genome.fa.s5.2.7.7.80.10.50.1000.133.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: Chr05 ID=Chr05-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  64140413

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   

This is table  133  of  208  ( 24913 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)
40745349--40745432	27	3.3	27	66	27	83	47	7	10	34	1.66
40745346--40745443	49	2.0	49	100	0	196	44	8	12	34	1.71
40745345--40745420	23	3.1	24	66	23	68	44	7	14	32	1.74
40745363--40745442	23	3.1	27	66	23	82	45	8	11	35	1.71
40746486--40746531	22	2.0	23	83	12	58	58	6	2	32	1.36
40746490--40746563	36	2.1	34	82	5	85	54	5	2	37	1.38
40750661--40750732	28	2.5	28	88	2	99	38	20	26	13	1.90
40750689--40750862	88	2.0	89	88	3	262	35	19	27	17	1.94
40750689--40750864	45	4.0	44	78	6	194	35	19	28	17	1.94
40750805--40750836	17	1.9	17	93	6	57	34	18	34	12	1.89
40750821--40750972	28	5.4	28	82	7	175	36	19	28	16	1.93
40750824--40750980	84	1.9	85	91	1	262	36	19	28	15	1.93
40759314--40759417	45	2.3	44	83	3	127	38	20	27	13	1.90
40759378--40759470	28	3.3	28	87	0	141	45	18	20	16	1.86
40759433--40759564	44	3.0	43	80	1	156	39	17	25	18	1.92
40762002--40762030	15	1.9	15	100	0	58	31	0	13	55	1.39
40768202--40768240	18	2.1	19	90	4	62	58	5	2	33	1.33
40770493--40770524	17	1.9	17	93	6	57	31	18	37	12	1.88
40770509--40770652	28	5.1	28	81	1	144	34	18	30	15	1.93
40770559--40770687	28	4.6	28	79	3	98	39	20	27	13	1.89
40771615--40771673	31	1.9	31	82	0	73	40	6	5	47	1.52
40776157--40776192	2	18.0	2	88	0	54	50	5	0	44	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40781820--40781958	28	4.9	29	88	2	203	12	20	23	43	1.86
40781821--40781958	57	2.4	57	89	1	206	12	21	23	42	1.86
40782715--40782911	109	1.8	109	86	2	288	28	23	21	25	1.99
40786398--40786501	51	2.0	51	88	3	156	25	13	13	47	1.80
40787197--40787249	21	2.5	21	81	6	63	62	1	1	33	1.17
40795034--40795160	24	5.3	24	74	0	119	19	15	18	45	1.85
40796512--40796555	21	2.1	21	83	8	54	34	25	11	29	1.91
40797263--40797347	42	2.0	42	95	0	152	50	10	10	28	1.70
40798740--40798781	21	2.0	22	90	4	68	40	23	0	35	1.55
40802725--40802904	88	2.0	88	89	1	270	41	9	20	28	1.84
40803385--40803452	29	2.4	29	87	2	93	13	23	20	42	1.87
40807242--40807267	7	3.7	7	100	0	52	26	0	0	73	0.84
40808165--40808189	2	12.5	2	100	0	50	48	0	0	52	1.00
40809590--40809614	11	2.3	11	100	0	50	68	8	0	24	1.16
40810553--40810619	35	1.9	35	90	0	107	14	8	31	44	1.76
40810563--40810656	35	2.7	34	83	5	107	14	10	30	43	1.80
40820420--40820444	13	1.9	13	100	0	50	56	12	0	32	1.36
40820500--40820565	31	2.2	29	82	10	80	30	10	12	46	1.75
40829613--40829645	17	1.9	17	100	0	66	48	24	9	18	1.76
40843118--40843157	20	2.0	20	85	0	53	45	7	0	47	1.31
40852501--40852595	40	2.4	40	85	3	120	17	20	21	41	1.91
40864619--40864661	21	2.0	21	86	9	59	46	4	0	48	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40865561--40865591	14	2.1	15	94	5	55	58	0	0	41	0.98
40866611--40866649	20	1.9	21	84	5	53	25	0	28	46	1.53
40868178--40868213	14	2.3	17	86	13	51	38	0	27	33	1.57
40868264--40868520	43	6.0	43	80	2	264	21	15	24	38	1.92
40868274--40868524	86	2.9	86	82	3	299	21	15	25	38	1.92
40869230--40869293	29	2.2	29	97	0	119	31	4	26	37	1.77
40869321--40869376	25	2.4	22	78	16	67	23	12	48	16	1.80
40869327--40869380	25	2.2	25	96	0	99	24	12	48	14	1.79
40870875--40871090	27	8.0	26	81	7	216	41	20	14	23	1.90
40870884--40871080	54	3.7	53	85	4	245	40	21	14	23	1.90
40870884--40871080	81	2.4	81	85	3	272	40	21	14	23	1.90
40877659--40877690	7	4.6	7	100	0	64	43	43	0	12	1.42
40886605--40886641	19	1.9	19	89	10	58	5	24	0	70	1.08
40887819--40887888	21	3.3	21	71	11	54	22	22	34	20	1.97
