genome.fa.s9.2.7.7.80.10.50.1000.221.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  221  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)
69090192--69090233	20	2.1	20	86	0	57	11	21	0	66	1.23
69090478--69090505	10	2.8	10	100	0	56	60	0	7	32	1.24
69092952--69092997	23	2.0	23	86	0	65	34	28	26	10	1.90
69095557--69095592	18	1.9	19	94	5	65	0	8	2	88	0.59
69096604--69096657	19	2.9	19	82	17	69	70	0	9	20	1.14
69096600--69096678	23	3.8	20	77	21	67	72	0	6	21	1.07
69096649--69096679	15	2.1	14	94	5	53	77	0	0	22	0.77
69096643--69096680	18	2.2	17	86	13	60	78	0	0	21	0.74
69107597--69107636	19	2.2	19	86	4	55	72	0	20	7	1.08
69115868--69115902	3	11.7	3	100	0	70	68	0	0	31	0.90
69125565--69125600	15	2.5	15	91	8	58	36	0	0	63	0.94
69125564--69125600	13	2.6	14	91	8	58	35	0	0	64	0.94
69125672--69125700	15	1.9	15	100	0	58	41	0	10	48	1.37
69125978--69126002	7	3.6	7	100	0	50	48	0	0	52	1.00
69129577--69129603	12	2.2	12	100	0	54	22	22	14	40	1.90
69130906--69130942	16	2.3	16	86	13	58	40	0	0	59	0.97
69135447--69135488	16	2.6	17	81	7	52	38	0	16	45	1.48
69136796--69136853	6	9.7	6	86	0	62	27	6	15	50	1.70
69139386--69139462	29	2.7	29	93	0	136	23	15	18	42	1.88
69139923--69140548	274	2.3	273	83	4	769	35	14	10	40	1.80
69155005--69155042	3	13.0	3	88	5	60	34	2	31	31	1.72
69176505--69176548	6	7.2	6	87	5	52	40	15	36	6	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69176507--69176548	19	2.3	18	91	4	66	40	16	35	7	1.76
69176517--69176560	19	2.3	19	88	7	63	40	15	34	9	1.79
69176918--69176943	3	8.7	3	100	0	52	0	34	0	65	0.93
69177198--69177226	12	2.5	12	94	5	51	0	44	6	48	1.29
69177444--69177469	2	13.0	2	100	0	52	0	50	0	50	1.00
69177477--69177503	6	4.5	6	100	0	54	14	0	0	85	0.61
69178260--69178292	17	2.1	16	88	11	50	66	0	0	33	0.92
69178941--69178987	20	2.4	19	82	3	58	19	0	6	74	1.03
69182798--69182865	26	2.6	25	77	6	64	20	8	5	64	1.43
69182980--69183018	20	1.9	21	89	5	62	33	23	12	30	1.92
69186823--69186866	2	22.0	2	100	0	88	50	0	0	50	1.00
69189151--69189178	2	14.0	2	100	0	56	50	0	0	50	1.00
69191185--69191247	11	5.7	11	71	17	51	42	3	0	53	1.16
69191184--69191284	42	2.5	39	78	15	105	43	2	0	53	1.16
69191176--69191243	31	2.2	31	97	0	127	36	2	0	60	1.12
69198593--69198639	2	23.5	2	100	0	94	48	0	0	51	1.00
69200127--69200155	14	2.0	15	93	6	51	17	0	0	82	0.66
69202956--69203025	35	2.0	35	97	0	131	35	14	5	44	1.69
69204393--69204458	31	2.1	31	88	0	96	22	10	22	43	1.84
69206571--69206611	15	2.8	15	82	14	50	53	4	7	34	1.50
69210209--69210421	117	1.8	116	86	3	311	33	22	12	31	1.91
69224064--69224114	25	2.1	24	88	3	75	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69230704--69230842	68	2.0	68	97	0	260	31	18	17	31	1.95
69238524--69238610	39	2.2	39	83	2	102	24	18	25	32	1.97
69238538--69238623	39	2.2	39	78	10	104	23	15	24	37	1.93
69242161--69242208	24	2.0	24	84	8	62	16	4	56	22	1.58
69242638--69242692	23	2.4	23	93	3	94	41	20	14	23	1.89
69244031--69244068	20	1.9	20	94	0	67	36	13	0	50	1.42
69244960--69245025	19	3.3	20	82	6	71	59	4	1	34	1.27
69244987--69245025	10	3.8	10	86	3	51	64	2	0	33	1.08
69244980--69245027	20	2.4	20	79	6	53	64	4	0	31	1.12
69253353--69253404	24	2.2	24	89	0	77	55	9	1	32	1.43
69255321--69255372	24	2.2	24	89	0	77	55	9	1	32	1.43
69255450--69255478	6	5.0	6	91	8	51	65	0	0	34	0.93
69256965--69256998	16	2.2	16	89	5	52	5	32	32	29	1.81
69264958--69265046	43	2.1	41	91	4	142	53	4	4	37	1.41
69272014--69272160	73	2.0	73	100	0	294	32	23	14	29	1.94
69278783--69278807	13	1.9	13	100	0	50	96	0	4	0	0.24
