genome.fa.s9.2.7.7.80.10.50.1000.202.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  202  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)
63902757--63902824	18	3.8	17	77	12	73	33	0	0	66	0.92
63902758--63902833	27	2.8	26	86	7	98	34	0	1	64	1.02
63902759--63902856	16	5.6	17	71	12	58	32	1	1	65	1.06
63902760--63902858	27	3.7	26	81	6	83	33	1	1	64	1.07
63905498--63905558	26	2.3	26	75	10	70	39	3	3	54	1.33
63907107--63907153	11	4.4	11	78	5	60	14	0	8	76	1.01
63907108--63907154	21	2.2	21	88	0	67	17	0	8	74	1.05
63907938--63907968	15	2.0	16	93	6	55	41	0	6	51	1.27
63911963--63912010	24	2.0	24	95	0	87	50	8	6	35	1.58
63935954--63936189	112	2.1	114	93	4	404	40	14	16	28	1.88
63942029--63942058	13	2.4	13	94	5	53	50	0	0	50	1.00
63942047--63942102	28	2.1	26	83	12	69	35	0	0	64	0.94
63943082--63943121	9	4.4	9	93	0	62	25	10	25	40	1.86
63945912--63945953	22	1.9	22	85	0	57	30	2	2	64	1.19
63946461--63946605	51	2.8	51	79	8	177	32	29	15	22	1.95
63946461--63946631	51	3.4	50	76	8	157	31	29	15	23	1.95
63951972--63952014	22	1.9	23	86	13	63	44	18	27	9	1.80
63953467--63953517	14	3.8	14	74	10	52	50	9	1	37	1.47
63953467--63953517	26	2.0	26	96	0	93	50	9	1	37	1.47
63953644--63953690	23	2.0	23	100	0	94	34	21	12	31	1.91
63954751--63954871	56	2.2	56	86	0	161	25	28	24	21	1.99
63962290--63962401	56	2.0	56	87	0	161	25	30	23	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
63965656--63965717	30	2.1	30	85	11	83	62	3	0	33	1.11
63967065--63967114	17	3.0	17	79	2	57	16	0	30	54	1.42
63967161--63967216	19	3.1	17	78	12	58	17	5	28	48	1.69
63968424--63968480	21	2.7	21	69	15	55	21	12	38	28	1.89
63981210--63981379	43	4.0	43	79	12	181	31	26	17	24	1.97
63987754--63987789	8	4.5	8	89	0	54	83	0	16	0	0.65
63987794--63987845	22	2.4	21	81	15	61	48	1	0	50	1.12
63988399--63988459	25	2.4	25	83	5	79	39	1	0	59	1.08
63991537--63991563	14	1.9	14	100	0	54	37	22	25	14	1.93
63998605--63998659	24	2.3	23	81	9	65	38	18	7	36	1.78
63998619--63998667	24	2.0	24	100	0	98	32	20	10	36	1.86
64001652--64001723	4	18.2	4	97	2	137	48	26	0	25	1.51
64002086--64002173	42	2.1	42	100	0	176	47	19	2	30	1.61
64005795--64005845	20	2.6	21	78	12	63	11	23	5	58	1.55
64008244--64008361	63	2.0	60	83	8	150	49	4	3	43	1.39
64008828--64008856	10	2.9	10	100	0	58	41	0	0	58	0.98
64009169--64009262	49	1.9	49	95	0	170	36	21	7	35	1.81
64010928--64010959	16	2.0	16	100	0	64	37	6	18	37	1.76
64012979--64013068	25	3.6	25	80	5	101	35	22	18	23	1.96
64016158--64016189	16	2.0	16	93	0	55	9	21	25	43	1.82
64016536--64016560	13	1.9	13	100	0	50	32	4	8	56	1.47
64022905--64023024	22	5.5	21	77	8	105	40	18	26	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64022918--64023031	22	5.2	22	79	4	113	40	16	28	14	1.88
64024005--64024036	11	3.1	11	82	17	50	43	9	0	46	1.35
64026290--64026328	20	2.0	20	94	0	69	2	25	38	33	1.70
64026294--64026332	10	4.0	10	83	3	53	2	28	38	30	1.70
64028902--64029010	37	2.8	39	79	9	123	25	18	22	33	1.97
64029764--64029803	21	1.9	21	84	0	53	25	5	20	50	1.68
64037289--64037367	39	2.0	39	92	0	131	41	12	17	27	1.86
64041259--64041327	36	1.9	36	90	0	111	44	11	14	28	1.80
64046374--64046442	36	1.9	36	90	0	111	46	10	13	30	1.75
64050600--64050764	82	2.0	82	97	0	312	30	13	17	38	1.88
64051903--64051945	21	2.0	21	81	0	50	27	34	0	37	1.57
64056750--64056834	43	2.0	43	80	0	98	32	21	15	30	1.94
64056852--64056968	43	2.7	43	90	0	171	23	17	25	33	1.96
64059814--64059857	11	3.8	11	80	11	52	31	0	2	65	1.05
64062806--64062848	17	2.5	17	100	0	86	18	6	41	32	1.77
64074621--64074765	43	3.3	43	86	3	209	35	0	16	47	1.52