40888508--40888539	3	11.0	3	93	6	57	34	0	0	65	0.93
40893954--40893989	17	2.1	18	89	5	56	33	0	2	63	1.08
40902414--40902447	2	17.0	2	100	0	68	50	0	0	50	1.00
40903417--40903469	24	2.2	25	80	10	65	50	32	3	13	1.59
40917508--40917560	24	2.2	24	82	0	70	50	32	1	15	1.54
40921500--40922260	27	28.2	27	83	2	859	42	21	16	19	1.89
40922501--40922573	26	2.8	26	81	6	94	16	21	24	36	1.94
40922676--40922832	28	5.6	28	84	4	194	22	22	22	32	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40931858--40931887	15	1.9	16	93	6	53	43	0	0	56	0.99
40932643--40932700	25	2.3	25	80	11	66	32	5	1	60	1.29
40950530--40950576	17	2.5	19	86	10	62	70	6	4	19	1.26
40950918--40951005	27	3.3	26	80	4	86	20	21	23	34	1.97
40953438--40953620	89	2.1	89	95	0	330	34	18	12	34	1.88
40953722--40953799	10	8.1	10	74	8	63	67	2	2	26	1.16
40953722--40953796	19	3.9	19	74	17	75	68	2	2	26	1.17
40953722--40953806	29	3.0	29	79	10	86	68	2	2	27	1.14
40954401--40954445	20	2.1	21	84	8	56	42	2	2	53	1.25
40957306--40957419	25	4.7	25	68	20	98	38	2	15	42	1.61
40957415--40957508	24	3.8	24	85	8	109	47	29	1	21	1.57
40957434--40957801	149	2.6	139	85	8	538	48	30	0	20	1.55
40957419--40957801	29	13.4	29	87	8	518	47	31	1	20	1.57
40960928--40961276	124	2.8	124	92	0	565	32	20	16	30	1.95
40964494--40964522	12	2.3	13	94	5	51	34	10	0	55	1.34
40968280--40968325	19	2.4	18	82	10	56	23	23	13	39	1.90
40977319--40977801	175	2.8	174	94	2	810	31	19	20	27	1.97
40977232--40977740	44	11.7	43	71	12	247	30	20	22	26	1.98
40979635--40979663	12	2.3	13	94	5	51	34	10	0	55	1.34
40984896--40985055	37	4.3	37	81	3	180	21	13	27	37	1.91
40986046--40986159	48	2.4	48	83	1	147	20	28	22	28	1.98
40994350--40994430	40	2.0	40	100	0	162	34	9	23	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40999688--40999757	27	2.6	27	82	10	74	71	2	18	7	1.22
41002504--41002599	29	3.3	29	80	1	111	42	20	13	22	1.87
41007694--41007753	13	4.3	14	80	14	70	51	3	0	45	1.17
41007697--41007746	16	3.3	16	78	21	54	56	4	0	40	1.18
41021858--41022145	50	5.7	50	80	4	292	30	25	15	28	1.96
41021906--41022145	102	2.4	102	87	2	340	29	26	15	29	1.96
41024840--41025024	43	4.3	43	87	2	273	28	29	20	21	1.98
41025222--41025281	18	3.4	18	64	13	52	40	10	6	43	1.64
41030283--41030307	13	1.9	13	100	0	50	32	8	4	56	1.47
41030868--41030905	19	2.0	19	90	10	60	39	42	0	18	1.50
41031126--41031162	14	2.6	14	82	0	56	45	27	0	27	1.54
41031534--41031693	83	1.9	82	92	1	266	27	28	23	20	1.99
41031534--41031696	41	4.0	41	92	1	263	26	30	23	19	1.98
41031737--41031824	39	2.2	40	90	6	135	21	21	21	35	1.96
41031831--41031856	12	2.2	12	100	0	52	46	30	15	7	1.74
41032150--41032224	23	3.3	23	85	7	107	32	25	20	22	1.98
41036286--41036315	15	1.9	16	93	6	53	23	0	0	76	0.78
41038099--41038151	23	2.3	23	78	15	56	15	11	0	73	1.09
41038610--41038659	3	16.7	3	100	0	100	68	0	0	32	0.90
41051936--41051966	12	2.6	12	94	0	53	29	6	3	61	1.37
41057405--41057444	19	2.0	20	86	13	57	77	0	15	7	0.98
41058728--41059543	45	18.1	45	90	0	1175	28	16	24	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41062410--41062569	50	3.2	50	95	1	284	31	11	23	33	1.91
41062472--41062744	87	3.1	87	74	14	292	31	14	22	31	1.94
41062523--41062643	37	3.3	37	94	1	199	29	14	21	34	1.92
41062596--41062755	51	3.2	51	85	5	225	34	13	22	29	1.93
41063217--41063254	13	2.8	14	84	4	51	44	0	13	42	1.43
41063418--41064162	44	16.7	44	72	12	396	31	18	20	29	1.97
41063872--41064027	40	3.8	40	78	6	134	28	20	21	30	1.98
41063946--41064229	134	2.1	134	91	3	473	32	21	17	28	1.96
41063913--41064210	90	3.4	86	76	12	268	31	20	20	27	1.97
41063874--41064215	44	7.9	42	75	12	245	31	20	19	28	1.97

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