genome.fa.s2.2.7.7.80.10.50.1000.127.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  127  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)
38265612--38265723	13	8.5	13	69	24	51	73	4	16	6	1.20
38265612--38265669	6	9.0	6	75	14	53	75	5	15	3	1.11
38266963--38267025	21	3.0	21	88	2	90	30	3	33	33	1.74
38268158--38268216	30	2.0	30	83	6	75	28	15	25	30	1.96
38271168--38271229	10	5.9	10	74	10	52	33	32	3	30	1.74
38271168--38271230	21	3.0	21	88	2	90	33	33	3	30	1.74
38298566--38298607	14	2.9	14	85	3	57	2	21	2	73	1.06
38299955--38299984	15	1.9	16	93	6	53	13	23	23	40	1.90
38300675--38300715	12	3.3	12	89	3	55	17	4	4	73	1.19
38300675--38300715	13	3.2	13	89	6	57	17	4	4	73	1.19
38306010--38306042	17	2.0	17	88	5	50	57	12	15	15	1.65
38316526--38316572	20	2.3	20	85	7	60	27	29	17	25	1.97
38316516--38316575	10	5.9	10	75	9	50	26	28	15	30	1.96
38320828--38320939	23	4.9	23	78	0	125	36	26	6	30	1.81
38320828--38320939	46	2.4	46	89	0	170	36	26	6	30	1.81
38326059--38326096	8	4.3	9	90	9	53	78	0	0	21	0.74
38326057--38326096	5	8.8	5	94	5	52	77	0	0	22	0.77
38329752--38329800	18	2.6	19	78	18	57	73	2	2	22	1.04
38334092--38334126	14	2.5	14	86	13	54	34	8	0	57	1.29
38337383--38337513	41	3.2	40	91	4	208	35	16	16	32	1.90
38337691--38337741	20	2.6	20	90	3	77	27	19	27	25	1.99
38339807--38339874	33	2.1	33	100	0	136	27	25	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38340187--38340462	27	10.2	27	85	3	351	45	19	14	20	1.85
38344546--38344596	25	2.0	25	88	0	75	25	9	39	25	1.86
38347301--38347659	197	1.8	197	93	0	619	35	14	19	30	1.92
38349071--38349126	24	2.4	23	72	3	58	23	3	32	41	1.71
38350095--38350141	20	2.4	19	86	6	67	25	25	21	27	1.99
38351277--38351314	20	1.9	20	84	10	51	28	28	18	23	1.98
38352863--38352925	11	5.3	11	73	17	54	77	1	17	3	0.97
38352862--38352932	11	5.5	13	69	21	51	74	1	18	5	1.08
38353969--38354015	15	3.1	15	84	9	60	70	0	17	12	1.17
38354045--38354084	12	3.3	12	82	0	53	60	2	22	15	1.47
38357057--38357094	20	1.9	20	84	10	51	28	28	18	23	1.98
38366865--38366929	20	3.3	19	73	16	51	38	16	21	23	1.93
38367771--38367829	30	2.0	30	83	6	75	28	15	25	30	1.96
38376890--38376936	20	2.3	20	85	0	58	25	19	29	25	1.98
38377816--38377849	14	2.4	14	100	0	68	23	11	0	64	1.26
38386147--38386188	14	2.9	14	85	3	57	2	21	2	73	1.06
38388258--38388293	13	2.8	13	95	0	63	16	5	2	75	1.12
38391060--38391140	33	2.4	34	84	10	105	13	29	3	53	1.57
38391092--38391156	18	3.7	18	76	10	55	12	27	1	58	1.43
38391093--38391148	16	3.4	16	72	13	51	14	28	0	57	1.38
38391113--38391167	18	3.1	17	84	7	65	10	25	1	61	1.39
38391180--38391226	15	3.1	15	84	3	58	14	17	0	68	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38406396--38406441	17	2.7	17	78	15	51	17	19	0	63	1.32
38406495--38406598	11	9.7	11	73	13	67	8	13	3	74	1.20
38406538--38406598	33	1.9	31	83	6	77	8	11	6	73	1.24
38411107--38411150	12	3.6	12	96	3	79	70	2	6	20	1.21
38411193--38411259	30	2.3	29	82	12	84	74	1	10	13	1.14
38411231--38411268	19	2.1	18	85	9	51	68	0	13	18	1.21
38415031--38415072	21	2.0	22	90	4	68	80	2	7	9	0.97
38426172--38426198	12	2.2	12	100	0	54	22	29	11	37	1.89
38435183--38435217	15	2.4	14	86	9	52	8	8	2	80	1.01
38435197--38435240	23	2.0	23	86	13	65	11	6	4	77	1.11
38449481--38449516	16	2.3	15	90	9	63	11	8	0	80	0.90
38457209--38457247	19	2.1	18	85	4	51	20	15	10	53	1.70
38458654--38458754	52	1.9	52	91	0	166	26	19	20	32	1.97
38459937--38459997	30	2.0	30	100	0	122	36	26	9	27	1.88
38464622--38464681	26	2.3	26	97	0	111	35	11	18	35	1.87
38466376--38466417	14	2.8	15	82	10	59	21	2	0	76	0.90