69278783--69278811	14	2.1	14	100	0	58	93	0	6	0	0.36
69279923--69280114	103	1.9	101	84	8	255	31	5	9	52	1.58
69280752--69280831	29	2.7	30	79	13	76	36	5	10	48	1.58
69280751--69280821	29	2.4	30	81	9	83	38	5	9	46	1.61
69290894--69290950	30	1.9	29	82	10	71	33	7	8	50	1.60
69294956--69295010	28	2.0	28	86	6	78	45	9	0	45	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69295941--69295967	14	1.9	14	100	0	54	7	3	0	88	0.61
69296831--69296877	20	2.2	22	85	11	71	80	10	2	6	0.96
69296890--69296928	6	6.2	6	88	11	60	82	0	15	2	0.79
69296892--69296928	7	5.6	7	87	6	51	83	0	13	2	0.74
69299443--69300265	50	16.5	50	72	5	464	30	22	22	23	1.99
69299791--69300265	100	4.8	100	86	1	567	31	21	22	24	1.98
69299438--69300271	150	5.6	150	74	6	598	31	22	22	23	1.99
69305793--69305819	3	9.0	3	100	0	54	66	0	0	33	0.92
69313767--69313808	23	1.9	23	85	9	61	47	0	4	47	1.23
69315706--69315788	40	2.1	40	97	0	157	27	4	16	50	1.65
69323398--69323455	31	1.9	30	85	3	80	44	8	8	37	1.66
69334731--69334776	16	3.1	16	78	12	53	47	0	0	52	1.00
69334736--69334802	31	2.3	29	82	17	77	47	0	0	52	1.00
69334838--69334867	6	5.0	6	100	0	60	33	0	0	66	0.92
69335189--69335228	16	2.5	16	91	0	62	47	2	7	42	1.45
69335161--69335213	22	2.4	22	87	0	70	52	1	1	43	1.23
69335217--69335351	59	2.5	52	83	15	184	42	5	6	45	1.52
69335344--69335371	9	3.1	9	100	0	56	32	0	10	57	1.33
69335235--69335362	59	2.2	59	98	0	247	40	4	7	46	1.53
69335468--69335513	24	1.9	24	91	8	76	60	2	0	36	1.09
69335841--69335886	24	1.9	24	91	8	76	36	0	2	60	1.09
69335983--69336010	9	3.1	9	100	0	56	57	10	0	32	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69335953--69336150	59	3.1	68	83	14	292	45	9	4	40	1.56
69336163--69336194	17	1.9	17	93	6	57	56	0	0	43	0.99
69340861--69340916	26	2.2	26	100	0	112	48	17	16	17	1.82
69341566--69341591	2	13.0	2	100	0	52	50	0	0	50	1.00
69345869--69345925	28	2.0	28	96	0	105	33	3	17	45	1.65
69347475--69347545	35	2.0	35	94	0	124	23	12	21	42	1.87
69350377--69350405	14	2.0	15	93	6	51	37	0	13	48	1.43
69352951--69352997	16	2.9	16	84	6	51	38	6	2	53	1.39
69358750--69358788	14	2.9	14	88	3	53	12	7	0	79	0.93
69358885--69358910	13	2.0	13	100	0	52	38	0	0	61	0.96
69358960--69359010	16	3.0	16	72	22	50	45	0	0	54	0.99
69358960--69359031	35	2.1	34	82	12	85	44	0	1	54	1.08
69360413--69360471	23	2.7	22	82	10	68	38	8	16	35	1.80
69361582--69361826	39	6.3	39	82	2	260	33	12	19	34	1.89
69363886--69363943	26	2.3	26	79	5	66	22	12	8	56	1.62
69365537--69365575	19	2.0	20	85	5	53	46	7	0	46	1.31
69373328--69373358	12	2.6	12	100	0	62	6	25	9	58	1.54
69373895--69374273	181	2.1	175	85	7	498	21	19	21	37	1.94
69375592--69375618	13	2.1	13	100	0	54	51	22	0	25	1.48
69376063--69376103	18	2.3	18	87	4	57	56	4	7	31	1.48
69386774--69386837	26	2.3	26	84	12	76	64	0	0	35	0.94
69386758--69386837	29	2.8	28	75	19	85	62	0	1	36	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69390391--69390438	22	2.1	23	81	18	64	35	0	4	60	1.16
69390397--69390438	22	1.9	22	90	9	68	35	0	4	59	1.19
69390838--69390885	21	2.2	22	77	3	53	52	8	2	37	1.44
69392891--69392920	2	15.0	2	100	0	60	50	0	0	50	1.00
69395907--69395969	19	3.4	19	65	20	51	57	17	17	7	1.63
69395894--69395968	37	2.0	37	97	0	141	56	17	16	10	1.67
69395980--69396025	2	24.0	2	91	8	78	50	0	0	50	1.00
69397928--69397960	2	16.5	2	100	0	66	51	0	0	48	1.00
69401215--69401272	25	2.3	25	79	5	64	62	1	3	32	1.22
69401619--69401643	13	1.9	13	100	0	50	0	20	0	80	0.72

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