genome.fa.s9.2.7.7.80.10.50.1000.195.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  195  of  226  ( 27023 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)
62008240--62008292	23	2.3	22	78	18	54	7	5	32	54	1.52
62008568--62008696	50	2.6	49	86	7	154	28	20	14	35	1.93
62008586--62008698	50	2.3	50	87	3	165	30	19	16	33	1.94
62008651--62008831	94	1.9	94	85	4	249	29	20	16	33	1.94
62008625--62008834	94	2.2	94	82	5	248	30	21	15	32	1.94
62008682--62008961	138	2.0	137	86	2	382	28	21	18	32	1.97
62008820--62009310	94	5.2	94	84	3	549	27	20	19	31	1.97
62008682--62009255	44	12.4	44	67	18	220	27	20	19	32	1.97
62027952--62027978	12	2.2	12	100	0	54	22	11	14	51	1.73
62032096--62032133	19	2.0	19	90	10	60	21	39	0	39	1.53
62037387--62037629	50	4.8	50	76	8	161	28	20	27	23	1.99
62037785--62037837	26	2.0	27	96	3	99	45	3	32	18	1.68
62037857--62037905	20	2.5	20	78	15	57	55	6	26	12	1.60
62044257--62044294	19	2.0	19	90	10	60	21	39	0	39	1.53
62047148--62047182	16	2.2	16	94	0	61	17	22	5	54	1.64
62048894--62048968	20	3.8	20	78	16	84	25	30	1	42	1.63
62051228--62051292	29	2.3	29	89	2	96	32	33	4	29	1.78
62051228--62051301	29	2.5	28	77	12	78	35	31	5	28	1.80
62055274--62055323	25	2.0	25	96	0	91	52	10	16	22	1.73
62060219--62060276	11	5.3	11	87	0	80	20	32	3	43	1.69
62060219--62060287	22	3.1	22	85	4	86	21	30	2	44	1.67
62061442--62061467	7	3.7	7	100	0	52	26	0	15	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62062118--62062157	18	2.2	18	86	0	53	17	30	7	45	1.76
62062698--62062776	22	3.6	22	86	3	115	45	29	1	24	1.61
62062702--62062776	21	3.5	22	83	7	100	44	29	1	25	1.63
62062689--62062832	43	3.5	43	76	21	148	43	30	1	24	1.63
62062724--62062845	57	2.2	55	94	2	208	40	35	0	22	1.60
62062741--62062811	35	2.0	36	94	2	126	43	35	0	21	1.53
62062777--62062832	22	2.6	21	94	5	103	42	35	0	21	1.53
62065934--62066251	126	2.5	125	89	2	487	28	22	17	31	1.97
62066342--62066384	21	2.0	22	86	4	61	51	37	0	11	1.39
62072219--62072243	12	2.1	12	100	0	50	72	0	0	28	0.86
62072219--62072277	28	2.1	28	81	12	77	64	1	1	32	1.13
62072219--62072271	20	2.7	20	73	8	54	66	1	1	30	1.13
62074358--62074470	25	4.5	25	73	6	95	20	26	23	30	1.98
62074425--62074491	27	2.4	27	92	2	107	19	22	28	29	1.98
62084141--62084188	22	2.2	22	100	0	96	43	18	10	27	1.82
62086253--62086362	37	3.0	37	98	0	211	38	1	24	35	1.66
62086417--62086514	34	2.8	34	80	9	117	21	20	23	34	1.96
62086422--62086713	35	8.1	35	71	10	142	23	21	20	33	1.97
62086473--62086652	75	2.4	74	79	7	193	24	21	19	34	1.96
62091096--62091180	27	3.1	27	82	1	98	23	22	11	42	1.86
62095133--62095157	8	3.1	8	100	0	50	12	0	40	48	1.40
62096672--62096900	27	8.5	27	82	9	236	19	17	20	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62096663--62096901	54	4.4	54	85	5	295	19	17	20	42	1.90
62096672--62096901	81	2.8	80	86	5	302	19	17	20	43	1.89
62106916--62106984	27	2.7	26	82	8	70	27	23	24	24	2.00
62114789--62114905	43	2.7	43	86	0	171	23	28	16	32	1.96
62115035--62115168	31	4.3	31	80	3	108	44	16	9	29	1.80
62115048--62115170	62	2.0	62	85	3	167	43	16	9	30	1.80
62115061--62115185	31	4.0	31	89	3	162	45	16	8	28	1.77
62118164--62118278	31	3.7	31	81	2	124	45	3	24	26	1.69
62120708--62120740	15	2.2	15	94	0	57	15	15	0	69	1.19
62128518--62128560	22	2.0	22	95	0	77	34	9	20	34	1.85
62133995--62134027	6	5.5	6	100	0	66	18	33	15	33	1.92
62135633--62135679	23	2.0	23	84	8	60	25	31	8	34	1.86
62135692--62135716	13	1.9	13	100	0	50	44	0	0	56	0.99
62145498--62145536	17	2.2	18	86	4	53	33	0	5	61	1.18
62146674--62146818	20	7.2	20	65	14	75	13	30	15	40	1.87
62146658--62146852	40	4.9	40	82	1	212	15	29	15	38	1.89
