genome.fa.s9.2.7.7.80.10.50.1000.136.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  136  of  226  ( 27023 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)
45455048--45455344	50	5.8	50	78	3	229	23	28	20	27	1.99
45459038--45459095	30	1.9	31	92	3	100	20	41	0	37	1.53
45459038--45459108	30	2.3	30	85	2	97	21	45	0	33	1.52
45459306--45459345	20	1.9	21	85	10	55	22	27	0	50	1.50
45462878--45462930	7	7.6	7	100	0	106	13	13	0	73	1.10
45462901--45463035	58	2.3	58	84	5	166	27	19	5	48	1.70
45469860--45469885	7	3.7	7	100	0	52	38	0	0	61	0.96
45471175--45471214	16	2.5	16	83	0	53	37	5	0	57	1.21
45473761--45473848	26	3.3	27	77	12	94	44	2	0	53	1.13
45473781--45473848	13	5.2	13	69	13	50	44	1	0	54	1.09
45475343--45475384	21	2.0	21	85	4	57	50	4	7	38	1.51
45475441--45475488	3	16.0	3	100	0	96	66	0	0	33	0.92
45479767--45479896	54	2.4	55	80	6	158	21	25	24	28	1.99
45481650--45481766	42	2.8	40	78	7	126	18	34	21	25	1.96
45481782--45481979	104	1.9	105	83	4	256	21	30	23	24	1.99
45485425--45485472	20	2.4	20	86	6	62	31	10	18	39	1.85
45493950--45494219	135	2.0	135	100	0	540	43	2	21	32	1.65
45494346--45494399	4	12.8	4	78	18	56	72	3	20	3	1.16
45495253--45495387	40	3.4	39	73	7	121	25	16	23	34	1.95
45495542--45495596	15	3.6	16	77	20	55	32	1	23	41	1.65
45498905--45498962	9	6.3	9	76	9	55	75	3	10	10	1.15
45498905--45498962	18	3.2	18	87	7	73	75	3	10	10	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45499669--45499802	23	6.0	23	83	6	143	19	20	23	37	1.94
45511362--45511733	31	12.2	31	73	9	219	43	15	6	34	1.74
45511368--45511733	61	6.0	60	76	8	267	43	15	7	33	1.74
45511362--45511726	92	4.0	92	81	3	369	42	15	7	34	1.75
45511342--45511720	153	2.5	153	79	7	403	43	15	6	34	1.72
45516042--45516353	33	8.7	33	66	24	136	33	26	17	21	1.96
45516045--45516255	75	2.8	76	91	2	334	33	27	17	22	1.96
45516155--45516385	102	2.3	102	91	1	365	32	27	19	21	1.97
45519103--45519148	20	2.3	20	88	0	74	13	36	32	17	1.88
45522461--45522502	22	1.9	22	90	0	66	33	0	33	33	1.58
45522504--45522595	22	4.2	23	82	8	111	42	0	27	30	1.56
45522452--45522554	52	2.0	51	83	9	129	34	0	32	33	1.58
45522504--45522595	44	2.1	44	85	4	123	42	0	27	30	1.56
45523224--45523283	20	3.2	18	79	11	66	70	1	5	23	1.16
45523752--45523791	12	3.5	12	78	21	50	35	0	0	65	0.93
45533527--45533647	61	2.0	62	88	1	181	28	19	7	44	1.77
45534658--45534695	12	2.8	13	84	15	51	0	28	0	71	0.87
45534693--45534727	1	35.0	1	94	0	61	2	0	0	97	0.19
45534697--45534737	19	2.2	19	86	0	55	4	2	4	87	0.72
45538473--45538986	255	2.0	254	96	2	942	34	9	8	47	1.67
45544766--45544990	43	5.2	43	82	8	153	25	31	18	24	1.97
45544766--45544990	86	2.6	86	77	9	237	25	31	18	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45547172--45547214	19	2.2	20	87	4	61	13	2	4	79	1.00
45547574--45547626	7	7.6	7	84	0	70	28	49	1	20	1.60
45547587--45547626	14	2.9	14	100	0	80	30	50	0	20	1.49
45547574--45547626	21	2.5	21	90	0	79	28	49	1	20	1.60
45548150--45548179	15	2.0	15	93	0	51	43	33	0	23	1.54
45548204--45548355	82	1.8	83	90	4	245	45	25	1	28	1.61
45548449--45548481	14	2.3	15	94	5	59	36	33	0	30	1.58
45548533--45548575	21	2.0	22	90	4	70	46	23	0	30	1.52
45548778--45548957	89	2.0	89	96	0	333	48	6	3	41	1.46
45548981--45549196	41	5.3	41	88	0	324	32	24	21	21	1.98
45549254--45549390	40	3.4	39	77	4	139	19	20	21	37	1.94
45552126--45552176	13	3.9	13	84	0	75	29	7	27	35	1.85
45560587--45560951	124	2.9	125	94	0	615	28	15	23	32	1.95
45560579--45560951	125	3.0	125	93	0	622	28	15	23	32	1.95
45564572--45564611	18	2.2	18	90	0	62	42	7	27	22	1.80
45566187--45566241	25	2.2	23	75	15	56	61	3	1	32	1.24
