genome.fa.s2.2.7.7.80.10.50.1000.145.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: 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  145  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)
44370384--44370487	40	2.6	40	85	0	136	20	25	20	33	1.97
44380409--44380465	20	2.8	20	78	0	60	28	28	14	29	1.95
44393148--44393198	19	2.7	19	84	0	75	17	7	15	58	1.60
44402190--44402217	12	2.3	12	100	0	56	46	14	0	39	1.44
44417353--44417392	11	3.5	12	90	10	66	20	27	0	52	1.46
44417342--44417392	22	2.3	23	90	6	79	21	25	0	52	1.47
44417559--44417597	20	1.9	20	89	5	60	28	7	0	64	1.21
44419153--44419195	18	2.4	18	88	0	59	23	27	9	39	1.85
44419537--44419727	93	2.1	92	95	1	346	36	3	5	54	1.40
44422815--44423213	126	3.2	126	88	2	568	28	16	16	38	1.90
44423263--44423388	33	3.8	33	75	7	94	43	15	1	39	1.56
44423282--44423377	33	2.8	33	76	3	102	42	14	2	40	1.57
44423268--44423390	34	3.6	33	74	8	113	43	15	1	39	1.56
44425651--44425713	13	4.8	13	86	0	81	33	7	14	44	1.74
44427927--44427957	13	2.4	13	100	0	62	35	22	0	41	1.54
44431088--44431167	41	2.0	41	82	0	97	41	28	12	17	1.86
44431108--44431272	41	4.1	41	80	6	160	36	27	19	15	1.92
44436837--44437113	41	7.0	41	82	4	157	35	28	19	16	1.94
44436903--44437163	38	6.7	38	83	3	263	34	29	20	14	1.93
44436944--44437163	114	1.9	117	83	2	293	35	30	20	14	1.92
44442909--44443356	147	3.0	147	95	1	776	33	20	12	33	1.89
44446930--44447032	38	2.7	38	92	0	170	53	3	3	38	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44448028--44448073	19	2.2	20	85	11	58	39	0	0	60	0.97
44450504--44450562	21	2.8	21	94	0	91	23	10	37	28	1.88
44450504--44450569	21	3.3	19	89	6	71	22	10	39	27	1.87
44450773--44450828	15	4.0	15	73	17	57	55	0	0	44	0.99
44450783--44450961	26	7.3	25	67	22	85	53	3	1	41	1.26
44450778--44450976	59	3.3	59	72	14	210	54	3	1	41	1.24
44450756--44451002	120	2.1	119	96	1	460	51	4	2	42	1.32
44454027--44454064	6	6.2	6	87	6	58	39	0	60	0	0.97
44454027--44454062	18	2.0	18	100	0	72	38	0	61	0	0.96
44454032--44454073	18	2.3	18	87	0	57	40	0	59	0	0.97
44457800--44457853	16	3.4	16	81	0	63	38	1	29	29	1.68
44458044--44458089	15	3.3	15	82	11	53	54	0	0	45	0.99
44458079--44458257	60	3.1	53	67	20	142	49	5	2	41	1.40
44458087--44458274	61	3.1	60	70	14	188	50	5	3	40	1.43
44458045--44458335	120	2.4	120	97	0	555	51	4	2	42	1.34
44458179--44458213	18	2.0	17	88	5	52	60	0	0	40	0.97
44458278--44458329	15	3.6	15	80	12	56	53	1	0	44	1.11
44463613--44463675	30	2.1	30	93	0	108	25	0	14	60	1.34
44463758--44463798	18	2.2	20	86	8	59	24	0	9	65	1.22
44463799--44463831	11	2.9	12	86	13	52	66	0	0	33	0.92
44466952--44467484	267	2.0	267	100	0	1066	34	14	15	36	1.87
44472989--44473104	48	2.4	48	86	2	162	24	17	31	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44476696--44476760	12	5.8	11	87	8	53	32	4	0	63	1.15
44476696--44476750	3	18.3	3	92	0	92	32	3	0	63	1.12
44476833--44476874	18	2.4	17	81	18	50	40	2	0	57	1.12
44477203--44477719	110	4.7	108	90	4	799	30	16	18	33	1.94
44477203--44477719	218	2.4	215	91	2	845	30	16	18	33	1.94
44481029--44481065	17	2.1	18	90	5	58	29	24	0	45	1.53
44481797--44481842	7	6.4	7	90	5	74	84	0	15	0	0.62
44481795--44481849	21	2.7	20	86	8	74	81	0	18	0	0.68
44482678--44482731	22	2.5	20	82	11	63	74	0	14	11	1.08
44482677--44482734	21	2.7	21	81	10	64	72	0	15	12	1.12
44482688--44482734	7	6.6	7	88	11	69	68	0	17	14	1.22
44483914--44484316	44	9.2	43	62	14	126	26	22	25	25	2.00
44483909--44484371	88	5.3	88	93	0	784	26	23	24	24	2.00
44484566--44484746	95	1.9	94	90	1	290	29	16	23	31	1.96
44484648--44484878	125	1.8	125	85	2	311	31	15	22	31	1.95