38471960--38472082	50	2.4	50	75	6	122	32	11	12	43	1.78
38475356--38475518	82	2.0	82	86	4	231	33	14	25	26	1.95
38475554--38475640	32	2.7	32	96	0	156	22	14	27	34	1.94
38484209--38484336	62	2.1	62	84	0	166	23	19	28	28	1.98
38489689--38489735	20	2.3	20	85	7	60	27	29	17	25	1.97
38491329--38491380	25	2.1	24	85	3	68	53	9	9	26	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38492552--38492631	32	2.6	30	78	9	79	21	15	31	32	1.94
38496595--38496674	32	2.5	32	91	2	135	33	31	17	17	1.93
38503930--38503969	21	1.9	21	85	10	55	17	17	22	42	1.89
38507521--38507658	39	3.6	38	80	10	120	44	10	10	34	1.73
38507531--38507679	78	1.9	77	81	9	178	45	10	9	34	1.71
38507531--38507679	38	3.8	39	82	5	144	45	10	9	34	1.71
38527014--38527121	38	2.9	38	79	6	105	27	3	15	52	1.60
38527035--38527119	18	4.6	18	76	12	73	27	4	16	51	1.64
38529983--38530041	24	2.4	24	81	10	75	61	1	1	35	1.16
38538001--38538057	27	2.1	27	93	0	96	33	15	19	31	1.93
38540821--38541014	20	9.7	20	65	6	106	15	31	16	36	1.90
38540821--38541028	40	5.2	40	89	0	308	14	32	17	36	1.90
38542557--38542731	55	3.2	54	63	16	133	22	30	24	22	1.99
38545991--38546233	127	1.9	127	96	0	450	51	16	11	20	1.76
38548727--38548770	23	1.9	22	82	17	54	36	25	0	38	1.56
38548815--38548908	45	2.1	45	89	0	143	30	22	19	27	1.98
38548903--38549096	51	3.8	50	82	3	237	29	28	17	24	1.97
38548911--38549098	101	1.9	99	87	5	270	30	28	17	23	1.97
38549327--38549385	30	2.0	30	86	0	82	28	25	8	37	1.85
38557204--38557228	11	2.3	11	100	0	50	60	8	0	32	1.26
38559474--38559744	41	6.5	41	79	5	242	30	24	17	27	1.97
38559474--38559705	126	1.9	124	81	8	283	31	24	17	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38559563--38559744	82	2.2	83	89	1	267	28	23	18	29	1.97
38562624--38562658	4	9.0	4	93	6	63	74	0	0	25	0.82
38562963--38563058	31	3.1	31	95	3	174	45	13	9	31	1.75
38568600--38568675	28	2.6	29	81	10	84	1	11	9	77	1.05
38568578--38568667	28	3.2	28	84	10	116	1	13	10	75	1.10
38568891--38568921	4	8.0	4	92	7	55	74	0	0	25	0.82
38569226--38569321	31	3.1	31	93	3	165	46	13	8	31	1.73
38570014--38570054	20	2.1	19	86	4	55	17	12	7	63	1.50
38588803--38588828	1	26.0	1	100	0	52	0	0	0	100	0.00
38591288--38591316	13	2.2	13	100	0	58	48	6	10	34	1.64
38594001--38594083	10	9.1	10	71	22	51	61	0	3	34	1.13
38593998--38594069	28	2.5	29	80	13	87	59	0	4	36	1.17
38594035--38594083	17	2.8	17	84	12	64	65	0	4	30	1.11
38594013--38594086	18	4.2	18	75	14	73	60	0	4	35	1.15
38594437--38594479	19	2.3	19	87	0	59	34	2	0	62	1.08
38594436--38594540	9	11.6	9	68	13	54	31	2	2	62	1.24
38594473--38594523	26	1.9	27	84	4	68	27	3	3	64	1.28
38594488--38594540	27	2.0	27	85	7	72	30	0	3	66	1.10
38594527--38594597	35	2.0	36	86	8	101	29	5	2	61	1.33
38596247--38596297	22	2.4	22	83	9	61	47	13	15	23	1.82
38600682--38600714	2	16.5	2	100	0	66	51	0	48	0	1.00
38610484--38610534	24	2.1	24	92	0	84	33	1	43	21	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38614459--38614497	19	2.1	19	100	0	78	41	15	15	28	1.87
38627492--38627528	18	2.1	18	100	0	74	37	40	0	21	1.54
38628904--38628937	13	2.5	13	90	4	50	82	0	17	0	0.67
38630036--38630123	42	2.0	44	84	4	117	45	5	21	27	1.74
38634812--38634862	25	2.2	24	86	10	70	62	0	1	35	1.06
38639662--38639693	12	2.7	12	95	0	55	25	3	25	46	1.67
38641829--38641879	26	2.0	24	88	7	75	49	21	9	19	1.77
38644190--38644325	49	2.7	50	83	6	161	28	22	26	22	1.99
38644574--38644612	12	3.2	12	85	0	51	51	5	23	20	1.67
38651177--38651285	50	2.2	50	83	3	130	33	26	12	27	1.93

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