genome.fa.s13.2.7.7.80.10.50.1000.122.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  122  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)
37118837--37118896	21	2.7	20	78	17	57	66	0	3	30	1.07
37118853--37118893	21	1.9	22	85	14	59	73	0	0	26	0.84
37127905--37128118	84	2.5	84	97	0	410	35	24	18	21	1.96
37127860--37128117	42	6.1	42	82	8	317	34	25	18	21	1.96
37130530--37130564	18	1.9	18	88	0	52	11	34	31	22	1.90
37131761--37131846	10	9.0	10	68	23	60	53	1	0	45	1.07
37131740--37131848	34	3.3	34	77	10	134	55	0	0	42	1.12
37131732--37131927	66	3.1	64	82	12	212	53	0	0	45	1.08
37131764--37131866	32	3.2	31	76	13	109	56	0	0	42	1.06
37131848--37131990	57	2.4	57	84	4	187	45	0	1	52	1.14
37132143--37132210	16	4.3	15	77	7	55	30	22	1	45	1.61
37132143--37132210	32	2.1	32	83	0	82	30	22	1	45	1.61
37132677--37132728	15	3.2	15	73	19	50	46	0	0	53	1.00
37132690--37132726	19	1.9	19	88	0	56	51	0	0	48	1.00
37132761--37132785	13	1.9	13	100	0	50	48	0	0	52	1.00
37134987--37135076	45	2.0	45	100	0	180	24	6	35	33	1.82
37139551--37139599	24	2.0	24	100	0	98	30	4	16	48	1.64
37142913--37142948	18	2.0	18	94	0	63	33	5	19	41	1.75
37149953--37149985	6	5.5	6	100	0	66	0	18	48	33	1.48
37149945--37149985	18	2.3	18	91	0	64	2	19	46	31	1.63
37152435--37152593	33	4.8	33	86	1	212	25	20	25	28	1.99
37152435--37152583	66	2.3	66	92	0	244	26	21	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37164087--37164146	29	2.1	29	93	0	102	43	10	8	38	1.68
37164088--37164141	16	3.6	16	65	14	51	42	9	9	38	1.69
37164182--37164227	21	2.2	21	96	0	83	28	4	15	52	1.61
37174334--37174621	50	5.8	50	86	2	366	25	22	29	21	1.99
37174334--37174621	99	2.9	99	83	3	364	25	22	29	21	1.99
37174334--37174621	149	1.9	148	87	2	416	25	22	29	21	1.99
37186910--37187099	24	7.8	24	77	3	164	28	21	21	28	1.98
37186923--37187099	49	3.6	49	90	0	255	28	21	21	28	1.99
37189714--37189742	5	5.8	5	100	0	58	20	58	0	20	1.39
37191849--37191882	17	2.0	17	88	0	50	61	8	8	20	1.52
37194172--37194198	11	2.5	11	100	0	54	81	0	0	18	0.69
37209555--37209646	41	2.2	41	82	3	105	22	35	20	20	1.96
37211601--37211660	3	19.7	3	83	10	77	28	5	0	66	1.12
37214398--37214446	23	2.2	22	85	10	64	46	6	6	40	1.53
37215887--37216039	22	7.0	22	90	0	225	32	14	26	26	1.94
37216392--37216864	92	5.1	92	100	0	946	39	6	4	48	1.50
37216867--37217174	9	35.7	9	68	14	130	46	19	3	30	1.67
37216867--37216952	37	2.4	36	84	5	104	50	18	1	30	1.55
37216888--37216961	37	2.0	37	97	0	139	51	14	2	31	1.57
37216900--37217008	55	2.0	55	96	0	200	51	14	3	30	1.60
37216993--37217114	16	8.0	16	67	20	82	45	18	5	30	1.72
37217024--37217175	25	6.0	25	71	7	128	43	20	4	31	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37222485--37222650	66	2.5	65	85	4	217	42	19	25	12	1.87
37222637--37222707	21	3.4	21	80	0	79	35	19	40	4	1.71
37223621--37224224	172	3.5	173	83	4	727	27	23	19	29	1.98
37223711--37224140	44	9.8	44	71	12	226	26	24	20	29	1.99
37223811--37224094	132	2.1	133	85	7	382	27	23	20	28	1.99
37223931--37224475	44	12.7	43	72	9	310	27	22	20	28	1.99
37224108--37224489	128	3.0	129	87	2	538	27	21	20	29	1.98
37233216--37233822	266	2.3	267	92	0	982	26	20	26	26	1.99
37233861--37234186	44	7.5	44	71	15	205	28	19	22	29	1.98
37233861--37234275	217	1.9	216	85	3	575	29	20	21	28	1.98
37234080--37234314	128	1.8	127	83	7	314	28	20	21	29	1.98
37235606--37235648	19	2.3	19	83	0	50	27	6	0	65	1.18
37236294--37236331	13	2.8	14	80	19	53	21	7	5	65	1.38
37237211--37237260	26	1.9	26	95	0	91	34	18	12	36	1.87
37240140--37240262	62	2.0	62	96	0	228	19	17	15	47	1.82
