genome.fa.s11.2.7.7.80.10.50.1000.37.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  37  of  210  ( 25152 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)
11839805--11840112	108	2.9	108	81	5	358	29	18	19	32	1.95
11842764--11842866	22	4.6	22	86	1	125	28	26	14	31	1.95
11854386--11854449	21	3.0	21	67	13	51	40	18	25	15	1.90
11854366--11854488	42	3.0	42	82	5	151	41	17	21	18	1.90
11854404--11854475	21	3.4	21	66	0	63	44	19	22	13	1.86
11860883--11860932	26	1.9	26	91	0	82	50	14	14	22	1.77
11867378--11867455	38	2.1	38	100	0	156	37	15	17	29	1.91
11871752--11871799	19	2.5	19	93	0	78	52	4	6	37	1.46
11875447--11875554	23	4.7	23	95	1	180	18	21	27	32	1.97
11880194--11880274	42	1.9	42	94	0	144	28	25	20	24	1.99
11883796--11883830	17	2.1	17	89	5	54	28	0	0	71	0.86
11886275--11886399	21	6.0	21	88	0	151	17	23	17	41	1.90
11886537--11886589	18	3.0	18	84	13	65	43	1	15	39	1.57
11897333--11897374	21	1.9	23	81	18	54	45	14	4	35	1.66
11898500--11898532	18	1.9	18	88	11	52	33	0	12	54	1.37
11899160--11899222	30	2.1	30	96	0	117	57	12	3	26	1.51
11900469--11900541	36	2.0	36	94	0	128	15	36	5	42	1.70
11902468--11902540	30	2.4	30	79	2	83	24	10	16	47	1.78
11909935--11909990	28	2.0	28	82	0	67	53	1	7	37	1.39
11913773--11913872	43	2.2	44	84	5	121	25	21	3	51	1.62
11918630--11918677	18	2.7	18	96	0	87	35	12	12	39	1.81
11919090--11919328	72	3.3	72	93	1	401	23	5	15	55	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11921620--11921653	18	1.9	18	88	5	52	2	23	0	73	0.97
11922803--11922871	30	2.3	30	85	5	86	31	10	26	31	1.89
11926822--11926878	29	2.0	29	82	6	71	35	12	14	38	1.83
11944649--11944735	42	2.1	42	93	0	147	32	10	17	40	1.83
11945599--11945633	17	2.1	17	100	0	70	11	11	17	60	1.59
11958504--11958600	49	2.0	49	85	0	131	23	25	7	43	1.79
11959169--11959205	9	4.1	9	92	0	65	45	13	10	29	1.77
11959557--11959618	17	3.5	17	75	18	54	22	32	0	45	1.53
11964017--11964150	66	2.0	66	94	0	232	31	23	11	33	1.90
11971322--11971394	36	2.1	35	82	7	85	8	26	6	58	1.52
11971386--11971432	17	2.7	17	83	3	58	10	19	0	70	1.16
11972364--11972397	17	2.0	17	88	0	50	29	11	0	58	1.33
11976487--11976805	159	2.0	159	96	0	593	29	13	12	43	1.82
11977878--11977910	16	2.1	16	88	11	50	36	6	18	39	1.75
11986750--11986794	20	2.2	21	88	4	65	37	0	2	60	1.09
11992798--11992836	13	3.0	13	96	0	69	48	0	0	51	1.00
11994435--11994530	25	3.8	25	72	10	88	41	18	8	31	1.80
12005398--12005435	20	1.9	20	88	0	58	28	2	21	47	1.64
12005639--12005835	41	4.8	39	75	4	135	24	19	25	29	1.98
12005641--12005835	82	2.4	82	83	5	234	24	19	25	30	1.98
12005683--12005855	82	2.1	82	81	6	199	24	19	27	29	1.98
12005797--12005896	41	2.4	41	85	3	130	29	27	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12005904--12006057	41	3.8	41	83	1	184	24	20	24	30	1.98
12006454--12006486	14	2.3	15	94	5	59	30	0	33	36	1.58
12006506--12006572	7	9.4	7	75	3	53	25	0	41	32	1.56
12006505--12006594	43	2.1	42	91	2	144	24	0	40	35	1.56
12006684--12006726	7	6.1	7	83	0	59	23	0	48	27	1.51
12006689--12006731	21	2.0	21	90	0	68	23	0	44	32	1.54
12011960--12012212	43	5.9	42	83	4	267	28	19	24	27	1.98
12011968--12012234	129	2.1	129	82	4	315	29	18	23	28	1.98
12020716--12020754	20	2.0	20	94	0	69	53	2	0	43	1.14
12028636--12028662	2	13.5	2	100	0	54	51	0	0	48	1.00
12029873--12029992	43	2.8	43	78	13	129	31	28	20	20	1.97
12032461--12032589	45	2.8	46	76	4	138	39	17	20	21	1.92
12032462--12032631	90	1.9	90	83	2	225	41	16	20	22	1.90
12032846--12032919	27	2.7	27	78	11	89	37	14	27	20	1.92
12033307--12033375	29	2.3	29	85	5	84	50	14	13	21	1.76
