genome.fa.s7.2.7.7.80.10.50.1000.145.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   

This is table  145  of  204  ( 24458 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)
43711307--43711404	46	2.1	47	83	7	121	26	2	6	65	1.27
43712535--43712578	21	2.2	20	87	4	61	56	0	9	34	1.31
43718407--43718707	108	2.8	104	79	11	306	39	9	27	22	1.86
43722311--43722364	19	2.8	19	97	0	99	22	51	0	25	1.48
43726493--43726562	33	2.1	33	89	0	104	67	12	8	11	1.43
43727559--43727694	46	3.0	46	94	0	245	29	25	9	35	1.88
43731443--43731867	138	3.1	137	89	2	634	44	5	9	40	1.58
43733565--43733589	13	1.9	13	100	0	50	40	16	16	28	1.89
43736506--43736607	51	2.0	51	96	0	186	32	4	30	32	1.79
43737406--43737466	30	2.0	30	96	0	113	44	18	3	34	1.66
43743879--43744007	43	3.0	43	78	4	143	31	28	18	21	1.97
43747171--43747200	14	2.1	14	93	0	51	76	0	10	13	1.01
43752856--43752908	26	2.0	26	85	7	72	49	3	0	47	1.19
43768019--43768149	41	3.2	41	84	1	165	22	22	25	29	1.99
43768040--43768152	40	2.8	39	81	6	136	23	23	26	27	2.00
43768564--43768594	14	2.1	15	94	5	55	29	0	32	38	1.57
43773517--43773613	43	2.3	43	80	7	124	19	18	34	27	1.95
43776062--43776092	3	10.0	3	93	6	53	67	0	32	0	0.91
43781426--43781525	22	4.5	22	93	0	164	31	29	0	40	1.57
43781497--43781555	30	2.0	30	93	0	100	30	35	0	33	1.58
43781475--43781577	52	2.0	51	90	1	161	32	33	0	34	1.58
43781527--43781568	22	1.9	22	90	0	66	33	33	0	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43781766--43781799	15	2.3	15	90	5	52	26	0	5	67	1.13
43781764--43781821	24	2.3	23	76	21	55	29	0	5	65	1.14
43783951--43784595	23	27.3	23	76	15	520	45	23	2	29	1.64
43784056--43784119	18	3.3	18	73	23	67	48	21	1	28	1.59
43784077--43784114	17	2.2	17	95	0	67	52	15	2	28	1.56
43784140--43784173	17	2.0	17	94	0	59	47	20	0	32	1.51
43784361--43784449	18	4.4	18	68	26	63	47	23	2	26	1.64
43784407--43784444	17	2.2	17	95	0	67	52	15	2	28	1.56
43787096--43787377	125	2.3	125	84	4	372	32	24	15	27	1.95
43796646--43796692	16	3.0	16	78	12	53	46	0	2	51	1.13
43796551--43796810	120	2.3	111	86	12	407	43	1	6	48	1.37
43796585--43796772	61	3.1	61	69	17	192	43	1	6	48	1.39
43796577--43796809	120	1.9	121	98	0	450	43	1	6	48	1.38
43796766--43796807	15	2.7	16	82	14	52	45	0	2	52	1.13
43796757--43796798	15	2.9	15	82	10	52	47	0	0	52	1.00
43797022--43797075	16	3.4	16	89	0	81	25	31	1	40	1.66
43797103--43797166	29	2.2	29	78	13	69	59	15	4	20	1.54
43797117--43797172	29	1.9	29	88	0	85	57	16	1	25	1.49
43799049--43799081	16	2.1	16	94	0	57	0	15	0	84	0.61
43806341--43806365	5	5.0	5	100	0	50	80	0	0	20	0.72
43808758--43808834	26	3.1	26	64	17	72	32	28	15	23	1.95
43808651--43808839	100	1.9	102	83	4	240	30	27	18	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43817223--43817424	96	2.1	96	89	4	309	29	7	27	34	1.85
43817815--43818024	101	2.1	101	83	3	262	50	10	9	29	1.68
43819096--43819175	27	3.0	27	81	3	81	37	16	23	22	1.93
43824163--43824235	38	2.0	34	84	10	92	53	1	0	45	1.09
43825248--43825289	19	2.3	19	95	4	77	26	2	0	71	0.98
43834868--43835025	84	1.9	84	81	2	192	37	20	18	24	1.94
43835170--43835228	25	2.3	25	85	2	82	23	25	3	47	1.67
43840951--43840989	19	2.1	19	95	0	69	20	17	23	38	1.93
43840957--43840998	19	2.2	19	91	0	66	28	19	19	33	1.96
43845459--43845505	20	2.3	20	81	3	58	34	17	44	4	1.68
43845467--43845505	20	1.9	21	89	5	62	35	12	46	5	1.65
43854903--43855014	31	3.8	31	68	13	101	38	11	7	42	1.69
43854889--43855001	56	2.0	56	100	0	226	41	12	7	38	1.70
43857535--43857568	14	2.5	13	86	9	50	8	2	11	76	1.12
43859498--43859716	112	2.0	112	99	0	429	29	20	17	32	1.95
