genome.fa.s2.2.7.7.80.10.50.1000.169.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: Chr02 ID=Chr02-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62769430

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   

This is table  169  of  206  ( 24623 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)
51442181--51442255	20	3.6	20	77	21	66	64	1	0	34	1.02
51442182--51442260	24	3.2	24	74	12	72	64	2	0	32	1.07
51446576--51446607	16	2.0	16	100	0	64	43	6	18	31	1.75
51448702--51448741	16	2.4	17	87	8	55	70	2	0	27	1.01
51449781--51449814	15	2.2	16	89	5	52	79	2	5	11	1.02
51455942--51456188	27	9.2	27	86	1	302	44	20	16	18	1.87
51455942--51456188	80	3.1	81	86	2	329	44	20	16	18	1.87
51455965--51456188	53	4.2	54	82	5	242	44	20	17	17	1.87
51456524--51456631	30	3.6	30	87	0	144	21	23	23	32	1.98
51456524--51456636	60	1.9	60	86	0	163	22	23	23	30	1.99
51457242--51457322	25	3.2	25	75	14	87	30	20	24	23	1.99
51463862--51463896	17	2.1	17	88	0	52	40	20	5	34	1.76
51471005--51471030	1	26.0	1	100	0	52	0	100	0	0	0.00
51474858--51474891	16	2.1	17	88	5	52	35	5	2	55	1.39
51474981--51475096	49	2.4	48	83	11	137	35	3	4	56	1.36
51475006--51475113	49	2.2	50	81	8	132	37	4	3	54	1.39
51477173--51477217	20	2.2	20	88	7	65	6	13	0	80	0.91
51477173--51477217	18	2.4	18	88	7	63	6	13	0	80	0.91
51480619--51480745	61	2.1	61	98	1	247	41	7	24	25	1.82
51481901--51481978	1	78.0	1	76	0	75	88	10	0	1	0.57
51481900--51481977	7	11.0	7	85	10	97	87	11	0	1	0.61
51481902--51481977	13	5.9	13	83	7	93	88	10	0	1	0.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51482411--51482459	13	3.9	12	86	10	55	79	4	14	2	0.97
51483758--51483905	50	3.0	50	69	4	136	32	20	21	25	1.97
51483700--51484039	100	3.4	100	84	2	425	30	19	22	27	1.98
51484084--51484776	45	15.4	45	85	5	904	29	17	22	30	1.97
51484815--51484963	50	3.0	50	83	0	181	34	24	17	24	1.96
51484984--51485608	44	14.6	43	74	10	437	31	24	20	24	1.98
51484977--51485608	129	4.9	129	94	0	1054	31	24	20	24	1.98
51486036--51486082	19	2.5	19	100	0	94	21	48	10	19	1.78
51499234--51499765	231	2.3	231	87	3	761	28	18	21	31	1.97
51500248--51500286	21	1.9	20	89	5	60	17	2	41	38	1.64
51500358--51500562	7	28.7	7	67	15	64	22	0	38	38	1.61
51503002--51503117	21	5.5	21	71	17	89	48	13	1	36	1.53
51503062--51503594	9	62.0	9	67	19	266	45	20	1	33	1.61
51503093--51503119	12	2.2	12	100	0	54	51	14	0	33	1.43
51503155--51503533	25	14.6	25	73	14	195	45	19	0	33	1.55
51503069--51503574	37	14.8	36	65	21	182	45	19	1	33	1.59
51503107--51503425	67	4.8	67	89	4	434	46	19	0	34	1.55
51503534--51503594	25	2.4	25	94	0	104	40	21	6	31	1.78
51503127--51503564	16	26.9	16	69	20	159	45	20	0	33	1.57
51504953--51505246	43	6.9	43	89	2	407	25	18	30	24	1.98
51504953--51505262	85	3.6	86	87	2	412	25	18	30	25	1.98
51513534--51513564	16	1.9	16	93	0	53	25	0	6	67	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51514968--51515049	21	3.9	21	76	6	76	18	20	17	43	1.88
51520196--51520225	7	4.1	7	95	4	51	13	0	0	86	0.57
51520195--51520232	14	2.7	14	80	15	51	15	2	0	81	0.80
51520436--51520472	11	3.3	11	85	7	56	18	8	8	64	1.45
51521829--51521909	6	13.2	6	86	8	74	23	0	2	74	0.94
51521829--51521889	12	5.3	11	88	9	86	26	0	0	73	0.83
51521832--51521909	24	3.2	24	83	9	95	24	0	2	73	0.96
51533085--51533126	21	2.0	21	90	0	66	30	7	38	23	1.82
51546043--51546124	40	2.0	40	95	0	146	40	8	30	20	1.82
51548671--51548698	12	2.3	12	100	0	56	53	7	0	39	1.28
51559041--51559069	13	2.3	13	94	5	51	37	0	3	58	1.15
51560208--51560236	15	1.9	15	100	0	58	41	3	27	27	1.72
51566121--51566153	15	2.2	15	94	0	57	36	12	0	51	1.39
51569163--51569363	45	4.5	45	86	2	244	24	21	16	36	1.94