45578673--45578727	28	1.9	28	85	10	76	56	1	1	40	1.21
45579088--45579126	19	2.1	19	90	9	62	35	0	5	58	1.20
45579092--45579133	19	2.2	19	87	8	59	40	0	2	57	1.12
45581682--45581803	50	2.5	50	97	1	228	43	9	2	44	1.50
45582224--45582265	18	2.3	18	87	0	57	45	7	28	19	1.76
45584072--45584171	51	2.0	51	88	4	148	43	2	29	26	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45584133--45584180	22	2.2	22	85	7	62	39	2	33	25	1.67
45584613--45584655	19	2.2	20	87	4	61	25	0	4	69	1.07
45589656--45589704	20	2.3	21	75	6	55	48	2	2	46	1.25
45590082--45590141	26	2.3	25	80	11	75	60	3	1	35	1.23
45590045--45590142	37	2.6	38	77	16	98	61	3	2	33	1.23
45590451--45590485	15	2.2	16	90	5	54	77	0	0	22	0.78
45590663--45590714	22	2.4	22	83	6	70	34	0	7	57	1.27
45590668--45590738	22	3.4	22	73	11	69	32	0	7	60	1.23
45590750--45590853	9	11.3	9	71	18	63	37	3	0	58	1.16
45590823--45590886	19	3.4	18	73	12	58	31	3	3	62	1.26
45593436--45593480	11	4.0	11	81	16	56	68	0	2	28	1.01
45594202--45594255	23	2.3	23	90	0	81	42	0	11	46	1.39
45596402--45596695	43	6.8	43	87	5	398	25	30	20	23	1.99
45597010--45597058	21	2.3	21	85	0	62	6	42	16	34	1.73
45597013--45597175	87	1.9	88	85	3	231	12	30	17	39	1.86
45597013--45597196	87	2.1	87	82	4	228	11	30	17	39	1.86
45602706--45602747	16	2.7	15	85	7	66	40	0	14	45	1.45
45602725--45602889	76	2.2	77	91	1	260	39	3	13	43	1.60
45602827--45602979	53	3.1	53	67	26	163	37	3	12	46	1.58
45602875--45602916	16	2.7	15	85	7	66	40	0	14	45	1.45
45602802--45602981	93	1.9	92	93	1	306	38	2	14	44	1.60
45603246--45603473	16	14.7	15	69	24	104	39	2	13	44	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45603281--45603515	43	4.9	53	65	28	177	39	2	12	45	1.57
45603235--45603515	93	3.0	93	94	2	501	38	2	13	45	1.58
45604130--45604165	15	2.5	15	90	4	56	63	8	16	11	1.49
45608314--45608425	41	2.7	41	78	5	102	21	24	23	31	1.98
45608396--45608670	41	6.8	40	83	6	313	32	22	24	21	1.98
45608396--45608670	82	3.4	81	86	5	347	32	22	24	21	1.98
45608778--45608864	41	2.1	41	81	8	97	17	21	24	36	1.94
45609900--45609998	51	1.9	51	91	0	162	31	8	17	43	1.78
45610155--45610188	18	1.9	18	88	5	52	47	0	2	50	1.16
45612518--45612577	17	3.4	17	69	13	57	43	6	0	50	1.28
45612504--45612585	37	2.2	37	100	0	164	46	4	0	48	1.23
45612867--45612912	16	2.8	18	75	21	55	41	0	4	54	1.20
45613688--45613735	20	2.3	20	78	7	51	50	6	16	27	1.69
45615953--45615984	17	1.9	16	93	6	55	46	3	0	50	1.17
45617537--45617569	17	1.9	17	88	11	50	36	9	0	54	1.32
45620080--45620149	6	11.3	6	82	11	88	67	1	15	15	1.31
45620306--45620349	23	1.9	24	86	9	65	38	0	18	43	1.50
45621555--45621600	24	1.9	24	82	8	58	28	6	21	43	1.77
45640813--45640839	14	1.9	14	100	0	54	66	7	0	25	1.17
45642069--45642181	57	2.0	57	89	5	174	47	7	17	27	1.73
45650317--45650396	23	3.5	23	93	3	135	47	15	5	32	1.66
45653739--45653777	20	2.0	20	94	0	69	56	20	2	20	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45655522--45655554	17	2.0	17	94	5	59	45	6	18	30	1.73
45661771--45662065	51	5.8	51	80	7	307	30	25	14	29	1.95
45661771--45662061	102	2.9	102	89	0	404	30	26	14	28	1.95
45661772--45662065	153	1.9	151	82	4	358	30	25	14	28	1.95
45664892--45665023	41	3.2	40	79	4	147	25	25	15	32	1.96
45665311--45665346	16	2.2	16	100	0	72	11	0	36	52	1.37
45672111--45672229	41	2.9	40	84	2	166	21	29	14	35	1.92
45679415--45679483	27	2.7	25	81	4	84	27	27	21	23	1.99
45684548--45684581	17	2.0	17	100	0	68	58	11	11	17	1.62
45692060--45692156	31	3.2	32	73	14	89	41	5	25	27	1.77

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   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226