genome.fa.s9.2.7.7.80.10.50.1000.92.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  92  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)
32090667--32090751	9	9.4	9	70	19	52	64	2	2	30	1.18
32091011--32091049	19	2.1	19	85	9	53	28	2	7	61	1.37
32091023--32091168	10	15.4	10	66	18	55	31	2	1	64	1.16
32091100--32091154	19	2.8	20	83	5	67	32	0	0	67	0.91
32094015--32094050	19	1.9	19	88	5	56	55	0	5	38	1.23
32102894--32103008	58	2.0	58	92	0	194	29	18	24	27	1.98
32107983--32108043	29	2.1	29	100	0	122	39	13	3	44	1.60
32107983--32108031	17	3.2	17	67	27	54	40	12	4	42	1.61
32111975--32112053	31	2.5	32	79	2	88	27	6	13	51	1.65
32113688--32113723	2	18.0	2	100	0	72	50	0	0	50	1.00
32115076--32115104	9	3.0	10	90	10	51	58	0	20	20	1.39
32116521--32116560	21	1.9	21	89	0	62	57	0	12	30	1.36
32116568--32116608	21	2.0	21	85	0	55	41	9	12	36	1.76
32118911--32118976	8	8.4	8	81	8	82	50	13	12	24	1.76
32122981--32123034	15	3.3	15	74	18	54	42	0	3	53	1.18
32124138--32124181	16	2.7	16	89	10	63	2	31	0	65	1.05
32125004--32125079	38	2.0	38	86	0	107	32	10	18	38	1.85
32125140--32125414	43	6.5	43	80	4	267	28	20	16	34	1.94
32131558--32131597	19	2.0	20	85	4	55	0	27	0	72	0.85
32132855--32132891	19	2.0	19	85	15	51	45	2	2	48	1.30
32133427--32133485	11	5.3	11	80	10	66	22	32	1	44	1.63
32133427--32133501	11	6.7	11	77	7	62	25	28	1	45	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32133427--32133501	33	2.2	34	79	9	82	25	28	1	45	1.62
32133427--32133501	22	3.4	22	80	15	91	25	28	1	45	1.62
32134650--32134675	7	3.7	7	100	0	52	26	0	15	57	1.38
32135668--32135700	16	2.1	16	100	0	66	18	36	33	12	1.88
32135886--32135983	27	3.8	27	71	17	100	43	33	0	22	1.53
32135897--32135970	21	3.1	22	67	29	62	44	33	0	21	1.53
32135934--32135982	15	3.5	15	71	25	52	42	36	0	20	1.52
32135907--32136842	43	21.9	42	80	10	894	42	31	1	24	1.62
32135956--32136092	22	6.8	21	74	15	76	40	32	2	24	1.67
32136089--32136842	22	34.8	22	85	3	1003	43	31	0	24	1.61
32136095--32136842	65	11.5	66	85	3	905	43	31	0	24	1.61
32138868--32138919	3	17.3	3	100	0	104	32	0	0	67	0.91
32141872--32141904	17	1.9	17	93	0	57	57	6	0	36	1.23
32143002--32143125	63	2.0	61	95	3	214	41	8	35	14	1.77
32143350--32143408	29	2.0	29	100	0	118	35	16	16	30	1.92
32145974--32146017	19	2.5	17	85	7	52	70	6	0	22	1.11
32146419--32146471	24	2.2	24	86	0	70	39	9	16	33	1.81
32147517--32147581	31	2.1	32	82	8	80	52	1	4	41	1.31
32149683--32149741	30	2.0	30	83	6	75	55	1	3	38	1.26
32151613--32151678	30	2.2	30	86	0	87	30	21	21	27	1.98
32153555--32153607	25	2.2	25	78	15	60	30	9	9	50	1.66
32154387--32154565	88	2.0	89	95	1	324	32	14	20	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32155550--32155575	13	2.0	13	100	0	52	30	7	15	46	1.74
32155606--32155647	19	2.2	19	83	8	50	28	21	9	40	1.84
32157507--32157535	14	2.1	14	100	0	58	6	20	0	72	1.07
32159867--32160437	132	4.4	130	86	8	803	28	18	23	29	1.98
32160014--32160242	116	2.0	116	92	0	386	27	18	22	31	1.97
32159882--32160374	248	2.0	248	92	0	817	27	18	23	30	1.98
32161938--32162015	26	3.1	26	77	15	83	32	6	7	53	1.55
32162761--32162939	88	2.0	89	95	1	324	32	15	20	31	1.93
32163809--32163871	3	21.3	3	96	3	119	33	0	0	66	0.92
32171430--32171461	16	2.0	16	100	0	64	31	0	18	50	1.48
32171912--32171951	14	2.9	14	84	0	53	32	7	17	42	1.77
32171935--32171974	20	2.0	20	90	0	62	27	10	12	50	1.72
32171920--32171986	34	1.9	35	90	3	109	31	8	13	46	1.74
32171914--32171990	14	5.0	15	71	20	52	32	9	15	42	1.78
32172118--32172168	26	2.2	24	78	21	56	60	5	0	33	1.21
32175125--32175172	6	8.2	6	95	2	62	43	0	56	0	0.99
