genome.fa.s13.2.7.7.80.10.50.1000.118.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  118  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)
35967292--35967361	36	1.9	36	97	0	131	48	0	7	44	1.30
35967721--35967771	20	2.7	19	76	8	59	52	0	1	45	1.12
35973095--35973144	11	4.6	11	75	9	50	4	16	10	70	1.30
35979541--35979730	80	2.4	80	83	5	231	18	17	21	42	1.89
35979541--35979723	53	3.4	53	84	6	226	19	16	20	43	1.88
35979541--35979723	27	6.9	27	80	4	210	19	16	20	43	1.88
35979731--35979788	27	2.1	27	90	0	89	15	17	29	37	1.90
35979741--35979802	27	2.3	27	80	2	72	20	17	22	38	1.93
35985974--35986020	22	2.2	20	88	7	67	68	8	0	23	1.17
35986053--35986101	15	3.3	15	91	5	73	73	6	0	20	1.04
35990066--35990227	36	4.5	36	79	3	173	40	29	12	17	1.86
35992550--35992580	15	2.1	15	93	0	53	74	3	3	19	1.10
35994981--35995013	17	1.9	17	88	11	50	51	9	0	39	1.34
35998385--35998426	17	2.5	17	84	0	57	38	0	16	45	1.48
36003553--36003640	40	2.2	40	87	0	122	42	18	28	11	1.85
36003553--36003614	20	3.1	20	69	0	52	43	16	29	11	1.82
36016093--36016144	21	2.6	21	93	6	90	38	13	9	38	1.77
36016541--36017050	44	11.7	44	70	11	214	29	23	19	27	1.98
36016503--36016906	217	1.9	219	90	1	659	29	24	19	27	1.98
36016761--36017127	84	4.3	84	70	12	269	28	23	20	28	1.99
36016534--36017008	217	2.2	217	83	6	604	29	23	19	27	1.98
36016458--36017052	44	13.7	44	69	13	207	28	23	20	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36016630--36017123	261	1.9	261	89	0	763	28	24	19	27	1.98
36017108--36017401	132	2.2	131	90	1	401	26	25	19	28	1.99
36017192--36017355	44	3.7	44	69	9	127	28	25	18	28	1.98
36017197--36017376	44	4.1	44	68	16	120	27	27	17	27	1.97
36018346--36018386	22	1.9	21	85	14	57	7	17	0	75	1.02
36023990--36024048	29	2.0	29	96	0	109	35	6	13	44	1.71
36024391--36024449	4	14.8	4	76	16	52	76	3	0	20	0.93
36024391--36024445	15	3.5	15	75	22	51	76	3	0	20	0.94
36024389--36024450	21	3.3	18	75	18	63	75	3	0	20	0.94
36025028--36025085	22	2.6	22	84	7	73	43	17	3	36	1.66
36025064--36025119	21	2.8	19	82	10	76	37	16	7	39	1.76
36025075--36025118	21	2.1	21	95	0	79	38	13	6	40	1.71
36025160--36025229	34	2.1	34	100	0	140	34	17	24	24	1.96
36029270--36029295	12	2.2	12	100	0	52	76	0	0	23	0.78
36031211--36031487	140	2.0	140	100	0	554	38	9	22	29	1.86
36031610--36031668	30	2.0	30	86	0	82	32	15	22	30	1.94
36040500--36041093	138	4.3	138	89	1	859	45	5	8	40	1.60
36044660--36044750	8	10.6	8	73	17	58	64	0	2	32	1.05
36044647--36044751	25	4.4	25	69	20	80	62	0	1	35	1.06
36044630--36044741	37	3.1	37	82	12	144	61	0	2	35	1.10
36044616--36044763	35	4.1	36	82	11	153	62	0	2	35	1.12
36046761--36046801	18	2.3	18	86	0	55	43	7	17	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36047299--36047359	13	4.7	13	72	0	50	37	24	6	31	1.81
36048122--36048189	33	2.1	33	100	0	136	36	11	8	42	1.73
36049039--36049076	19	2.0	19	100	0	76	21	21	10	47	1.80
36050200--36050224	12	2.1	12	100	0	50	24	24	0	52	1.48
36064673--36064826	79	2.0	78	87	3	220	32	9	22	35	1.87
36069449--36069501	22	2.6	19	72	18	52	37	20	15	26	1.92
36073430--36073546	55	2.1	56	95	1	209	38	14	6	40	1.73
36073735--36073778	23	1.9	23	90	9	72	13	11	4	70	1.31
36073800--36073833	18	1.9	18	88	5	52	32	5	2	58	1.37
36075387--36075809	208	2.0	208	92	0	702	28	19	22	28	1.98
36076210--36076241	14	2.3	14	94	0	55	25	0	25	50	1.50
36076183--36076266	39	2.2	39	91	0	132	25	1	22	51	1.56
36079355--36079408	16	3.6	16	73	14	60	46	14	0	38	1.45
36079413--36079466	17	3.1	18	79	17	69	40	0	1	57	1.09
36079476--36079695	18	11.2	20	67	20	83	52	17	0	29	1.51