37240786--37240935	40	3.7	41	82	4	180	18	28	15	37	1.91
37240790--37240955	40	4.1	41	80	4	169	18	28	15	37	1.91
37244230--37244427	42	4.7	42	77	8	190	36	23	13	26	1.92
37244251--37244418	85	2.0	85	84	2	221	37	22	14	25	1.92
37245944--37246006	32	2.0	32	90	0	99	31	3	14	50	1.58
37246252--37246333	37	2.2	37	83	10	105	35	8	8	47	1.65
37257935--37258058	27	4.6	27	85	5	135	37	19	20	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37257993--37258134	27	5.3	27	75	1	106	35	18	21	24	1.96
37258120--37258170	26	1.9	27	88	4	77	25	17	19	37	1.94
37258157--37258265	24	4.5	24	78	8	96	24	6	20	48	1.72
37258437--37258575	32	4.4	31	82	4	163	21	22	18	37	1.94
37258567--37258613	22	2.1	22	84	0	58	19	17	17	46	1.84
37261275--37261460	51	3.7	49	81	5	203	24	17	26	31	1.97
37261278--37261464	101	1.8	102	87	3	279	24	17	26	32	1.97
37261466--37261564	46	2.2	43	82	12	119	23	19	23	34	1.97
37270618--37270660	21	2.0	21	81	0	50	51	16	0	32	1.45
37277722--37278202	43	11.2	43	81	4	479	24	31	19	24	1.98
37278385--37278421	19	1.9	19	94	0	65	59	2	10	27	1.44
37282664--37282736	23	3.2	23	67	7	67	27	32	13	26	1.94
37282661--37282755	46	2.1	46	97	0	181	26	30	11	31	1.91
37284073--37284194	25	5.0	23	81	12	113	33	0	18	48	1.48
37284081--37284208	41	3.1	41	85	4	170	33	0	16	50	1.46
37284162--37284232	25	2.8	25	80	0	88	36	1	14	47	1.52
37284081--37284194	16	7.0	16	78	15	126	33	0	17	49	1.47
37284309--37284403	11	8.5	11	68	19	54	54	1	5	38	1.30
37284373--37284428	17	3.5	17	70	25	50	58	0	0	41	0.98
37284380--37284409	13	2.4	13	94	5	53	60	0	0	40	0.97
37284350--37284445	22	4.5	22	72	15	74	57	1	2	39	1.17
37284778--37284815	18	2.1	18	100	0	76	26	15	5	52	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37285673--37285712	12	3.3	12	85	0	53	55	12	7	25	1.63
37285662--37285723	24	2.7	24	76	14	67	51	14	8	25	1.69
37286412--37286443	16	2.0	16	100	0	64	25	6	6	62	1.42
37287128--37287176	22	2.2	22	85	0	71	36	42	0	20	1.52
37287134--37287228	7	13.1	7	72	6	55	34	44	0	21	1.52
37287260--37287292	14	2.3	15	94	5	59	36	33	0	30	1.58
37287599--37287944	41	8.4	41	88	1	453	29	28	23	18	1.98
37288019--37288131	40	2.8	41	76	4	115	16	21	24	37	1.94
37294323--37294362	14	2.7	15	78	21	57	22	0	5	72	1.04
37296505--37296549	19	2.3	20	75	20	51	26	22	8	42	1.83
37299180--37299262	43	2.0	42	88	11	125	45	19	21	13	1.84
37300519--37301062	44	12.4	44	68	6	226	30	17	23	28	1.97
37300528--37301026	89	5.6	89	80	8	586	28	17	24	29	1.97
37300551--37301026	176	2.7	175	81	8	543	29	17	24	28	1.97
37302454--37302493	14	2.7	15	78	21	57	22	0	5	72	1.04
37303661--37303987	27	12.4	27	78	5	292	20	16	21	42	1.89
37303870--37303906	19	1.9	19	88	0	56	18	21	10	48	1.78
37303816--37303960	73	2.0	73	86	0	200	20	17	19	42	1.89
37307707--37307793	10	9.0	9	75	14	50	80	6	2	10	0.98
37307707--37307801	16	5.8	16	70	17	61	78	7	2	11	1.02
37307720--37307769	15	3.2	15	80	8	55	84	10	4	2	0.84
37307720--37307765	20	2.3	19	82	10	56	84	8	4	2	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37307712--37307765	26	2.1	25	86	3	72	83	9	3	3	0.89
37307738--37307800	24	2.6	25	82	7	69	79	6	1	12	0.99
37307771--37307811	17	2.4	17	91	0	64	70	2	2	24	1.11
37310454--37310546	32	2.9	32	91	3	152	38	15	17	29	1.90
37318328--37318356	15	1.9	15	100	0	58	3	48	0	48	1.18
37319063--37319210	27	5.5	27	87	0	197	43	20	18	16	1.87
37319041--37319210	81	2.1	81	86	2	234	45	21	17	15	1.85
37319405--37319455	26	2.0	26	88	0	75	19	25	19	35	1.95
37319564--37319673	28	4.0	28	86	1	159	23	24	21	30	1.99
37320930--37320954	5	5.0	5	100	0	50	60	0	0	40	0.97

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