44486427--44486490	12	5.8	11	85	10	53	32	4	0	62	1.16
44486430--44486480	3	17.0	3	91	0	84	33	3	0	62	1.13
44486785--44487250	110	4.3	108	84	6	604	31	16	17	34	1.93
44486785--44487227	218	2.0	215	89	4	667	30	16	18	34	1.93
44488615--44488669	21	2.7	21	82	2	67	14	29	12	43	1.82
44493753--44493794	16	2.6	16	85	7	59	50	0	0	50	1.00
44495912--44495985	3	24.7	3	97	0	139	64	1	33	0	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44497264--44497327	5	13.0	5	79	15	71	78	1	20	0	0.84
44497255--44497329	20	3.8	19	83	15	82	78	1	20	0	0.82
44497256--44497316	30	2.1	29	90	9	97	81	1	16	0	0.76
44497256--44497327	24	2.9	24	82	14	83	79	1	19	0	0.81
44497255--44497319	35	1.9	33	84	12	87	81	1	16	0	0.77
44497255--44497327	19	3.9	18	81	13	78	79	1	19	0	0.81
44498881--44498920	20	2.1	18	90	9	62	37	0	7	55	1.29
44500645--44501189	31	17.7	31	86	3	699	43	16	8	31	1.78
44500645--44501189	92	5.9	92	85	3	702	43	16	8	31	1.78
44500645--44501189	154	3.5	153	88	2	763	43	16	8	31	1.78
44508203--44508243	20	2.0	20	100	0	82	26	14	14	43	1.84
44514200--44514668	39	12.1	38	84	2	499	16	17	33	32	1.93
44517724--44517785	32	2.0	32	90	3	99	58	1	1	38	1.18
44517724--44517906	42	4.5	41	88	7	268	61	0	2	35	1.15
44517724--44517858	11	12.9	11	68	19	67	60	0	2	37	1.15
44520176--44521054	299	2.9	299	88	1	1251	32	17	19	30	1.95
44523034--44523078	23	2.0	23	91	8	74	11	8	40	40	1.72
44523035--44523084	23	2.2	23	85	7	66	12	12	38	38	1.80
44523065--44523332	39	6.9	40	76	5	201	17	19	29	33	1.95
44523109--44523341	78	3.0	78	78	2	254	16	19	29	34	1.94
44523058--44523330	117	2.3	117	80	5	293	17	19	29	34	1.94
44527363--44527957	299	2.0	299	90	2	937	31	16	18	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44529132--44529418	50	5.8	50	81	5	323	27	20	31	21	1.98
44529136--44529366	100	2.3	100	90	0	363	27	19	31	21	1.97
44535282--44535434	38	4.1	38	83	2	202	39	27	15	18	1.90
44548981--44549011	3	10.3	3	92	0	53	3	29	0	67	1.06
44553600--44553655	13	4.5	13	78	13	73	37	1	14	46	1.55
44553613--44553657	23	2.0	23	90	0	72	37	2	15	44	1.59
44556883--44557119	81	2.9	81	79	5	237	22	27	17	32	1.96
44556883--44557130	27	9.2	27	75	5	171	22	27	17	31	1.97
44560353--44560386	4	8.8	4	93	6	61	0	23	0	76	0.79
44566119--44566215	40	2.5	39	75	5	99	31	25	16	25	1.96
44567176--44567237	31	2.0	31	84	6	81	6	16	4	72	1.23
44567276--44567308	13	2.6	13	90	4	50	57	0	3	39	1.14
44569292--44569414	3	40.7	3	93	1	210	0	31	0	67	0.96
44574445--44574470	12	2.2	12	100	0	52	42	15	15	26	1.87
44575554--44575623	33	2.2	33	97	2	133	22	17	35	24	1.95
44581161--44581228	16	4.2	16	96	0	127	26	0	35	38	1.57
44581464--44581498	18	2.0	17	88	5	52	54	0	0	45	0.99
44581351--44581667	157	2.0	157	96	0	589	44	3	5	47	1.41
44581601--44581642	15	2.7	16	82	14	52	52	2	0	45	1.13
44581610--44581651	15	2.9	15	82	10	52	52	0	0	47	1.00
44581421--44581670	76	3.1	82	64	24	215	47	3	3	46	1.34
44581406--44581752	157	2.2	154	80	7	342	46	4	3	45	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44581817--44581864	26	1.9	25	84	16	64	52	2	0	45	1.12
44581772--44581981	92	2.3	92	82	7	232	49	3	2	44	1.35
44581807--44582000	92	2.1	92	86	5	268	45	4	4	45	1.43
44590101--44590164	13	4.5	15	79	15	55	4	15	1	78	1.00
44590120--44590164	9	4.8	9	81	8	54	6	13	0	80	0.91
44590096--44590160	24	2.8	22	83	9	67	4	15	1	78	0.99
44590094--44590173	42	1.9	42	84	5	108	5	13	2	78	1.01
44590685--44590721	4	9.2	4	87	0	56	0	29	0	70	0.88
44590673--44590721	12	4.2	12	86	5	55	2	30	0	67	1.02
44594181--44594222	21	2.0	20	86	4	57	38	2	23	35	1.68

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