genome.fa.s11.2.7.7.80.10.50.1000.106.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: Chr11 ID=Chr11-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62681010

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   

This is table  106  of  210  ( 25152 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)
30958934--30959160	43	5.4	42	76	7	210	22	16	25	35	1.95
30958931--30959169	85	2.8	82	83	5	280	23	17	25	33	1.96
30958931--30959160	42	5.5	41	76	9	212	22	16	26	34	1.95
30974124--30974314	30	6.4	30	76	8	158	24	24	13	37	1.91
30974124--30974314	90	2.1	89	82	8	219	24	24	13	37	1.91
30981005--30981231	30	7.6	30	75	9	196	23	24	12	39	1.89
30981005--30981231	60	3.8	60	75	10	223	23	24	12	39	1.89
30981217--30981287	29	2.4	30	75	15	78	25	28	11	35	1.90
30993580--30993628	23	2.1	23	85	11	64	65	6	10	18	1.43
30994790--30995165	50	7.5	50	76	1	376	23	19	22	34	1.97
30994786--30995196	100	4.1	100	92	0	624	24	19	22	33	1.97
30995295--30995380	44	2.0	44	81	4	102	31	22	16	30	1.95
30995314--30995557	131	1.9	131	81	3	303	28	23	17	30	1.97
30995671--30995823	22	7.0	22	90	0	225	32	14	26	26	1.94
30995957--30996163	44	4.8	42	67	20	115	24	24	20	30	1.98
30996265--30996553	44	6.6	44	74	10	180	26	23	19	30	1.98
30995952--30996334	130	2.9	131	91	3	610	24	24	20	30	1.99
30996137--30996654	175	3.0	175	89	1	788	25	23	20	30	1.99
30998873--30998949	8	9.6	8	73	12	52	6	10	2	80	0.98
30998896--30998949	19	2.7	19	88	5	81	3	11	1	83	0.85
30998888--30998976	17	4.7	19	74	14	60	7	6	5	79	1.04
30998948--30998992	17	2.7	16	86	13	56	15	2	8	73	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30999755--30999820	25	2.6	25	83	9	71	60	7	13	18	1.56
31005990--31006016	11	2.5	11	100	0	54	44	7	14	33	1.73
31009043--31009134	46	2.0	46	97	0	175	33	21	20	23	1.97
31013817--31013892	39	1.9	39	86	0	107	50	0	3	46	1.20
31015106--31015151	24	1.9	24	82	8	58	10	17	45	26	1.81
31016283--31016325	5	8.6	5	94	0	68	4	20	13	60	1.51
31016263--31016325	20	3.2	20	86	0	72	7	22	12	57	1.61
31018162--31018346	100	1.9	98	89	2	289	52	15	10	21	1.72
31020865--31020895	2	16.0	2	93	6	55	51	0	0	48	1.00
31021767--31021811	20	2.6	16	83	16	54	42	0	26	31	1.56
31021905--31021964	30	2.0	31	83	9	79	38	0	40	21	1.54
31022079--31022137	31	1.9	30	82	3	73	44	0	33	22	1.53
31022261--31022291	9	3.4	9	90	0	53	38	22	12	25	1.90
31023202--31023251	9	5.2	10	77	15	52	62	0	0	38	0.96
31023202--31023250	19	2.6	20	81	12	59	63	0	0	36	0.95
31023506--31023573	31	2.2	31	94	2	118	11	7	54	26	1.63
31028708--31028749	18	2.3	18	84	8	50	42	0	4	52	1.22
31028773--31028829	20	2.9	20	73	2	62	26	14	31	28	1.94
31029155--31029193	21	2.0	18	85	14	51	51	2	0	46	1.14
31032286--31032333	21	2.4	19	80	13	51	68	4	4	22	1.24
31034327--31034361	2	17.5	2	100	0	70	48	0	0	51	1.00
31036596--31036737	77	1.9	77	79	10	166	28	19	23	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31036730--31037262	229	2.3	227	78	8	514	31	19	22	26	1.97
31037328--31037366	21	1.9	20	89	5	60	20	0	35	43	1.52
31039927--31039952	2	13.0	2	100	0	52	50	0	0	50	1.00
31040129--31040165	13	2.9	13	96	4	67	54	0	8	37	1.30
31040958--31041611	9	72.8	9	75	8	501	48	13	2	35	1.57
31040984--31041611	54	11.3	54	82	8	726	48	13	2	35	1.56
31043625--31043693	21	3.3	21	83	0	84	34	18	42	4	1.71
31043678--31043738	12	5.3	12	75	11	65	37	18	42	1	1.60
31043658--31043741	33	2.5	33	90	0	132	36	19	41	2	1.64
31044159--31044446	43	6.9	41	82	11	295	26	20	22	31	1.98
31044159--31044468	42	7.4	42	84	5	326	26	20	22	30	1.98
31053177--31053417	50	4.8	50	85	1	297	20	28	23	27	1.99
31057449--31057608	42	3.8	42	77	3	126	30	16	20	33	1.94
31063483--31063532	24	2.1	24	100	0	100	46	12	34	8	1.70
