5.5	11	80	5	59	31	1	3	63	1.20
30477887--30477926	19	2.0	20	90	4	64	32	0	5	62	1.17
30478274--30478313	13	2.9	14	85	11	55	85	2	12	0	0.71
30478274--30478313	19	2.0	20	90	4	64	85	2	12	0	0.71
30478923--30478975	22	2.4	22	90	0	88	41	9	20	28	1.83
30482236--30482322	43	2.0	43	100	0	174	56	6	16	20	1.63
30482453--30482498	24	2.0	24	82	4	58	36	0	4	58	1.18
30483073--30483143	34	2.1	34	100	0	142	49	8	8	33	1.63
30487538--30487569	15	2.0	17	88	11	50	43	3	6	46	1.44
30487873--30487932	28	2.1	29	81	9	70	63	1	6	28	1.29
30495376--30495434	17	3.5	17	73	13	59	54	1	1	42	1.20
30508743--30508775	17	1.9	17	100	0	66	24	27	6	42	1.78
30509873--30509983	54	2.1	54	100	0	222	26	16	5	52	1.65
30511697--30511734	2	19.0	2	89	10	60	50	2	0	47	1.15
30515064--30515137	28	2.6	28	89	2	103	29	16	10	43	1.82
30516995--30517066	33	2.2	33	87	7	103	26	0	12	61	1.32
30517271--30517326	20	2.8	19	84	10	60	58	3	0	37	1.15
30517264--30517338	28	2.6	28	80	17	84	61	2	0	36	1.10
30517296--30517333	20	2.0	20	89	5	60	65	2	0	31	1.06
30519429--30519481	19	3.0	17	78	10	61	35	9	18	35	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30519453--30519497	23	2.0	23	91	4	74	37	4	17	40	1.70
30519463--30519507	23	2.0	23	86	4	65	33	4	15	46	1.66
30519673--30519717	22	2.1	22	83	4	56	15	6	4	73	1.21
30519940--30519982	3	14.3	3	80	9	52	30	0	0	69	0.88
30524613--30524642	16	1.9	15	93	6	51	86	0	13	0	0.57
30525912--30526113	44	4.6	44	67	10	133	28	19	26	24	1.99
30525900--30526185	133	2.2	132	95	1	527	29	22	24	23	1.99
30526254--30527550	44	29.9	42	70	15	503	29	20	23	27	1.98
30526177--30526844	217	3.1	215	84	4	837	28	19	23	28	1.98
30526298--30526843	173	3.1	176	81	8	491	28	19	23	27	1.99
30526296--30527540	390	3.2	390	90	1	1879	29	20	23	27	1.99
30526473--30526880	173	2.3	173	88	3	586	28	20	22	27	1.99
30526604--30527190	173	3.4	172	82	7	513	28	20	23	27	1.99
30526690--30527421	217	3.4	217	82	7	714	28	20	23	27	1.99
30526863--30527320	173	2.6	173	90	5	685	27	20	23	28	1.99
30527007--30527278	84	3.2	84	70	8	269	27	19	24	28	1.99
30526866--30527407	173	3.1	171	85	7	528	28	20	23	27	1.99
30527040--30527544	217	2.3	217	85	3	644	29	20	22	27	1.99
30527896--30527957	21	3.1	21	88	9	94	40	8	14	37	1.76
30527908--30527991	19	4.0	22	77	16	72	38	7	16	38	1.76
30527957--30528001	23	2.0	23	86	4	65	33	4	15	46	1.66
30531154--30531208	28	2.0	27	92	3	92	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30531702--30531763	30	2.1	30	93	0	106	25	3	12	58	1.50
30533928--30533979	21	2.6	19	77	16	52	51	9	15	23	1.72
30534984--30535040	26	2.2	26	87	6	80	21	28	8	42	1.82
30537603--30537654	16	3.3	15	77	15	52	75	1	5	17	1.10
30544904--30544945	20	2.1	20	95	0	75	23	11	26	38	1.90
30552227--30552260	16	2.1	17	94	5	61	35	17	5	41	1.74
30557064--30557099	16	2.3	16	90	4	56	72	0	0	27	0.85
30557576--30557667	19	4.8	19	86	0	139	38	17	8	35	1.81
30557553--30557667	38	2.9	38	88	5	158	39	17	7	35	1.79
30557553--30557667	19	5.8	19	83	4	131	39	17	7	35	1.79
30560457--30560507	6	9.2	6	83	12	56	31	3	13	50	1.60
30560457--30560507	11	4.6	12	72	18	56	31	3	13	50	1.60
30560453--30560504	27	1.9	27	100	0	104	30	5	11	51	1.61
30570837--30570887	25	2.0	25	96	0	93	33	7	13	45	1.73
30572282--30572316	10	3.6	10	92	3	54	62	5	0	31	1.18
30584414--30584479	32	2.0	33	85	2	89	33	7	24	34	1.84
30589505--30589637	50	2.6	50	79	3	151	24	21	26	27	1.99
30589698--30589786	45	2.0	45	90	0	142	23	16	25	33	1.96
30603796--30603828	17	1.9	17	93	0	57	27	24	21	27	1.99
30604837--30605031	69	2.8	69	85	1	266	35	17	23	23	1.95
30607593--30607625	14	2.3	15	89	5	50	0	24	0	75	0.80
30609832--30609924	25	3.7	25	73	0	96	30	21	21	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30615175--30615223	19	2.6	18	75	12	53	46	8	2	42	1.45
30619979--30620469	244	2.0	244	98	0	955	27	16	29	26	1.97
30623855--30623889	15	2.2	16	90	5	54	71	2	0	25	1.00
30623861--30623897	16	2.3	17	86	9	51	67	5	0	27	1.12
30624576--30624625	16	3.2	15	86	8	64	30	0	0	70	0.88
30624592--30624625	8	4.4	8	92	7	61	26	0	0	73	0.83
30628012--30628133	63	1.9	63	93	3	210	37	10	7	44	1.67
30628955--30629004	26	2.0	26	92	4	84	30	2	0	68	1.01
30640069--30640127	23	2.6	23	76	10	66	27	22	22	28	1.99
30643860--30643905	23	2.0	23	95	0	83	36	13	30	19	1.90

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   205   206