genome.fa.s7.2.7.7.80.10.50.1000.204.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  204  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)
60626764--60626823	31	1.9	31	86	0	84	38	10	13	38	1.78
60628127--60628212	31	2.8	31	80	3	84	58	3	9	29	1.46
60639916--60639968	23	2.2	24	83	10	72	49	11	15	24	1.77
60639923--60639970	23	2.1	23	92	0	78	54	12	12	20	1.70
60639884--60640031	79	1.9	79	80	5	174	47	14	12	25	1.79
60640688--60640747	4	15.0	4	92	0	84	45	26	5	23	1.73
60642726--60643144	209	2.0	210	95	0	759	21	18	22	37	1.94
60643991--60644021	14	2.1	15	94	5	55	32	0	6	61	1.21
60646915--60646966	26	2.0	26	100	0	104	57	7	11	23	1.59
60649155--60649253	48	2.1	48	94	0	171	35	14	13	37	1.84
60650288--60650367	31	2.6	31	82	4	99	41	18	15	25	1.89
60654953--60655069	47	2.5	47	75	9	130	23	2	1	72	1.06
60655024--60655073	26	2.0	26	92	4	84	26	0	0	74	0.83
60655028--60655086	26	2.3	26	82	11	68	23	0	5	71	1.06
60655695--60655724	2	15.5	2	93	6	53	50	0	0	50	1.00
60656457--60656526	28	2.4	29	85	4	88	31	1	0	67	1.00
60662629--60662664	16	2.2	17	90	5	56	72	5	0	22	1.05
60671947--60672013	34	1.9	35	84	3	91	46	13	8	31	1.74
60682543--60682583	2	20.5	2	100	0	82	48	0	0	51	1.00
60682798--60682851	27	2.0	27	85	3	74	31	1	1	64	1.14
60686091--60686204	60	1.9	61	85	1	158	35	7	6	51	1.54
60686374--60686416	4	10.8	4	100	0	86	51	23	0	25	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60687563--60687611	25	2.0	25	88	4	73	24	0	18	57	1.41
60689355--60689384	8	3.6	8	95	4	51	16	0	0	83	0.65
60689381--60689461	11	7.5	11	72	18	55	35	3	1	59	1.23
60689371--60689520	40	3.6	41	83	4	167	36	2	1	60	1.20
60689403--60689465	10	6.3	10	74	20	51	31	1	0	66	1.01
60689433--60689495	29	2.1	30	88	2	92	36	3	0	60	1.13
60689372--60689520	41	3.6	41	85	4	192	35	2	1	60	1.19
60691695--60691761	31	2.2	31	84	7	84	38	11	2	46	1.56
60691708--60691819	31	3.7	29	75	7	98	41	8	2	47	1.49
60693562--60693600	19	2.0	20	85	5	53	48	0	2	48	1.15
60696619--60696643	12	2.1	12	100	0	50	24	36	24	16	1.94
60696804--60696854	9	5.7	9	90	0	75	39	25	11	23	1.89
60702932--60702992	31	2.0	31	83	6	79	49	4	4	40	1.46
60703840--60703913	37	2.0	37	81	5	87	31	18	8	41	1.80
60704797--60705268	182	2.6	182	90	1	714	34	13	20	32	1.91
60705097--60705628	208	2.6	203	82	5	629	31	12	21	34	1.91
60709052--60709373	168	1.9	168	83	2	414	27	11	15	45	1.81
60709675--60710012	86	3.9	86	86	1	401	31	8	17	42	1.79
60710027--60710111	40	2.1	40	89	4	127	29	5	14	50	1.66
60710533--60710603	29	2.5	29	77	11	74	29	9	22	38	1.86
60734421--60734460	14	2.9	14	88	3	55	7	25	0	67	1.16
60739330--60739394	34	1.9	34	87	6	96	40	15	7	36	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60748280--60748345	30	2.2	30	81	5	80	43	12	6	37	1.67
60750787--60750826	20	2.0	20	100	0	80	30	20	20	30	1.97
60757287--60757349	23	2.7	23	75	4	56	53	3	0	42	1.16
60759434--60759527	42	2.2	42	81	9	102	29	24	17	28	1.97