43860887--43860918	16	2.0	17	88	11	50	56	15	9	18	1.66
43862600--43862734	56	2.6	52	78	12	141	23	30	18	27	1.98
43867328--43867361	16	2.2	16	89	5	52	2	2	17	76	1.04
43867965--43867995	9	3.4	9	90	0	53	25	12	22	38	1.90
43868135--43868197	30	2.1	30	82	5	74	20	49	0	30	1.49
43872132--43872301	81	2.1	81	96	0	313	41	14	21	21	1.89
43875123--43875148	3	8.7	3	100	0	52	69	0	0	30	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43882098--43882221	64	1.9	64	83	3	160	22	16	22	37	1.93
43882370--43882418	25	2.0	25	88	8	73	24	20	16	38	1.92
43891816--43891867	24	2.2	24	86	6	70	57	0	0	42	0.98
43901179--43901233	16	3.4	16	76	2	56	81	1	10	5	0.92
43904436--43904474	19	2.1	19	100	0	78	30	0	10	58	1.31
43904435--43904480	19	2.6	18	90	10	76	28	0	10	60	1.30
43904475--43904656	93	2.0	93	93	2	312	47	11	14	25	1.78
43904732--43904768	17	2.2	16	90	4	56	48	8	21	21	1.76
43916860--43916884	1	25.0	1	100	0	50	100	0	0	0	0.00
43919336--43919380	2	22.5	2	100	0	90	51	0	0	48	1.00
43920322--43920389	25	2.6	27	75	15	79	22	26	11	39	1.88
43922761--43922809	15	3.3	15	75	8	55	16	18	2	63	1.41
43925350--43925492	71	2.0	72	95	1	261	27	9	20	42	1.82
43925687--43925716	14	2.1	14	93	0	51	46	0	6	46	1.29
43925732--43925816	32	2.6	33	77	5	93	44	18	10	25	1.82
43925793--43925869	14	5.0	15	71	20	52	42	14	9	33	1.77
43925809--43925848	20	2.0	20	90	0	62	50	12	10	27	1.72
43925797--43925863	34	1.9	35	90	3	109	46	13	8	31	1.74
43926495--43926526	2	16.0	2	100	0	64	50	0	0	50	1.00
43928964--43928988	1	25.0	1	100	0	50	0	0	0	100	0.00
43936451--43936485	9	3.9	9	88	0	52	40	0	2	57	1.14
43940979--43941089	54	2.1	54	91	0	177	46	2	11	38	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43945118--43945222	41	2.5	42	87	6	151	15	20	33	31	1.93
43945834--43945858	2	12.5	2	100	0	50	0	48	0	52	1.00
43951669--43951766	22	4.5	22	76	18	80	16	17	21	44	1.86
43951708--43951781	22	3.6	19	81	15	69	14	16	22	45	1.84
43952256--43952315	28	2.1	28	87	6	86	41	15	20	23	1.89
43970173--43970248	33	2.3	33	97	0	143	48	21	5	25	1.70
43972047--43972080	15	2.4	14	95	5	59	20	0	32	47	1.51
43972075--43972229	50	3.1	49	76	8	152	21	0	34	43	1.58
43972062--43972243	57	3.2	56	75	9	190	21	0	35	42	1.57
43972047--43972272	7	31.7	7	68	15	70	21	0	35	42	1.57
43972323--43972374	21	2.5	22	87	6	72	25	0	40	34	1.56
43972465--43972513	15	3.3	15	72	16	57	14	2	38	44	1.56
43972817--43973057	124	1.9	125	89	2	378	31	14	15	37	1.88
43975811--43975992	43	4.2	43	78	8	197	27	17	23	31	1.97
43978280--43978331	24	2.1	26	85	7	72	32	1	5	59	1.32
43978427--43978460	3	11.3	3	100	0	68	32	0	0	67	0.91
43978619--43978655	20	1.9	18	89	10	56	16	8	5	70	1.30
43990602--43991146	216	2.5	217	87	2	783	29	20	22	27	1.99
43990601--43991110	44	11.8	44	70	9	262	29	20	22	27	1.98
43998774--43998817	18	2.3	19	84	11	54	36	0	4	59	1.18
44005864--44005888	12	2.1	12	100	0	50	24	16	16	44	1.86
44007449--44007494	24	2.0	23	82	4	56	36	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44008358--44008402	16	2.9	16	81	15	58	46	6	20	26	1.75
44009999--44010129	66	2.0	66	93	1	228	19	13	13	53	1.73
44012427--44012475	3	16.3	3	100	0	98	32	0	0	67	0.91
44019024--44019075	24	2.2	24	85	0	68	55	7	3	32	1.46
44021005--44021030	2	13.0	2	100	0	52	0	0	50	50	1.00
44023936--44023979	18	2.4	18	84	0	61	15	29	18	36	1.92
44023943--44023975	6	5.5	6	92	0	57	15	33	18	33	1.92
44030682--44030753	36	2.0	36	83	2	92	31	26	9	31	1.89
44033732--44033790	26	2.3	26	93	0	100	35	11	15	37	1.84
44042089--44042144	11	4.7	11	86	10	67	75	7	3	14	1.16

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