genome.fa.s9.2.7.7.80.10.50.1000.215.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  215  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)
67461335--67461367	16	2.0	17	88	5	50	57	0	3	39	1.14
67466919--67466960	16	2.6	16	92	0	66	33	0	35	30	1.58
67467194--67467328	15	8.9	15	65	24	61	50	3	2	43	1.32
67467254--67467344	44	2.1	43	81	6	103	53	3	2	40	1.29
67467413--67467448	17	2.2	16	86	13	56	47	0	5	47	1.25
67467417--67467462	17	2.5	20	86	13	71	45	2	6	45	1.41
67467469--67467663	93	2.1	92	88	4	286	47	4	4	44	1.41
67469284--67469310	11	2.5	11	100	0	54	51	18	7	22	1.70
67471189--67471219	15	2.1	15	100	0	62	45	0	19	35	1.51
67483846--67483882	19	2.0	19	94	5	67	45	10	16	27	1.80
67486784--67486849	10	6.8	9	78	14	60	0	10	6	83	0.81
67486785--67486844	20	3.0	20	85	7	68	0	10	6	83	0.81
67486812--67486844	7	4.9	7	92	7	59	0	0	12	87	0.53
67486812--67486844	13	2.4	14	95	5	59	0	0	12	87	0.53
67486800--67486845	14	3.4	13	85	8	56	0	4	8	86	0.68
67487232--67487285	23	2.4	23	75	3	56	77	1	9	11	1.06
67500561--67500590	9	3.3	9	90	0	51	46	13	10	30	1.75
67500664--67500717	20	2.7	21	86	11	69	57	7	0	35	1.27
67500665--67500722	19	3.1	19	85	9	66	56	5	0	37	1.21
67502372--67502404	16	1.9	18	88	11	52	39	3	3	54	1.31
67504414--67504438	2	12.5	2	100	0	50	48	0	0	52	1.00
67504645--67504701	27	2.1	28	83	3	71	56	8	1	33	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67505182--67505211	10	3.0	10	95	0	51	80	6	0	13	0.91
67512969--67513186	64	3.4	62	78	12	242	38	14	13	33	1.85
67512968--67513375	131	3.1	131	87	0	548	36	12	14	35	1.85
67520497--67520558	30	2.1	29	82	8	72	22	51	0	25	1.48
67520734--67520759	13	2.0	13	100	0	52	38	0	0	61	0.96
67522301--67522344	22	2.0	22	100	0	88	27	13	9	50	1.72
67522475--67522521	24	2.0	23	88	8	69	31	4	0	63	1.13
67533624--67533656	18	1.9	17	88	11	50	30	0	0	69	0.88
67535061--67535115	24	2.2	24	81	15	60	27	3	10	58	1.49
67536019--67536249	9	24.8	9	63	21	59	57	2	3	36	1.29
67536135--67536230	38	2.5	38	78	8	97	58	1	5	35	1.27
67536676--67536920	10	25.8	9	69	17	97	31	3	2	63	1.23
67536729--67536795	21	3.2	22	78	14	63	32	1	4	61	1.25
67536839--67536879	19	2.1	20	86	4	57	24	2	0	73	0.96
67537191--67537234	21	2.1	21	82	0	52	2	25	0	72	0.96
67538653--67539165	256	2.0	255	92	1	848	28	15	21	34	1.94
67543403--67543441	18	2.2	18	100	0	78	48	15	5	30	1.66
67545743--67545771	13	2.2	13	100	0	58	31	20	6	41	1.79
67548442--67548466	13	1.9	13	100	0	50	64	0	8	28	1.22
67548868--67548896	5	5.8	5	100	0	58	41	0	0	58	0.98
67557236--67557260	13	1.9	13	100	0	50	88	0	0	12	0.53
67566440--67566525	9	9.4	9	84	2	118	39	27	9	23	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67570163--67570198	17	2.1	17	90	10	56	36	22	5	36	1.78
67570611--67571506	308	2.9	303	82	6	951	32	13	16	37	1.88
67576955--67577007	26	2.0	28	85	7	74	45	13	20	20	1.84
67577382--67577411	3	10.0	3	100	0	60	33	33	0	33	1.58
67577705--67577761	29	2.1	26	84	15	71	68	1	1	28	1.09
67578453--67578530	38	2.0	39	87	7	115	34	1	0	64	1.02
67581286--67581368	39	2.1	39	88	4	123	50	22	2	24	1.61
67581752--67581989	127	1.9	126	82	2	298	25	21	19	33	1.97
67582758--67582852	50	1.9	50	82	0	118	33	12	11	42	1.79
67582320--67583373	320	3.3	319	84	5	1270	31	13	18	35	1.90
67586126--67586182	20	3.2	20	63	31	56	50	0	14	35	1.42
67595629--67595659	16	1.9	16	93	0	53	58	0	0	41	0.98
67595654--67595703	14	3.6	14	78	10	50	56	2	8	34	1.40
67597306--67598701	695	2.0	695	97	0	2612	30	24	20	24	1.99
67599204--67599434	72	3.2	71	79	5	250	16	16	20	46	1.84
67600206--67601216	141	7.2	141	97	0	1794	26	18	23	31	1.97