32175411--32175436	12	2.2	12	100	0	52	42	23	11	23	1.86
32175958--32175996	21	1.9	21	94	5	71	38	10	2	48	1.51
32178820--32178865	24	2.0	24	91	8	78	32	0	2	65	1.05
32178820--32178865	22	2.0	21	88	12	65	32	0	2	65	1.05
32178962--32178989	9	3.1	9	100	0	56	57	10	0	32	1.33
32178932--32179073	68	2.1	66	93	2	239	45	8	4	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32179062--32179103	16	2.6	16	92	0	66	42	7	2	47	1.43
32179077--32179137	22	2.8	22	84	0	77	47	1	1	49	1.21
32178932--32179095	68	2.5	66	85	10	207	46	8	4	40	1.54
32184633--32184691	21	2.7	21	84	5	73	62	20	10	6	1.49
32186500--32186628	30	4.3	30	82	6	140	37	22	2	37	1.67
32186500--32186669	30	5.8	29	77	9	132	35	22	2	38	1.70
32186498--32186628	59	2.2	60	82	8	160	37	22	2	38	1.67
32187231--32187286	20	2.8	21	81	10	64	66	0	33	0	0.92
32187242--32187284	22	1.9	23	85	4	61	67	0	32	0	0.91
32187370--32187414	18	2.4	18	81	3	63	73	13	13	0	1.10
32187535--32187590	26	2.2	26	87	6	78	21	37	28	12	1.90
32188074--32188121	17	2.8	17	81	12	62	27	14	12	45	1.81
32188180--32188228	17	2.9	16	80	19	64	20	16	12	51	1.76
32188184--32188235	17	3.1	17	84	15	56	23	15	11	50	1.76
32188180--32188235	19	3.2	18	81	18	66	21	16	10	51	1.74
32188214--32188262	26	1.9	25	95	4	89	28	16	8	46	1.75
32188188--32188274	44	2.0	43	86	8	122	29	13	6	49	1.68
32188236--32188362	18	6.6	18	73	14	85	32	11	8	48	1.69
32188273--32188362	19	4.8	19	81	9	96	32	10	10	47	1.70
32192185--32192231	9	4.9	9	76	23	51	82	12	2	2	0.84
32192184--32192240	21	2.8	20	82	15	64	82	10	5	1	0.90
32193105--32193568	77	6.1	75	85	5	581	28	15	19	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32193101--32193576	153	3.1	152	88	4	656	27	14	18	38	1.91
32193957--32194097	30	4.8	29	78	6	140	36	24	2	36	1.71
32194806--32194853	24	2.0	25	83	4	62	75	10	8	6	1.20
32195515--32195562	17	2.8	17	81	12	62	27	14	12	45	1.81
32195628--32195677	19	2.8	18	83	16	61	24	14	10	52	1.71
32195640--32196025	17	20.7	19	69	18	108	32	12	9	44	1.76
32195645--32195703	26	2.2	28	88	11	88	28	13	6	50	1.67
32195678--32196045	18	20.2	18	69	15	202	33	12	9	44	1.75
32195653--32195711	26	2.3	25	79	2	73	23	13	6	55	1.62
32195733--32195865	38	3.5	38	85	5	153	33	18	8	40	1.80
32195848--32196025	17	10.3	17	78	7	171	33	9	12	44	1.74
32195846--32196009	70	2.3	71	90	5	271	34	9	12	44	1.73
32195848--32196077	53	4.4	52	79	9	195	33	10	11	44	1.74
32197772--32197863	25	3.7	24	72	8	69	19	25	17	38	1.93
32197869--32197916	23	2.1	23	84	0	60	18	27	20	33	1.96
32198130--32198205	26	2.9	25	81	11	82	18	23	19	38	1.93
32198140--32198206	26	2.5	26	85	2	89	19	20	19	40	1.92
32202147--32202208	26	2.4	25	84	5	88	37	12	11	38	1.80
32209150--32209188	19	2.1	19	90	0	60	48	12	12	25	1.77
32211748--32211933	37	5.0	37	95	0	309	26	20	14	37	1.92
32219490--32219638	37	4.0	37	93	0	253	26	21	14	36	1.92
32241120--32241178	31	1.9	31	89	0	91	50	8	18	22	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32246104--32246205	20	5.4	20	70	13	65	32	6	3	56	1.44
32246884--32246945	16	3.7	17	71	18	58	58	1	0	40	1.08
32250352--32250396	19	2.4	18	85	7	72	55	0	15	28	1.41
32258715--32258774	30	2.1	28	87	6	84	23	23	31	21	1.98
32259831--32259936	7	15.0	7	76	2	59	39	0	29	31	1.57
32259857--32259936	7	11.3	7	82	2	61	35	0	33	31	1.58
32261679--32261722	22	2.0	22	100	0	88	59	22	4	13	1.53
32266163--32266205	13	3.4	13	80	6	52	69	4	0	25	1.07
32266952--32267000	20	2.5	19	78	12	55	36	0	8	55	1.30
32266944--32267038	28	3.4	27	74	11	77	35	0	4	60	1.17

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