60759427--60759584	43	3.7	42	75	11	133	31	25	16	26	1.96
60760658--60760955	69	4.5	68	75	11	283	34	19	6	40	1.77
60760725--60760838	60	1.9	60	85	7	160	35	16	7	40	1.76
60760734--60760853	60	2.0	59	82	4	143	35	18	7	39	1.79
60768130--60768169	19	2.2	18	86	13	55	82	0	2	15	0.77
60769091--60769125	8	4.2	8	85	7	52	17	0	0	82	0.66
60771012--60771053	20	2.2	19	86	4	57	30	2	2	64	1.19
60779596--60779627	15	2.1	15	94	0	55	40	12	0	46	1.42
60784569--60784598	7	4.1	7	95	4	51	26	33	0	40	1.57
60786445--60786479	5	7.0	5	100	0	70	60	0	0	40	0.97
60787184--60787228	23	2.0	23	86	8	65	60	0	17	22	1.37
60804503--60804545	19	2.3	19	92	8	70	39	6	16	37	1.75
60823214--60823247	2	17.0	2	100	0	68	50	0	0	50	1.00
60824127--60824177	25	2.0	25	100	0	102	45	3	23	27	1.70
60824132--60824187	25	2.2	25	90	3	85	50	3	21	25	1.65
60840239--60840282	20	2.2	20	84	8	54	77	4	15	2	1.04
60848097--60848137	21	1.9	22	85	5	57	26	19	31	21	1.97
60852129--60852189	30	1.9	32	83	9	81	24	11	14	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60858894--60858920	2	13.5	2	100	0	54	51	0	0	48	1.00
60859156--60859195	20	2.2	19	86	13	57	35	22	2	40	1.68
60860403--60860434	6	5.3	6	96	0	55	3	15	15	65	1.39
60860866--60860903	6	6.8	6	82	17	55	0	68	15	15	1.22
60860987--60861024	14	2.7	14	87	0	58	2	26	0	71	1.00
60877211--60877286	36	2.1	36	100	0	152	55	9	28	6	1.57
60879400--60879458	21	3.1	21	72	27	76	20	22	5	52	1.65
60879418--60879447	15	2.0	15	100	0	60	20	13	6	60	1.55
60887333--60887389	25	2.3	25	84	0	69	40	12	5	42	1.65
60887627--60887718	23	3.9	23	82	15	107	30	21	26	21	1.99
60891467--60891542	28	2.7	28	83	0	98	30	18	17	34	1.94
60894267--60894333	31	2.2	30	79	10	73	38	10	13	37	1.79
60894284--60894346	31	2.0	31	96	0	117	33	11	12	42	1.78
60894438--60894511	36	2.1	36	97	0	139	45	16	16	21	1.84
60898885--60898909	11	2.3	11	100	0	50	44	16	12	28	1.83
60907210--60907252	2	21.5	2	95	0	77	46	0	53	0	1.00
60922329--60922396	33	2.1	33	100	0	136	26	19	4	50	1.66
60922823--60922965	75	1.9	75	92	0	241	47	12	8	31	1.71
60945121--60945180	29	2.1	28	84	3	75	18	11	25	45	1.83
60952244--60952271	11	2.5	11	100	0	56	71	0	0	28	0.86
60956908--60956971	21	3.0	21	82	8	85	9	17	28	45	1.79
60961964--60962021	30	2.0	29	86	6	82	41	0	1	56	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
60969332--60969371	21	2.0	20	90	5	62	12	17	20	50	1.78
60969427--60969466	21	2.0	20	90	5	62	12	17	20	50	1.78
60969289--60969480	95	2.0	95	100	0	384	14	27	20	37	1.92
60969507--60969578	32	2.3	32	95	2	128	16	25	29	29	1.97
60969951--60969976	8	3.2	8	100	0	52	0	61	0	38	0.96
60971568--60971601	14	2.4	14	90	0	50	47	2	0	50	1.16
60980647--60980680	17	2.0	17	94	0	59	50	0	2	47	1.16
60981920--60981996	31	2.5	31	80	0	91	29	24	16	28	1.97
60982239--60982457	8	30.0	8	74	18	151	12	0	42	44	1.46
60982215--60982450	7	32.9	7	77	13	214	12	0	43	43	1.45

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

The End!