genome.fa.s1.2.7.7.80.10.50.1000.175.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: Chr01 ID=Chr01-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  55868233

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   

This is table  175  of  187  ( 22383 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)
52386736--52386821	39	2.2	41	79	8	97	24	2	5	67	1.24
52386860--52386950	10	9.4	10	68	21	52	31	1	2	64	1.12
52386860--52386950	19	4.7	19	70	17	64	31	1	2	64	1.12
52386881--52386950	10	7.4	9	76	13	70	31	0	2	65	1.07
52386899--52386951	18	2.9	17	79	17	61	35	0	1	62	1.06
52386861--52386951	9	9.5	10	67	18	52	32	1	2	63	1.13
52386946--52386986	18	2.3	19	83	12	59	31	2	2	63	1.20
52389885--52389942	30	1.9	30	86	6	82	50	5	3	41	1.42
52392946--52392983	18	2.1	19	85	5	51	28	2	5	63	1.30
52395080--52395162	31	2.7	31	86	0	121	49	8	7	34	1.61
52406961--52407075	61	1.9	61	81	3	142	44	14	2	38	1.60
52413431--52413852	106	4.0	106	90	1	648	32	17	18	30	1.95
52414118--52414161	23	2.0	22	81	4	52	63	2	11	22	1.38
52424540--52424612	24	2.9	25	75	8	76	57	0	4	38	1.18
52424498--52424614	24	4.7	23	69	16	74	57	3	3	35	1.32
52424571--52424627	23	2.3	23	82	8	60	61	0	1	36	1.07
52424572--52424628	25	2.4	22	80	13	60	61	0	1	36	1.07
52424659--52424731	31	2.2	32	83	7	85	61	1	1	35	1.13
52425520--52425546	2	13.5	2	100	0	54	48	0	0	51	1.00
52425930--52426036	52	2.1	52	92	0	178	18	28	9	43	1.81
52426792--52426833	22	2.0	20	86	13	59	52	9	0	38	1.34
52432841--52432871	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52436493--52436541	10	5.0	10	78	16	50	44	0	4	51	1.20
52446876--52447050	66	2.7	66	85	0	244	21	26	25	26	1.99
52452997--52453021	2	12.5	2	100	0	50	52	0	0	48	1.00
52453411--52453542	41	3.2	41	83	2	131	32	27	18	21	1.97
52453648--52453784	65	2.2	62	82	11	154	42	17	8	32	1.78
52453799--52453918	61	2.0	60	83	4	152	43	15	3	37	1.64
52454838--52454894	28	2.0	28	90	6	89	38	5	0	56	1.22
52456332--52456367	2	18.0	2	100	0	72	50	0	0	50	1.00
52459097--52459257	33	4.8	32	71	8	115	29	14	26	29	1.95
52459079--52459269	101	1.9	101	93	0	328	29	15	25	29	1.95
52459505--52459537	12	2.8	12	100	0	66	27	6	24	42	1.78
52463347--52463945	202	3.0	201	84	3	783	32	14	22	30	1.94
52463926--52463977	23	2.3	23	80	6	61	13	17	28	40	1.87
52466826--52466868	21	2.0	21	86	8	61	58	0	0	41	0.98
52467496--52467538	18	2.4	18	85	11	61	67	4	11	16	1.38
52482680--52482722	3	14.3	3	90	0	68	2	2	30	65	1.18
52496871--52497033	85	1.9	85	97	0	308	44	17	14	22	1.85
52506436--52506463	2	14.0	2	100	0	56	50	0	50	0	1.00
52506930--52506957	12	2.3	12	100	0	56	32	28	7	32	1.84
52510825--52510870	7	6.9	7	83	11	53	73	0	17	8	1.07
52510825--52510876	26	2.0	26	92	7	88	73	0	19	7	1.07
52518041--52518065	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52537653--52537762	54	2.0	56	94	3	197	47	3	3	45	1.38
52551592--52551763	86	2.0	85	84	10	226	47	6	5	40	1.53
52551752--52551791	17	2.4	17	87	8	55	45	7	15	32	1.74
52551809--52551865	16	3.6	16	90	0	87	45	3	3	47	1.37
52551839--52551900	22	2.7	23	90	5	90	48	1	1	48	1.21
52564066--52564132	18	3.6	18	73	18	57	41	1	0	56	1.08
52564808--52564994	96	1.9	97	90	1	295	37	6	26	28	1.82
52570786--52570823	19	2.0	20	89	5	60	2	15	2	78	0.97
52571309--52571359	10	5.0	10	75	13	50	68	3	1	25	1.17
52574857--52574887	15	2.1	15	93	0	53	90	0	9	0	0.46
52579511--52579569	15	4.1	14	80	8	57	71	3	1	23	1.11
52582594--52582655	27	2.3	26	78	10	63	51	9	4	33	1.56
52582858--52582903	3	15.0	3	90	4	74	63	0	2	34	1.07
52593990--52594133	72	2.0	73	90	1	227	30	22	10	36	1.88
52600750--52600805	26	2.2	26	90	6	87	28	25	17	28	1.98