36079552--36080007	9	53.0	9	65	17	103	50	18	1	30	1.55
36079558--36079946	34	11.6	34	68	16	152	51	18	1	29	1.54
36079618--36079657	12	3.3	12	85	0	53	50	17	0	32	1.47
36079552--36079727	96	1.8	95	97	1	334	55	16	1	27	1.49
36079710--36080005	16	17.9	17	74	15	198	47	19	1	32	1.58
36079710--36080005	41	7.0	41	77	12	255	47	19	1	32	1.58
36079481--36080005	50	10.8	50	69	19	303	49	18	1	30	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36079481--36080005	25	20.7	25	74	12	243	49	18	1	30	1.55
36083216--36083267	21	2.5	21	87	0	77	36	17	44	1	1.60
36083177--36083353	87	2.0	87	86	0	246	39	16	31	12	1.86
36083177--36083379	87	2.3	87	82	1	210	39	17	30	12	1.86
36083687--36083858	43	4.0	43	84	2	220	29	21	26	22	1.99
36084492--36084524	14	2.2	15	89	10	50	54	0	0	45	0.99
36085586--36085997	41	10.1	41	82	4	447	20	20	28	30	1.98
36086229--36086271	22	2.0	22	85	0	59	18	0	34	46	1.50
36086577--36086614	14	2.7	15	88	12	62	26	0	31	42	1.56
36086935--36087074	61	2.2	65	79	9	157	37	2	12	47	1.53
36087129--36087156	14	2.0	14	100	0	56	50	0	0	50	1.00
36087301--36087531	84	2.8	83	81	3	293	43	14	12	29	1.82
36091940--36092189	43	5.8	43	87	2	315	26	19	29	25	1.99
36091947--36092189	85	2.8	86	89	0	344	25	20	29	25	1.99
36092777--36092909	57	2.3	57	88	2	187	28	10	14	46	1.77
36095317--36095555	50	4.8	50	78	6	198	30	20	25	23	1.99
36095425--36095545	49	2.4	49	81	4	143	33	19	23	23	1.97
36097957--36097989	15	2.2	15	94	0	57	42	18	6	33	1.75
36099708--36099784	14	5.0	15	71	20	52	42	14	9	33	1.77
36099724--36099763	20	2.0	20	90	0	62	50	12	10	27	1.72
36099712--36099778	34	1.9	35	90	3	109	46	13	8	31	1.74
36101579--36101622	22	2.0	22	100	0	88	31	4	13	50	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36102672--36102709	13	2.9	13	85	14	60	39	21	7	31	1.82
36106026--36106072	18	2.7	18	90	3	69	53	2	0	44	1.12
36107429--36107488	30	2.0	31	86	3	86	40	0	40	20	1.52
36107598--36107659	30	2.1	30	87	0	88	41	0	38	19	1.51
36107701--36107737	9	4.1	9	85	0	56	29	13	13	43	1.82
36107790--36107820	9	3.4	9	90	0	53	38	22	12	25	1.90
36108869--36108912	20	2.2	20	88	8	63	65	2	25	6	1.28
36109087--36109112	11	2.4	11	100	0	52	15	0	0	84	0.62
36109904--36109941	15	2.5	15	83	8	51	39	2	0	57	1.12
36116506--36116930	43	9.9	43	90	0	654	31	20	23	23	1.98
36117065--36117444	44	8.7	44	72	10	224	27	20	25	27	1.99
36118083--36118127	20	2.2	21	88	4	65	66	2	24	6	1.27
36119127--36119164	15	2.5	15	83	8	51	39	2	0	57	1.12
36124335--36124384	23	2.1	24	85	10	68	58	0	4	38	1.17
36125633--36125688	20	2.7	21	83	10	62	37	3	5	53	1.41
36127341--36127404	21	3.0	21	88	4	94	40	20	4	34	1.73
36147804--36147966	57	2.9	56	82	3	191	32	17	25	24	1.97
36157323--36157352	16	1.9	15	93	6	51	36	0	3	60	1.14
36158422--36158460	21	1.9	21	84	5	53	15	7	7	69	1.35
36160499--36160534	18	2.0	18	100	0	72	27	11	16	44	1.82
36164857--36165573	45	16.0	45	88	1	1017	29	16	23	31	1.96
36165531--36165692	89	1.8	88	86	1	234	27	19	25	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36165672--36166142	132	3.6	132	89	0	674	30	19	24	25	1.98
36166182--36166343	50	3.2	51	72	13	140	34	18	19	27	1.95
36166316--36166472	44	3.5	45	72	14	137	28	16	29	25	1.97
36166695--36166724	15	2.0	15	93	0	51	70	13	0	16	1.18
36170692--36170750	18	3.2	18	69	21	50	45	23	8	22	1.79
36179442--36179494	17	3.2	17	76	10	56	45	1	5	47	1.37
36187342--36187394	17	3.2	17	78	10	65	43	1	5	49	1.37
36188189--36188234	22	2.1	22	92	4	76	6	4	4	84	0.85
36188188--36188235	21	2.3	21	85	7	71	8	6	4	81	0.98
36189284--36189317	18	1.9	18	88	5	52	11	26	44	17	1.83

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