51569191--51569363	45	3.9	45	90	2	260	25	21	17	35	1.95
51571788--51571826	19	2.0	20	85	5	53	58	0	28	12	1.34
51575580--51575622	20	2.2	20	91	0	68	25	4	9	60	1.47
51578153--51578177	10	2.5	10	100	0	50	8	8	0	84	0.79
51587554--51587596	18	2.4	18	92	0	68	41	9	27	20	1.83
51588183--51588207	7	3.6	7	100	0	50	60	12	0	28	1.32
51590244--51590305	27	2.3	27	81	10	74	37	0	1	61	1.06
51590333--51590430	51	1.9	51	81	4	117	34	5	14	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51590766--51590810	21	2.1	21	95	0	81	40	6	13	40	1.71
51604153--51604206	23	2.2	24	80	12	65	35	1	5	57	1.33
51606341--51606691	117	3.0	117	100	0	702	28	9	17	45	1.79
51616943--51616987	20	2.2	20	92	0	72	22	17	28	31	1.97
51616950--51616993	20	2.2	20	91	0	70	18	18	31	31	1.95
51619760--51619806	24	2.0	24	83	8	60	27	2	21	48	1.61
51620299--51620357	29	2.0	29	96	0	109	23	25	16	33	1.96
51628325--51628464	50	2.8	52	82	5	171	25	18	27	29	1.98
51628332--51628518	51	3.8	49	77	7	173	24	17	27	30	1.97
51628327--51628518	100	1.9	100	84	5	253	25	18	26	30	1.98
51641199--51641229	16	1.9	16	93	0	53	32	0	25	41	1.56
51649978--51650041	15	4.2	16	74	9	53	7	37	0	54	1.29
51651971--51652174	40	5.1	40	85	2	261	21	27	18	32	1.97
51652047--51652149	20	5.2	20	66	0	71	21	33	18	27	1.96
51657084--51657128	20	2.2	20	80	7	56	60	6	4	28	1.42
51658624--51658684	20	3.0	20	76	9	70	13	24	21	40	1.88
51665539--51665575	18	2.1	18	94	0	65	43	5	29	21	1.75
51674349--51674399	22	2.3	23	86	6	70	37	5	1	54	1.36
51674553--51674617	28	2.3	29	73	5	71	23	18	18	40	1.92
51674817--51674865	22	2.3	22	85	3	64	20	0	32	46	1.51
51674978--51675299	126	2.5	126	87	2	459	31	17	20	29	1.96
51678339--51678469	16	7.3	18	66	22	62	39	3	8	48	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51678348--51678571	53	4.1	53	77	11	263	39	6	8	45	1.59
51678569--51678600	6	5.3	6	100	0	64	15	0	46	37	1.46
51678569--51678621	18	2.9	18	82	0	61	16	0	39	43	1.49
51678660--51678837	43	4.3	42	86	11	258	24	0	30	44	1.54
51678719--51678756	17	2.3	17	90	4	60	21	0	31	47	1.51
51678662--51678821	81	2.0	82	92	3	270	25	0	29	45	1.54
51678660--51678837	21	8.5	21	84	7	247	24	0	30	44	1.54
51678869--51678900	7	4.9	7	85	14	50	53	0	0	46	1.00
51679101--51679161	21	2.9	21	80	4	61	6	21	40	31	1.78
51679403--51679445	18	2.4	18	80	0	50	46	9	25	18	1.79
51681218--51681259	19	2.2	20	95	4	77	54	2	0	42	1.13
51681267--51681303	11	3.2	12	85	11	51	48	5	18	27	1.70
51681259--51681356	51	1.9	50	85	8	135	47	3	23	25	1.66
51681477--51681562	27	3.2	27	91	6	147	19	33	43	3	1.68
51683677--51683702	11	2.4	11	100	0	52	53	11	0	34	1.37
51683910--51684108	61	3.2	58	72	16	166	51	3	4	41	1.38
51684017--51684060	20	2.2	20	83	0	52	50	4	4	40	1.43
51685442--51685530	39	2.3	37	81	12	101	51	2	4	41	1.34
51691694--51691736	18	2.3	18	84	11	52	18	0	30	51	1.47
51695758--51695808	25	2.0	26	81	11	61	39	11	9	39	1.75
51695905--51696039	68	2.0	69	83	1	173	48	4	3	43	1.41
51696017--51696049	16	2.0	17	88	5	50	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51700872--51701106	50	4.6	50	74	4	177	22	25	22	28	1.99
51702388--51702422	2	17.5	2	100	0	70	48	0	0	51	1.00
51706197--51706253	23	2.5	23	85	5	71	45	21	19	14	1.85
51706217--51706260	23	1.9	23	85	0	61	47	18	20	13	1.82
51706218--51706267	23	2.2	23	81	0	55	50	18	18	14	1.79
51710055--51710084	15	2.0	15	100	0	60	33	20	0	46	1.51
51711506--51711549	22	1.9	24	86	9	65	40	9	2	47	1.48
51716237--51716295	16	3.6	16	80	13	66	40	0	3	55	1.16
51716472--51716504	17	1.9	17	88	11	50	54	0	0	45	0.99
51720428--51720460	5	6.8	5	96	3	59	42	0	21	36	1.53

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