genome.fa.s2.2.7.7.80.10.50.1000.39.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  39  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)
11147016--11147137	42	2.9	43	80	13	137	19	21	29	29	1.98
11148655--11148715	32	1.9	32	83	12	81	49	1	4	44	1.33
11148674--11148715	20	2.1	20	86	0	57	47	0	7	45	1.30
11150496--11150528	14	2.4	14	90	5	50	54	0	0	45	0.99
11152462--11152524	30	2.1	30	96	0	117	23	3	15	57	1.53
11160542--11160575	17	2.0	17	88	0	50	29	8	29	32	1.87
11168429--11168662	116	2.0	116	94	0	405	35	22	14	27	1.94
11173646--11173691	18	2.6	18	77	19	51	41	6	0	52	1.27
11175969--11176016	9	5.3	9	82	9	53	64	0	0	35	0.94
11175959--11176016	18	3.3	18	79	11	59	62	0	0	37	0.96
11175962--11176005	9	5.4	8	86	7	54	56	0	0	43	0.99
11179019--11179073	25	2.3	25	81	15	71	38	0	0	61	0.96
11181362--11181395	2	17.0	2	100	0	68	50	0	50	0	1.00
11188902--11188937	2	18.0	2	100	0	72	50	50	0	0	1.00
11188937--11188987	6	8.3	6	97	2	93	35	15	0	49	1.45
11192067--11192099	2	16.5	2	100	0	66	51	0	0	48	1.00
11194473--11194560	43	2.0	43	91	0	140	44	25	9	21	1.81
11210412--11210473	29	2.1	30	87	6	90	53	11	1	33	1.46
11210425--11210481	29	2.0	29	82	0	69	56	10	3	29	1.50
11214651--11214678	12	2.3	12	100	0	56	57	0	7	35	1.26
11218948--11218981	17	1.9	18	88	5	52	35	26	0	38	1.57
11219976--11220005	2	15.0	2	92	0	51	46	0	3	50	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11220600--11220706	53	2.0	53	100	0	214	33	22	9	34	1.86
11229619--11229685	9	7.2	9	83	6	89	38	28	8	23	1.85
11229618--11229697	9	8.4	9	78	10	70	41	27	7	23	1.81
11231731--11231770	18	2.2	18	90	0	62	47	2	0	50	1.14
11234294--11234318	2	12.5	2	100	0	50	48	0	0	52	1.00
11249387--11249797	44	9.7	44	69	17	253	28	21	22	27	1.99
11249428--11249795	83	4.4	82	71	13	307	27	22	22	27	1.99
11249384--11249799	127	3.3	127	94	0	751	28	21	22	26	1.99
11259104--11259171	22	3.1	22	78	2	75	7	8	10	73	1.25
11265919--11265946	13	2.2	13	100	0	56	14	0	39	46	1.44
11266585--11266646	31	2.0	31	90	0	97	38	11	6	43	1.66
11271493--11271667	96	1.8	96	82	0	224	31	32	15	21	1.94
11271578--11272528	120	7.9	120	84	1	1017	28	29	15	27	1.96
11273955--11273997	18	2.3	18	84	11	52	30	2	0	67	1.03
11276287--11276322	18	2.0	18	88	0	54	55	0	5	38	1.23
11276846--11276888	18	2.4	18	88	7	61	53	0	0	46	1.00
11284246--11284286	21	1.9	22	85	5	57	19	14	2	63	1.41
11293693--11293758	32	2.1	32	94	0	114	43	10	21	24	1.83
11298629--11298699	31	2.3	32	80	9	85	43	21	12	22	1.86
11298606--11299000	196	2.0	196	95	1	711	34	21	17	26	1.95
11298926--11298968	21	2.0	21	86	0	59	27	20	23	27	1.99
11300031--11300148	3	41.0	3	80	13	124	2	30	1	65	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11300521--11300569	24	2.2	21	89	10	71	28	2	0	69	1.00
11301107--11301190	20	4.2	20	74	17	93	36	16	4	41	1.70
11302453--11302497	17	2.8	16	83	12	56	37	2	6	53	1.40
11302486--11302550	25	2.5	26	80	12	64	44	3	3	49	1.33
11304168--11304197	3	10.0	3	100	0	60	33	0	33	33	1.58
11307320--11307380	31	2.0	31	90	0	95	27	8	14	49	1.72
11307322--11307388	31	2.2	31	86	0	89	28	8	11	50	1.69
11308020--11308056	9	4.1	9	92	0	65	45	13	10	29	1.77
11308105--11308165	30	2.0	31	90	3	97	19	40	0	39	1.52
11308475--11308523	21	2.3	20	83	13	55	67	14	0	18	1.23
11314803--11315055	42	6.0	42	89	3	350	32	21	20	24	1.98
11314803--11315055	127	2.0	127	86	6	352	32	21	20	24	1.98
11314803--11315054	85	3.0	85	89	4	350	32	21	21	25	1.98
11315474--11315508	12	2.9	12	91	0	52	2	37	14	45	1.59
11315498--11315565	21	3.3	20	81	4	73	2	42	16	38	1.63
11319235--11319511	9	32.0	9	67	15	111	31	3	20	44	1.69
