genome.fa.s13.2.7.7.80.10.50.1000.158.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  158  of  199  ( 23770 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)
47103521--47103549	11	2.5	12	94	5	51	13	41	20	24	1.89
47105848--47106183	50	6.7	50	85	2	397	27	20	30	22	1.98
47107596--47107675	25	3.2	25	80	1	99	35	17	31	16	1.92
47109743--47109768	2	13.0	2	100	0	52	50	0	50	0	1.00
47121511--47121564	25	2.1	25	83	10	65	35	12	1	50	1.52
47122748--47122779	16	1.9	17	93	6	57	59	9	0	31	1.29
47129748--47129805	24	2.4	26	81	18	72	56	22	0	20	1.42
47130720--47130746	14	1.9	14	100	0	54	51	7	18	22	1.70
47132361--47132444	43	2.0	43	82	0	105	23	21	19	35	1.96
47134721--47134752	2	16.0	2	100	0	64	50	0	0	50	1.00
47138590--47138625	14	2.6	14	90	0	54	41	2	19	36	1.66
47142355--47142401	20	2.3	21	82	10	62	59	6	6	27	1.46
47142785--47142883	9	10.4	10	71	16	59	26	5	2	66	1.23
47142715--47142884	20	8.9	20	69	15	101	28	5	2	63	1.31
47142812--47142884	19	3.7	19	83	5	101	24	4	2	68	1.20
47143001--47143185	87	2.1	87	81	4	219	31	8	20	40	1.82
47165557--47165615	30	2.0	30	93	0	100	57	10	3	28	1.48
47171296--47171368	32	2.3	32	100	0	146	27	2	19	50	1.61
47171468--47171560	48	1.9	48	95	0	168	35	13	26	23	1.93
47172647--47172686	14	2.9	14	92	0	62	40	5	2	52	1.37
47188798--47188846	21	2.3	21	82	6	64	30	8	32	28	1.86
47191481--47191537	23	2.5	22	78	16	53	21	5	5	68	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47191481--47191537	24	2.5	22	78	21	55	21	5	5	68	1.29
47193018--47193065	23	2.1	23	84	7	62	41	6	2	50	1.39
47193368--47193412	23	2.0	23	82	8	56	37	0	13	48	1.42
47203913--47203972	31	2.0	29	84	12	77	50	16	5	28	1.66
47204079--47204143	29	2.2	29	86	5	87	27	10	9	52	1.67
47210026--47210064	17	2.4	17	82	4	53	43	2	0	53	1.14
47210642--47210858	90	2.4	89	79	10	219	44	17	5	32	1.72
47210895--47210945	18	2.7	19	80	11	61	60	0	1	37	1.08
47210889--47210945	19	3.0	19	78	14	64	59	0	1	38	1.08
47210895--47210980	19	4.6	17	72	21	66	56	1	1	40	1.14
47211171--47211318	58	2.5	58	82	8	167	29	4	2	63	1.28
47211277--47211329	20	2.7	19	82	5	61	22	5	1	69	1.19
47211171--47211356	57	3.2	57	78	13	143	29	4	2	63	1.27
47211315--47211368	27	2.0	27	82	10	67	33	3	0	62	1.12
47211303--47211394	37	2.4	38	82	10	100	31	3	0	65	1.09
47211387--47211427	21	2.0	21	90	4	66	36	2	0	60	1.10
47211434--47211605	89	1.9	91	84	2	231	36	9	16	38	1.81
47214009--47214055	2	23.5	2	100	0	94	51	0	0	48	1.00
47214844--47214888	17	2.6	17	78	0	63	51	0	0	48	1.00
47215833--47215858	11	2.4	11	100	0	52	84	0	0	15	0.62
47230943--47231331	191	2.0	195	91	4	642	29	18	19	32	1.96
47232773--47232830	28	2.1	28	100	0	116	31	13	6	48	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47237671--47237880	115	1.8	113	82	4	269	22	20	18	39	1.93
47237857--47237995	58	2.4	58	78	2	145	23	21	16	38	1.93
47241295--47241334	16	2.6	16	92	4	64	70	0	12	17	1.18
47241243--47241363	21	5.7	21	73	20	83	64	0	11	23	1.31
47241245--47241377	63	2.1	65	86	9	184	64	0	12	22	1.31
47241767--47241866	5	18.4	5	72	15	74	50	0	19	31	1.48
47241767--47241866	11	9.2	10	74	14	74	50	0	19	31	1.48
47241767--47241866	28	3.4	29	84	8	114	50	0	19	31	1.48
47241785--47241866	32	2.5	33	92	4	130	48	0	19	31	1.49
47241892--47241925	18	1.9	17	94	5	59	70	5	11	11	1.32
47241959--47241997	21	1.9	20	89	5	60	64	0	12	23	1.28
47241955--47242011	21	2.8	21	80	15	57	63	0	12	24	1.29
47242438--47242469	6	5.3	6	92	0	55	34	28	0	37	1.57
47244709--47244918	90	2.3	90	86	2	262	55	12	5	26	1.58
47244753--47244925	90	1.9	90	95	0	310	54	14	5	25	1.62