31073222--31073362	43	3.3	42	81	4	158	26	19	21	32	1.97
31079289--31079486	27	7.3	27	78	5	177	40	15	15	28	1.87
31079288--31079429	54	2.6	54	86	3	198	42	14	13	29	1.83
31079311--31079487	81	2.2	81	83	4	223	40	15	16	27	1.89
31080214--31080257	19	2.3	19	84	7	54	36	20	4	38	1.73
31085318--31085713	81	4.9	81	83	4	453	39	16	16	26	1.90
31085318--31085732	27	15.4	27	82	3	392	40	16	16	26	1.90
31085346--31085740	134	2.9	134	78	7	424	39	17	16	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31085695--31085754	27	2.2	27	78	0	66	43	20	11	25	1.85
31085887--31085942	29	2.0	26	86	10	76	19	26	23	30	1.98
31086276--31086306	15	2.1	15	100	0	62	35	38	6	19	1.77
31086486--31086530	19	2.4	19	81	7	56	42	22	2	33	1.66
31090665--31090707	22	2.0	22	90	0	68	48	11	18	20	1.79
31103866--31104679	411	2.0	411	92	0	1360	33	16	20	29	1.95
31107190--31107227	19	2.0	19	85	10	51	21	42	0	36	1.53
31114532--31114724	48	4.0	48	81	3	228	27	21	27	22	1.99
31116075--31116125	24	2.1	24	89	7	77	11	35	35	17	1.87
31122045--31122234	48	4.0	47	81	8	215	25	21	30	22	1.99
31122048--31122234	96	1.9	96	86	4	261	25	21	31	22	1.98
31128166--31128203	19	2.0	19	85	10	51	21	42	0	36	1.53
31136105--31136147	22	2.0	22	86	4	61	18	32	0	48	1.48
31143839--31143883	24	1.9	23	86	4	63	17	44	2	35	1.62
31146500--31146755	104	2.5	103	88	5	399	30	28	21	19	1.97
31153624--31153675	27	1.9	27	92	0	86	28	30	25	15	1.96
31153547--31153856	104	3.0	104	91	1	489	32	28	19	20	1.97
31176071--31176151	40	2.0	40	97	0	153	51	13	14	19	1.75
31188972--31189019	23	2.1	23	92	0	78	31	16	25	27	1.97
31189708--31189747	14	2.9	14	84	0	53	32	7	17	42	1.77
31189716--31189782	34	1.9	35	87	3	100	32	8	11	46	1.72
31189731--31189770	20	2.0	20	85	0	53	30	10	10	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31192454--31192481	14	2.0	14	100	0	56	35	14	14	35	1.86
31193161--31193206	21	2.3	21	85	14	62	45	19	4	30	1.70
31197661--31197719	30	2.0	30	86	6	84	45	11	8	33	1.71
31204133--31204178	21	2.3	20	78	14	51	45	17	6	30	1.73
31209007--31209039	13	2.5	14	90	9	52	0	30	0	69	0.88
31209185--31209448	7	37.7	7	96	0	438	14	24	1	59	1.43
31211193--31211244	5	10.2	5	82	12	54	17	1	1	78	0.93
31213141--31213168	14	2.0	14	100	0	56	57	0	7	35	1.26
31215565--31215641	27	2.8	26	90	7	118	44	19	15	20	1.87
31230246--31230303	30	1.9	30	86	6	82	18	37	31	12	1.88
31233390--31233429	20	2.0	20	100	0	80	40	20	20	20	1.92
31237040--31238351	652	2.0	652	94	0	2295	31	25	15	27	1.96
31246383--31246455	20	3.7	20	87	3	103	20	24	1	53	1.54
31247868--31247933	30	2.2	30	86	0	87	21	37	18	22	1.94
31260202--31260226	3	8.3	3	100	0	50	68	0	0	32	0.90
31264125--31264286	46	3.6	46	95	2	285	32	15	23	28	1.95
31265156--31265376	27	8.2	27	83	3	275	40	24	17	17	1.90
31265166--31265390	107	2.1	108	87	2	319	38	24	16	19	1.92
31265167--31265404	54	4.4	54	77	12	211	38	23	18	19	1.93
31281300--31281546	50	4.8	50	78	4	156	23	27	20	28	1.99
31287663--31287699	3	12.3	3	88	0	56	37	0	27	35	1.57
31288834--31288904	9	7.3	9	72	12	52	53	1	4	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31288823--31288904	30	2.7	30	86	3	103	52	1	6	40	1.34
31292795--31292859	18	3.8	18	86	8	91	47	0	1	50	1.10
31293004--31293059	15	3.4	16	75	9	60	30	7	3	58	1.42
31293137--31293174	16	2.3	17	90	4	60	13	7	0	78	0.94
31294134--31294170	18	2.1	18	100	0	74	29	16	16	37	1.90
31298303--31298402	39	2.6	38	81	6	112	38	4	9	49	1.53
31301614--31301669	25	2.2	25	96	0	103	26	16	21	35	1.94
31304330--31304391	30	2.1	30	100	0	124	50	12	3	33	1.57
31305911--31305937	14	1.9	14	100	0	54	55	0	29	14	1.40
31307721--31307764	22	2.0	22	95	0	79	45	15	13	25	1.83

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