62146664--62146823	80	2.0	81	91	1	259	15	29	16	38	1.89
62146668--62146852	80	2.3	80	85	3	248	15	29	16	38	1.89
62146791--62146855	20	3.2	20	72	8	60	13	33	20	32	1.91
62146791--62146898	40	2.7	40	82	5	121	13	33	17	35	1.90
62154882--62154926	10	4.5	10	83	8	56	64	8	0	26	1.23
62154882--62154946	20	3.2	20	82	8	62	66	6	0	27	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62154912--62154968	20	2.7	21	86	5	71	63	3	1	31	1.22
62155008--62155058	25	2.2	22	89	10	75	66	0	5	27	1.14
62155136--62155237	28	3.6	27	77	12	91	65	3	4	25	1.30
62155565--62155601	17	2.1	18	90	5	58	32	5	0	62	1.18
62155631--62155681	18	2.9	18	80	16	54	29	1	1	66	1.13
62155651--62155752	20	5.2	19	68	18	57	31	4	0	62	1.23
62155610--62155792	19	9.4	19	69	18	92	31	3	2	61	1.28
62155714--62155791	30	2.6	29	78	6	93	33	2	2	61	1.23
62160811--62160873	33	1.9	33	87	3	92	36	19	4	39	1.72
62161488--62161572	36	2.3	36	95	4	152	20	12	5	61	1.52
62165531--62165570	20	2.1	19	85	4	53	55	2	0	42	1.13
62172317--62172353	15	2.5	15	83	16	58	45	0	5	48	1.25
62172317--62172353	14	2.5	15	91	8	58	45	0	5	48	1.25
62179592--62179644	16	3.3	16	89	0	79	37	3	32	26	1.74
62179626--62179718	44	2.1	46	89	4	145	29	4	29	37	1.76
62179626--62179728	39	2.4	44	81	10	117	31	3	29	35	1.75
62179876--62179927	18	2.9	18	88	8	79	57	1	1	38	1.21
62180062--62180098	15	2.4	16	82	13	51	54	0	0	45	1.00
62193947--62193976	6	5.0	6	91	0	51	20	16	30	33	1.94
62196200--62196319	62	1.9	62	98	0	231	51	15	4	29	1.61
62197027--62197073	10	4.6	10	79	12	51	42	2	0	55	1.12
62197033--62197073	9	4.2	9	82	17	55	43	2	0	53	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62210862--62210984	40	3.1	40	82	3	142	37	19	21	21	1.94
62210908--62210984	39	1.9	39	89	2	118	32	16	25	24	1.96
62210920--62210997	39	2.0	39	87	2	111	35	15	25	23	1.94
62211035--62211275	41	5.9	41	88	2	288	24	20	26	28	1.99
62211028--62211282	82	3.1	82	86	3	345	23	20	27	28	1.99
62211267--62211324	29	2.0	29	89	0	89	15	20	22	41	1.90
62211666--62211737	14	5.1	14	72	14	58	25	2	36	36	1.70
62211784--62211956	85	2.1	81	81	6	195	27	0	26	45	1.58
62212075--62212117	7	6.1	7	86	0	59	20	2	48	27	1.62
62212075--62212117	21	2.0	21	90	0	68	20	2	48	27	1.62
62212080--62212124	21	2.1	21	87	0	63	26	0	42	31	1.56
62214318--62214402	21	4.2	20	78	12	68	24	2	5	67	1.25
62214318--62214368	20	2.5	19	81	15	57	25	1	7	64	1.31
62215675--62215937	43	6.2	43	79	6	216	24	20	25	30	1.98
62215728--62215957	86	2.7	85	82	2	255	24	21	24	29	1.99
62215708--62215949	43	5.7	43	79	6	222	25	21	24	28	1.99
62219681--62219719	17	2.3	17	86	8	53	12	38	0	48	1.42
62226487--62226521	9	3.9	9	92	0	61	45	14	11	28	1.79
62226665--62226713	14	3.4	14	75	10	53	34	20	0	44	1.52
62226881--62226913	18	1.9	17	88	11	50	27	30	0	42	1.56
62227543--62227568	5	5.2	5	100	0	52	19	19	19	42	1.90
62229622--62229752	50	2.6	52	83	8	178	33	15	12	38	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62237338--62237363	4	6.5	4	100	0	52	73	0	0	26	0.84
62238238--62238338	45	2.2	45	92	0	175	37	15	11	34	1.85
62241060--62241116	27	2.1	27	83	6	71	29	19	26	24	1.98
62246152--62246190	20	2.0	20	89	0	60	46	15	10	28	1.78
62246158--62246200	20	2.2	20	83	8	52	44	16	13	25	1.85
62253378--62253421	23	1.9	23	85	0	61	25	4	6	63	1.38
62255171--62255739	284	2.0	285	98	0	1104	15	38	10	35	1.81
62256469--62256502	15	2.3	15	89	0	50	44	2	5	47	1.42
62259107--62259140	7	5.0	7	89	3	52	0	2	41	55	1.15
62265189--62265237	25	2.0	25	87	0	71	40	12	6	40	1.67

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   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226