12034037--12034115	39	2.0	40	90	2	124	40	18	11	29	1.86
12035996--12036046	24	2.1	24	100	0	102	47	3	21	27	1.68
12037350--12037391	22	2.0	22	90	9	70	42	4	19	33	1.72
12038007--12038052	24	1.9	24	82	8	58	50	0	17	32	1.47
12049075--12049114	18	2.2	18	90	0	62	65	2	5	27	1.27
12049495--12049524	6	5.0	6	100	0	60	0	16	0	83	0.65
12051468--12051517	22	2.3	22	86	6	66	22	24	18	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12053962--12054009	19	2.7	17	72	12	51	60	4	4	31	1.35
12054197--12054246	23	2.2	23	92	7	84	64	4	2	30	1.23
12056795--12056841	24	2.0	24	86	0	67	38	6	14	40	1.72
12057205--12057338	71	1.9	71	85	3	189	27	19	23	29	1.98
12062170--12062244	33	2.3	33	80	0	87	45	14	21	18	1.85
12062192--12062256	33	2.0	32	90	3	103	40	18	24	16	1.91
12062937--12062965	6	4.8	6	100	0	58	17	0	17	65	1.27
12062921--12062978	18	3.0	20	82	12	66	22	3	12	62	1.45
12072970--12073063	49	1.9	49	91	0	152	34	14	20	30	1.93
12075184--12075354	95	1.8	92	83	6	227	43	13	15	27	1.84
12077372--12077435	32	2.0	32	90	3	103	18	21	10	48	1.79
12079754--12079786	15	2.2	15	100	0	66	60	9	9	21	1.54
12084610--12084645	18	1.9	19	94	5	65	47	8	0	44	1.33
12100927--12101022	40	2.4	39	91	3	147	37	23	22	15	1.93
12101099--12101293	41	4.8	41	92	0	293	16	23	31	28	1.96
12101624--12101666	14	3.0	14	89	3	59	23	2	39	34	1.67
12101630--12101697	14	4.9	14	83	3	75	17	2	41	38	1.65
12101890--12101957	21	3.2	21	75	10	66	23	1	39	35	1.64
12114659--12114977	108	3.0	108	90	0	503	31	16	21	29	1.96
12115110--12115142	17	1.9	17	100	0	66	60	9	6	24	1.49
12122218--12122280	30	2.1	30	90	0	99	23	3	14	58	1.50
12122362--12122402	18	2.3	18	87	8	57	19	2	12	65	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12122404--12122436	11	2.9	12	86	13	52	66	0	0	33	0.92
12122586--12122610	12	2.1	12	100	0	50	32	8	8	52	1.60
12124364--12124399	17	2.1	18	89	5	56	47	0	0	52	1.00
12124935--12124982	3	15.7	3	86	4	69	60	0	37	2	1.09
12125200--12125407	39	5.4	38	70	15	133	34	4	11	50	1.58
12133226--12133260	8	4.2	8	85	7	52	28	2	0	68	1.04
12133093--12133601	156	3.3	157	88	5	707	30	10	8	50	1.66
12133928--12133965	19	2.0	19	94	0	67	71	5	0	23	1.07
12133978--12134075	10	9.2	10	68	12	52	0	33	0	66	0.92
12134012--12134073	5	12.4	5	72	6	54	0	33	0	66	0.92
12133979--12134083	35	2.8	36	85	10	131	0	35	0	64	0.94
12133976--12134072	40	2.4	41	75	16	98	0	32	0	67	0.91
12134067--12134091	13	1.9	13	100	0	50	0	36	0	64	0.94
12134371--12134420	26	1.9	26	88	8	75	26	2	4	68	1.18
12143132--12143162	9	3.4	9	90	0	53	38	22	12	25	1.90
12144096--12144146	23	2.2	24	79	10	61	54	5	3	35	1.43
12144029--12144366	185	1.8	185	96	2	626	56	5	7	30	1.50
12144281--12144331	23	2.2	24	79	10	61	54	5	3	35	1.43
12144840--12144880	20	2.0	20	85	0	55	75	4	4	14	1.14
12146578--12146979	51	7.9	51	91	0	606	29	26	16	27	1.97
12149242--12149306	30	2.1	31	85	2	87	35	6	26	32	1.81
12149661--12149837	76	2.3	75	92	2	284	21	16	27	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12149738--12149939	102	2.0	102	92	1	334	21	19	28	30	1.98
12149840--12149979	75	1.9	76	93	1	246	23	20	27	29	1.99
12151653--12151700	24	2.0	24	84	8	62	41	6	20	31	1.77
12153953--12154024	20	3.5	20	76	14	56	54	5	9	30	1.56
12161788--12161851	13	4.9	13	74	14	60	32	6	26	34	1.82
12161787--12161851	26	2.5	26	75	9	69	32	6	26	35	1.81
12167559--12168381	113	7.3	116	78	7	514	31	19	22	26	1.98
12168571--12168614	23	1.9	23	100	0	88	20	2	40	36	1.65
12168569--12168679	7	15.1	7	76	19	84	19	0	38	40	1.58
12168616--12168677	29	2.2	28	88	2	88	20	0	33	45	1.52

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