11319275--11319340	25	2.6	25	80	0	78	34	3	18	43	1.65
11319295--11319416	16	8.0	16	68	18	73	30	5	18	45	1.73
11319351--11319500	37	3.9	40	86	3	105	29	3	20	46	1.67
11319401--11319500	37	2.7	37	96	0	182	29	3	19	49	1.63
11319384--11319492	37	2.6	43	73	20	113	30	2	17	49	1.61
11319572--11319800	44	5.1	41	66	22	138	48	3	6	41	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11319613--11319767	51	3.2	51	68	20	161	50	4	6	38	1.49
11319561--11319800	92	2.6	92	100	0	480	48	3	6	41	1.46
11320208--11320246	15	2.7	14	80	7	51	41	20	5	33	1.74
11321742--11321786	23	2.0	23	86	8	65	40	6	6	46	1.56
11322845--11322939	40	2.3	42	84	13	119	23	18	17	40	1.92
11323090--11323122	3	11.3	3	87	6	50	60	0	3	36	1.12
11323129--11323153	13	1.9	13	100	0	50	60	8	0	32	1.26
11326912--11326990	31	2.6	29	80	11	88	55	17	2	24	1.54
11338170--11338208	7	5.3	7	82	11	51	82	0	0	17	0.68
11338170--11338205	12	3.1	12	92	8	65	83	0	0	16	0.65
11338170--11338206	18	2.1	18	90	10	58	83	0	0	16	0.64
11346495--11346523	12	2.4	12	100	0	58	37	24	0	37	1.56
11346525--11346590	3	22.0	3	96	0	123	31	0	1	66	1.01
11346659--11346719	25	2.4	26	77	2	70	37	8	3	50	1.48
11347373--11347777	109	3.7	109	88	4	602	30	16	19	33	1.94
11347373--11347777	217	1.9	219	91	2	663	30	16	19	33	1.94
11356114--11356144	12	2.6	12	94	0	53	22	0	6	70	1.09
11356952--11357148	98	2.0	98	92	3	326	27	9	24	37	1.87
11363252--11363873	44	14.3	44	71	15	280	28	20	23	27	1.99
11363470--11363680	84	2.4	87	78	9	211	29	20	23	26	1.99
11363247--11363854	217	2.8	217	89	1	914	28	20	24	26	1.99
11365034--11365064	12	2.6	12	94	0	53	22	0	6	70	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11365876--11366071	98	2.0	98	92	3	324	28	9	24	37	1.87
11368848--11368874	2	13.5	2	100	0	54	51	0	0	48	1.00
11370646--11370673	3	9.3	3	100	0	56	32	0	0	67	0.91
11370720--11370873	76	2.1	74	88	4	229	56	7	5	30	1.50
11375373--11375448	32	2.5	31	75	14	77	38	17	1	43	1.57
11375727--11375844	24	4.8	24	69	9	78	34	22	26	16	1.95
11383730--11384268	44	11.6	44	69	14	162	32	17	19	30	1.95
11383816--11384231	51	8.7	51	74	12	357	33	18	18	30	1.94
11383771--11384231	95	4.9	95	87	0	645	32	18	18	30	1.95
11385777--11385874	4	24.8	4	74	13	78	23	8	0	68	1.16
11386117--11386151	3	11.7	3	87	0	52	28	2	2	65	1.21
11390812--11390842	9	3.4	9	90	0	53	25	12	22	38	1.90
11390895--11390931	9	4.1	9	92	0	65	45	13	10	29	1.77
11392683--11392707	5	5.0	5	100	0	50	60	20	0	20	1.37
11394456--11394496	17	2.5	17	88	11	59	31	0	0	68	0.90
11394454--11394496	15	2.7	16	80	20	54	34	0	0	65	0.93
11427358--11428565	100	12.1	100	87	1	1661	32	22	20	23	1.98
11428568--11428793	45	5.1	45	75	6	235	29	23	24	22	1.99
11428568--11428805	89	2.7	89	90	0	377	30	24	23	21	1.99
11428844--11429298	132	3.4	132	93	0	748	30	18	24	27	1.98
11431085--11431120	16	2.2	17	95	5	65	13	5	0	80	0.88
11431076--11431119	14	2.9	14	78	18	52	15	4	2	77	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11431070--11431153	17	5.1	16	69	20	66	21	4	1	72	1.10
11431479--11431503	8	3.1	8	100	0	50	48	0	0	52	1.00
11431388--11431699	115	2.9	107	89	6	441	29	16	18	35	1.93
11431487--11431699	107	2.0	105	90	3	338	30	15	17	36	1.91
11432968--11433024	24	2.4	24	87	0	78	14	3	61	21	1.47
11433034--11433089	18	3.1	18	82	5	51	5	8	60	25	1.47
11433040--11433154	24	5.2	23	72	16	64	7	6	60	25	1.47
11433046--11433131	21	4.4	18	71	16	64	9	4	62	23	1.44
11433067--11433167	24	4.2	24	78	5	78	9	5	61	22	1.49
11433147--11433179	12	2.8	12	100	0	66	15	6	60	18	1.54

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