67615835--67615879	18	2.5	18	100	0	90	0	57	0	42	0.98
67617053--67617092	14	2.9	14	84	0	53	42	17	7	32	1.77
67617018--67617083	34	1.9	35	87	3	98	42	13	10	33	1.79
67621772--67621803	2	16.0	2	100	0	64	50	0	0	50	1.00
67623679--67623722	24	1.9	24	81	9	56	45	0	4	50	1.22
67624895--67624940	19	2.4	19	81	3	56	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67628108--67628166	22	2.5	25	81	15	72	37	0	1	61	1.07
67635031--67635193	88	1.9	88	94	2	292	34	11	14	39	1.83
67647987--67648025	18	2.2	18	85	0	51	51	2	0	46	1.14
67653352--67653412	5	12.8	5	83	10	83	55	0	0	44	0.99
67668867--67669179	107	2.9	107	89	0	466	32	18	19	29	1.95
67671591--67671655	22	3.1	21	70	10	53	61	7	12	18	1.54
67681418--67681447	14	2.1	14	100	0	60	33	30	6	30	1.83
67683574--67683647	29	2.5	29	77	4	76	25	13	12	48	1.77
67684626--67684682	26	2.2	26	84	6	80	40	0	0	59	0.97
67684612--67684660	16	3.1	16	75	18	50	34	0	0	65	0.93
67684611--67684662	15	3.4	15	75	19	54	36	0	0	63	0.95
67687210--67687244	5	7.0	5	90	0	52	22	37	20	20	1.95
67694317--67694358	19	2.2	19	87	8	59	40	4	2	52	1.35
67694344--67694378	17	2.1	17	88	0	52	57	2	0	40	1.14
67696766--67696820	19	2.9	19	83	2	76	67	3	5	23	1.28
67696970--67697007	11	3.5	11	85	0	58	52	0	0	47	1.00
67721401--67721438	20	2.0	20	94	5	69	68	5	0	26	1.11
67722862--67722895	16	2.1	16	88	5	50	29	2	8	58	1.43
67723000--67723046	24	2.0	24	83	8	60	17	12	12	57	1.65
67726287--67726327	15	2.6	16	92	7	66	46	0	9	43	1.36
67726878--67726916	5	7.8	5	100	0	78	41	0	0	58	0.98
67730248--67730283	18	2.0	18	88	0	54	19	30	13	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67731787--67732101	108	2.9	109	89	3	469	35	17	16	30	1.92
67733721--67733771	23	2.3	21	77	16	50	9	3	35	50	1.54
67734140--67734236	47	2.1	47	80	3	106	39	10	19	30	1.85
67747984--67748101	37	3.2	37	96	0	218	36	24	7	31	1.84
67747972--67748108	37	3.8	36	90	5	208	35	24	8	31	1.86
67748285--67748512	41	5.6	41	89	3	300	19	28	21	30	1.98
67748285--67748540	123	2.1	123	82	4	311	20	27	21	30	1.98
67752877--67753052	63	2.8	63	83	1	219	22	26	26	23	2.00
67754996--67755037	14	3.1	14	75	25	54	45	2	0	52	1.13
67760494--67760563	20	3.3	20	69	18	61	55	10	17	17	1.67
67761450--67761546	2	49.5	2	73	8	74	42	6	2	49	1.39
67762173--67762369	98	2.0	98	93	0	340	28	10	23	36	1.89
67763074--67763111	20	1.9	20	94	0	67	28	13	7	50	1.69
67763355--67763932	113	5.1	114	73	10	502	33	16	20	29	1.94
67763355--67763942	227	2.6	226	89	4	862	34	16	20	29	1.94
67763740--67764132	188	2.1	188	90	0	624	32	15	21	30	1.94
67763874--67764019	74	2.0	74	83	2	186	34	17	19	28	1.95
67764552--67764584	7	5.0	7	85	14	52	15	0	54	30	1.41
67764560--67764584	12	2.1	12	100	0	50	16	0	52	32	1.44
67764553--67764605	19	2.7	20	85	5	63	20	0	45	33	1.52
67764683--67764772	7	12.9	7	80	4	92	20	1	47	31	1.57
67764708--67764781	14	5.4	14	82	7	73	20	0	47	32	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67766465--67766489	10	2.5	10	100	0	50	48	12	8	32	1.69
67767237--67767283	18	2.5	19	86	3	60	14	14	12	57	1.66
67767294--67767380	7	12.3	7	82	2	111	4	13	11	70	1.32
67767294--67767380	21	4.1	21	86	1	129	4	13	11	70	1.32
67767783--67768395	100	6.1	100	92	3	988	40	6	4	48	1.49
67767784--67768395	302	2.0	296	93	4	1048	40	6	4	49	1.49
67768465--67768516	13	4.0	13	92	0	77	46	9	1	42	1.47
67768484--67768619	53	2.6	53	85	0	200	38	11	5	45	1.62
67768835--67769085	9	28.8	9	70	12	157	45	20	3	31	1.67
67768866--67769058	25	7.4	25	71	13	131	46	18	3	31	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