52603094--52603131	20	2.0	20	89	5	60	44	0	2	52	1.14
52603099--52603143	20	2.3	20	84	3	56	46	0	2	51	1.13
52603055--52603158	49	2.1	51	82	7	124	45	0	2	51	1.16
52603167--52603225	29	2.0	29	80	6	66	57	3	0	38	1.15
52607357--52607413	19	2.8	20	75	17	64	36	8	14	40	1.76
52619406--52619447	20	2.0	21	86	4	59	73	2	2	21	1.06
52619447--52619527	19	4.3	19	69	19	53	59	1	4	34	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52619449--52619565	57	2.0	57	82	8	139	58	2	8	30	1.42
52619895--52620170	88	3.1	88	85	6	364	34	7	17	40	1.78
52635974--52636035	29	2.1	29	96	0	115	43	20	16	19	1.88
52638198--52638266	35	2.1	33	82	15	97	65	15	1	17	1.35
52645654--52645721	27	2.5	27	74	9	68	63	7	2	26	1.35
52655238--52655283	14	3.2	15	77	17	53	50	4	6	39	1.48
52662362--52662392	16	1.9	16	93	0	53	54	0	0	45	0.99
52662351--52662404	27	2.0	26	85	3	72	50	1	0	48	1.11
52662694--52662763	31	2.3	30	83	11	88	45	0	1	52	1.09
52662695--52662774	33	2.5	32	82	10	92	45	1	1	52	1.16
52667621--52667720	47	2.1	47	88	1	146	35	9	14	42	1.77
52668537--52668578	2	22.0	2	90	9	70	47	0	0	52	1.00
52674716--52674754	18	2.2	18	85	0	51	46	10	17	25	1.80
52677063--52677095	16	2.1	16	88	5	50	27	0	0	72	0.85
52681467--52681525	25	2.4	25	100	0	118	50	6	5	37	1.51
52683976--52684050	29	2.5	30	76	10	73	42	9	16	32	1.79
52685418--52685443	2	13.0	2	100	0	52	50	0	0	50	1.00
52685644--52685736	44	2.2	43	81	11	102	47	3	12	36	1.58
52685738--52685788	25	2.1	24	82	10	59	47	3	0	49	1.20
52686126--52686186	29	2.1	29	93	0	104	39	14	4	40	1.68
52686513--52686645	40	3.3	40	80	5	144	31	19	21	27	1.97
52687081--52687176	14	6.9	14	71	11	63	22	0	30	46	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52687081--52687175	21	4.5	21	73	5	75	23	0	29	47	1.52
52687081--52687176	35	2.7	35	79	9	106	22	0	30	46	1.52
52691951--52692049	43	2.3	43	81	8	121	25	16	26	32	1.96
52691978--52692176	43	4.7	43	78	1	229	22	19	26	31	1.98
52692670--52692716	22	2.1	22	84	11	60	40	0	6	53	1.27
52692670--52692716	21	2.1	23	84	11	62	40	0	6	53	1.27
52692661--52692716	23	2.4	24	77	17	64	41	0	7	51	1.29
52693068--52693102	18	1.9	18	88	11	54	40	0	5	54	1.24
52695772--52695986	116	1.9	116	90	0	349	34	26	13	25	1.93
52696581--52696633	13	4.1	13	75	0	52	32	5	22	39	1.78
52696816--52696912	33	2.8	35	72	20	89	50	1	3	45	1.24
52697098--52697135	19	2.0	19	94	0	67	44	5	13	36	1.66
52697122--52697162	19	2.2	19	100	0	82	51	14	9	24	1.72
52702173--52702221	14	3.6	14	81	13	66	55	0	0	44	0.99
52702529--52702581	24	2.1	25	82	10	63	52	7	0	39	1.30
52703065--52703116	16	3.2	16	94	0	86	30	0	36	32	1.58
52703097--52703206	45	2.6	43	80	9	129	33	5	29	31	1.80
52703351--52703385	18	2.0	17	88	5	52	54	0	0	45	0.99
52708012--52708057	19	2.3	21	78	10	53	39	0	2	58	1.10
52708114--52708175	30	2.1	29	85	8	81	48	22	6	22	1.73
52708273--52708309	3	12.3	3	100	0	74	67	0	32	0	0.91
52709263--52709327	31	2.1	31	83	8	80	24	9	20	46	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52712992--52713067	20	3.8	20	76	20	70	31	0	3	64	1.12
52713012--52713068	19	2.9	20	78	19	66	31	0	5	63	1.17
52713662--52713870	106	2.0	103	95	2	373	32	25	8	33	1.85
52716301--52716343	18	2.4	18	88	7	61	46	0	0	53	1.00
52719531--52719557	13	2.1	13	100	0	54	48	7	22	22	1.75
52723788--52723871	35	2.5	34	79	9	91	47	1	4	46	1.31
52723813--52723873	24	2.5	23	80	15	61	45	0	4	49	1.23
52724290--52724330	12	3.5	12	81	15	50	73	7	19	0	1.07
52725080--52725170	39	2.3	40	84	7	114	36	5	18	39	1.74
52725353--52725439	39	2.2	39	93	0	147	19	16	20	43	1.88

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