64074646--64074774	9	14.8	9	71	10	81	35	0	17	46	1.53
64074645--64074773	45	2.6	51	77	15	146	35	0	16	47	1.52
64074755--64074869	53	2.1	54	95	1	205	28	4	13	53	1.58
64074881--64074907	13	2.1	13	100	0	54	37	11	0	51	1.37
64075318--64075389	35	2.1	35	84	10	94	59	2	1	36	1.20
64075861--64076078	71	3.1	71	73	9	201	46	12	6	34	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64078860--64078907	25	1.9	25	91	8	80	58	0	10	31	1.32
64079297--64079383	41	2.2	40	81	6	95	20	24	11	43	1.85
64081117--64081151	3	11.7	3	93	0	61	65	0	2	31	1.07
64086426--64086978	283	2.0	284	97	0	1036	30	18	16	34	1.93
64087458--64087522	32	2.1	32	97	2	123	49	10	9	30	1.69
64087885--64087911	11	2.5	11	100	0	54	55	0	7	37	1.28
64091188--64091464	28	9.9	28	86	1	315	35	12	24	27	1.92
64091899--64092054	78	2.0	78	100	0	312	37	11	26	24	1.90
64107444--64107507	3	21.3	3	93	0	110	3	0	64	32	1.10
64108346--64108373	7	4.0	7	100	0	56	85	0	14	0	0.59
64111196--64111305	56	2.0	56	100	0	220	30	25	14	30	1.95
64114582--64114662	20	4.1	20	81	0	90	37	20	30	11	1.88
64114577--64114659	40	2.0	41	83	2	105	34	19	31	14	1.92
64115555--64115590	18	2.0	18	100	0	72	66	11	11	11	1.45
64117136--64117190	27	2.0	27	100	0	110	50	3	14	30	1.60
64118209--64118237	14	2.1	14	100	0	58	44	13	13	27	1.82
64123636--64123813	39	4.6	40	79	4	202	33	3	19	43	1.69
64127960--64128178	43	5.1	43	81	7	266	29	24	18	27	1.98
64127956--64128176	85	2.6	86	88	2	311	28	24	19	27	1.98
64134224--64134453	50	4.5	51	76	9	202	26	20	29	23	1.99
64138872--64138929	21	2.8	20	66	7	53	36	10	6	46	1.65
64140278--64140353	39	1.9	39	86	5	109	39	3	35	21	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64140293--64140331	15	2.6	14	84	11	51	41	5	30	23	1.76
64140636--64140716	42	2.0	41	90	2	126	24	23	20	30	1.99
64141380--64141597	7	30.7	7	75	9	138	48	29	0	21	1.57
64141917--64142045	40	3.2	41	77	8	106	29	25	18	26	1.98
64141941--64142048	40	2.7	40	80	0	117	28	25	18	26	1.98
64142098--64142190	40	2.3	40	84	0	114	29	17	20	33	1.95
64142002--64142354	153	2.3	153	82	4	428	30	20	18	30	1.96
64142250--64142406	40	4.0	40	82	2	174	28	21	20	29	1.98
64152392--64152474	37	2.3	36	89	4	130	30	7	3	59	1.42
64152405--64152481	37	2.1	37	100	0	154	29	5	2	62	1.30
64166001--64166042	21	2.0	21	95	0	75	42	11	0	45	1.41
64165924--64166262	94	3.7	92	72	14	277	36	18	6	38	1.77
64166200--64166368	70	2.4	69	82	2	214	37	15	7	39	1.77
64166760--64166987	93	2.5	93	91	1	368	33	21	7	37	1.81
64171036--64171061	6	4.3	6	100	0	52	15	84	0	0	0.62
64173196--64173253	29	2.1	28	84	9	75	50	18	5	25	1.68
64180650--64180689	17	2.4	17	86	0	53	22	32	20	25	1.98
64182095--64182144	18	2.8	18	81	0	64	46	24	6	24	1.75
64184924--64184955	6	5.2	6	92	7	55	15	15	0	68	1.21
64184930--64185065	58	2.4	58	85	11	185	26	19	4	50	1.66
64202143--64202190	22	2.2	22	84	0	60	27	4	25	43	1.72
64202072--64202200	52	2.4	52	81	2	150	29	2	21	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64205105--64205190	43	2.0	43	93	0	145	32	10	18	38	1.85
64208949--64209025	24	3.4	24	74	17	83	15	18	20	45	1.85
64209041--64209088	20	2.4	20	82	0	51	8	20	27	43	1.80
64217710--64217734	8	3.1	8	100	0	50	36	0	12	52	1.39
64221065--64221116	18	2.8	19	79	5	61	44	5	0	50	1.26
64222425--64222474	25	2.0	25	100	0	100	36	20	16	28	1.93
64226274--64226345	22	3.3	22	94	0	117	30	16	27	25	1.97
64254620--64254668	16	3.1	16	85	2	55	40	8	6	44	1.59
64255712--64255755	22	2.0	22	81	0	52	56	2	0	40	1.11
64255734--64255788	27	2.0	27	82	10	67	49	1	7	41	1.41

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