47244753--47244945	90	2.1	90	91	0	305	52	14	6	26	1.65
47245660--47245987	111	2.9	111	86	4	453	31	22	22	24	1.99
47249405--47249444	17	2.4	17	100	0	80	45	15	20	20	1.86
47251450--47251499	26	1.9	26	87	0	73	52	0	2	46	1.12
47251412--47251500	31	3.0	30	69	23	73	50	2	4	42	1.35
47254950--47254982	5	6.6	5	100	0	66	21	18	21	39	1.93
47262838--47262876	19	2.0	20	90	5	62	61	5	0	33	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47264818--47264866	26	1.9	25	91	4	80	53	0	4	42	1.20
47266091--47266123	16	2.1	16	94	0	57	90	0	9	0	0.44
47277410--47277451	19	2.2	20	86	4	59	23	0	4	71	1.05
47279034--47279084	22	2.5	20	87	6	66	11	7	9	70	1.33
47280653--47280735	40	2.0	41	86	2	114	39	18	8	33	1.80
47283036--47283083	10	4.3	12	72	17	50	56	0	0	43	0.99
47284415--47284473	30	1.9	30	86	3	82	49	3	18	28	1.64
47285636--47285729	21	4.5	21	69	0	62	15	21	17	45	1.85
47285637--47285828	42	4.6	42	80	5	190	16	19	17	46	1.84
47285771--47285830	21	2.9	21	72	7	59	15	21	18	45	1.86
47285956--47285983	2	14.0	2	100	0	56	50	0	0	50	1.00
47287581--47287716	41	3.5	39	74	7	114	32	23	16	27	1.96
47287872--47287918	24	2.0	24	84	16	62	51	14	0	34	1.43
47288619--47288659	19	2.0	20	86	13	57	7	21	0	70	1.11
47288700--47288862	5	32.8	5	97	1	310	59	0	0	39	1.02
47297379--47297466	7	12.4	7	82	13	85	77	10	1	11	1.05
47297377--47297466	18	4.6	19	78	20	89	77	10	1	11	1.04
47297379--47297460	6	12.8	6	80	11	51	78	9	1	10	1.03
47297377--47297466	39	2.3	40	83	11	107	77	10	1	11	1.04
47298333--47298367	10	3.5	10	84	0	52	77	0	11	11	1.00
47299650--47299872	43	5.2	43	65	12	152	28	21	23	26	1.99
47299864--47300087	43	5.2	43	63	16	129	30	23	20	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47299596--47300087	86	5.7	86	93	0	797	30	22	22	24	1.99
47302282--47302325	3	14.7	3	100	0	88	34	0	0	65	0.93
47302351--47302463	51	2.3	49	78	7	122	38	7	2	51	1.45
47307078--47307135	22	2.7	21	76	10	53	43	17	1	37	1.59
47322040--47322437	120	3.4	119	86	9	613	42	2	5	49	1.37
47322167--47322220	15	3.6	16	78	14	53	44	0	1	53	1.11
47321930--47322445	228	2.3	222	88	6	731	43	2	4	49	1.36
47322402--47322443	15	2.7	16	82	14	52	45	0	2	52	1.13
47322393--47322434	15	2.9	15	82	10	52	47	0	0	52	1.00
47322657--47322689	16	2.1	16	94	0	57	21	33	6	39	1.78
47326394--47326440	5	9.0	5	81	9	58	0	34	57	8	1.29
47326394--47326440	11	4.5	10	79	10	58	0	34	57	8	1.29
47326398--47326440	16	2.7	16	100	0	86	0	34	55	9	1.32
47326527--47326582	22	2.5	23	82	2	69	51	1	1	44	1.22
47326558--47326597	16	2.5	16	91	0	62	47	2	7	42	1.45
47326600--47326747	59	2.5	59	93	1	253	40	4	8	47	1.52
47326729--47326756	9	3.1	9	100	0	56	32	0	10	57	1.33
47326851--47326896	23	2.0	23	91	4	76	58	2	0	39	1.10
47336647--47336688	22	1.9	22	85	0	57	57	0	42	0	0.99
47342077--47342123	18	2.5	19	82	3	60	63	4	4	27	1.31
47346681--47346705	2	12.5	2	100	0	50	48	0	0	52	1.00
47347186--47347222	2	18.5	2	94	0	65	48	2	0	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47349176--47349203	3	9.3	3	100	0	56	32	32	0	35	1.58
47350165--47350198	17	2.0	17	88	0	50	67	5	14	11	1.39
47352732--47352822	30	3.0	30	98	0	173	29	8	20	40	1.83
47353531--47353565	2	17.5	2	100	0	70	51	0	48	0	1.00
47355876--47356156	140	2.0	140	92	0	463	30	20	13	35	1.91
47359764--47359795	15	2.1	16	88	11	50	65	0	3	31	1.08
47360336--47360373	17	2.2	17	86	9	51	65	0	0	34	0.93
47360430--47360456	12	2.2	12	100	0	54	77	0	0	22	0.76
47360812--47360871	3	20.3	3	82	3	59	61	1	35	1	1.16
47364608--47364649	3	13.7	3	95	5	75	33	0	0	66	0.92

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