genome.fa.s7.2.7.7.80.10.50.1000.195.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  195  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)
57674284--57674315	8	4.0	8	91	0	55	59	0	0	40	0.97
57676396--57676460	7	9.1	7	86	3	76	36	40	0	23	1.55
57676396--57676460	14	4.6	14	90	1	103	36	40	0	23	1.55
57676397--57676460	21	3.0	21	86	2	92	35	40	0	23	1.55
57676482--57676520	15	2.7	14	84	7	51	46	25	0	28	1.53
57676751--57676783	14	2.4	14	89	0	57	51	24	0	24	1.48
57676715--57676810	39	2.5	39	82	0	120	46	23	2	27	1.63
57677239--57677612	189	2.0	189	84	4	486	25	22	20	31	1.98
57677427--57677955	114	4.6	114	84	4	588	25	22	20	31	1.98
57677425--57677955	229	2.3	228	80	6	567	25	22	20	31	1.98
57685276--57685599	153	2.1	153	81	4	377	26	19	15	38	1.91
57692161--57692185	12	2.1	12	100	0	50	40	0	0	60	0.97
57703522--57703568	9	5.2	9	94	0	76	23	23	14	38	1.92
57703518--57703568	18	2.8	18	90	0	84	23	21	17	37	1.94
57703519--57703579	27	2.3	27	85	5	79	21	27	14	36	1.93
57722601--57722643	18	2.4	18	88	7	61	53	0	0	46	1.00
57722727--57722755	13	2.2	13	100	0	58	31	17	20	31	1.96
57726410--57726457	25	1.9	25	91	8	80	33	0	14	52	1.42
57729929--57729971	18	2.4	18	88	7	61	53	0	0	46	1.00
57735168--57735559	153	2.6	153	85	4	515	25	19	17	38	1.93
57739275--57739309	14	2.5	14	90	0	52	25	17	8	48	1.75
57740166--57740204	16	2.4	16	91	0	60	53	10	0	35	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57740274--57740315	16	2.6	16	92	0	66	42	7	2	47	1.43
57740942--57740966	2	12.5	2	100	0	50	52	0	0	48	1.00
57752217--57752258	20	2.1	20	95	0	75	30	23	7	38	1.82
57754933--57755000	21	3.2	20	66	25	50	41	20	13	25	1.88
57754912--57755010	43	2.3	43	89	3	155	40	16	15	28	1.88
57754931--57754998	22	3.1	21	66	26	52	42	20	11	25	1.86
57757572--57757616	3	15.0	3	86	9	65	0	35	0	64	0.94
57757588--57757669	12	6.8	12	79	5	58	7	40	1	51	1.38
57769548--57769582	16	2.2	16	89	0	52	40	20	14	25	1.90
57769479--57769681	99	2.0	100	91	0	327	42	14	17	25	1.87
57771099--57771131	18	1.9	17	88	11	50	30	3	0	66	1.06
57773669--57773720	4	13.5	4	88	8	81	28	0	21	50	1.49
57779101--57779138	14	2.7	14	87	0	58	65	15	5	13	1.43
57779147--57779200	22	2.4	24	84	9	69	68	7	9	14	1.38
57781482--57781520	21	2.0	21	85	10	55	30	7	20	41	1.80
57782074--57782204	41	3.2	41	81	0	145	29	27	19	23	1.99
57783196--57783280	9	9.4	9	87	5	118	23	8	23	44	1.80
57784180--57784399	37	6.0	37	96	1	390	24	20	16	38	1.93
57784363--57784677	46	6.6	46	84	8	387	28	21	14	34	1.93
57784363--57784671	98	3.1	98	84	9	396	28	22	14	35	1.93
57784362--57784677	144	2.2	144	95	0	560	28	22	14	34	1.93
57788775--57788806	3	10.7	3	100	0	64	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57793800--57793827	14	2.0	14	100	0	56	28	14	14	42	1.84
57793965--57794075	51	2.2	51	81	4	125	45	9	14	31	1.76
57799222--57799256	16	2.2	16	89	0	52	8	20	0	71	1.11
57801102--57801149	2	24.0	2	95	0	87	47	0	2	50	1.12
57801742--57801782	16	2.6	17	85	14	54	24	0	9	65	1.22
57802276--57802318	21	2.0	21	81	0	50	53	0	0	46	1.00
57809412--57809449	19	2.0	19	90	10	60	34	2	0	63	1.09
57810061--57810149	40	2.2	39	77	13	90	39	7	5	47	1.56
57810242--57810293	20	2.6	20	81	6	61	46	9	3	40	1.55
57810582--57810623	21	2.0	22	85	4	59	50	2	0	47	1.14
57810544--57810661	62	1.9	59	88	5	173	52	4	1	41	1.31
57813297--57813349	18	3.0	18	76	13	56	73	3	1	20	1.08
57813313--57813355	15	2.9	15	79	6	52	79	2	0	18	0.85
57819488--57819532	1	45.0	1	86	0	63	93	0	6	0	0.35
57819488--57819544	26	2.2	25	90	3	87	87	0	12	0	0.54
57819488--57819544	13	4.3	14	82	10	59	87	0	12	0	0.54
57823055--57823100	23	2.0	23	100	0	92	26	8	13	52	1.69
57837115--57837199	41	2.0	42	88	4	127	50	28	3	17	1.62
57837330--57837404	37	2.0	37	97	0	141	33	6	16	44	1.73
57837339--57837395	17	3.2	17	67	13	51	31	3	15	49	1.62
57837403--57837440	9	4.2	9	89	0	58	28	10	21	39	1.86
57844677--57844714	19	2.0	19	100	0	76	21	0	31	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57845301--57845393	23	4.0	23	76	6	89	33	6	3	56	1.41
57846841--57846870	14	2.1	14	93	0	51	46	6	6	40	1.56
57848681--57848712	6	5.3	6	100	0	64	50	0	0	50	1.00
57850597--57850636	20	2.0	20	90	0	62	27	10	12	50	1.72
57850582--57850648	34	1.9	35	90	3	109	31	8	13	46	1.74
57850576--57850652	14	5.0	15	71	20	52	33	9	14	42	1.77
57855599--57855632	5	6.8	5	93	0	59	79	0	2	17	0.86
57856755--57856812	20	3.1	19	75	18	59	31	3	3	62	1.29
57856792--57856826	16	2.2	16	89	0	52	45	0	0	54	0.99
57856796--57856843	23	2.0	24	92	4	80	50	0	2	47	1.12
57856791--57856869	20	3.9	19	75	23	65	41	0	5	53	1.23
57858620--57858667	24	2.0	24	84	8	62	77	2	4	16	1.03
57862745--57862797	21	2.5	21	96	0	97	37	3	13	45	1.61
57864494--57864606	44	2.6	44	79	12	126	27	21	25	25	1.99
57868229--57868378	36	3.9	36	75	16	147	29	20	12	38	1.89
57868265--57868419	46	3.6	46	76	16	195	28	21	12	37	1.90
57868186--57868419	82	2.9	82	92	1	375	29	21	12	36	1.91
57868877--57868904	13	2.2	13	100	0	56	35	42	0	21	1.53
57870230--57870273	21	2.1	21	95	0	79	15	9	40	34	1.79
57870885--57870950	32	2.1	32	100	0	132	6	27	3	63	1.32
57874197--57874313	61	1.9	60	91	1	189	29	22	23	23	1.99
57880468--57880494	4	6.8	4	100	0	54	77	0	0	22	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57881740--57881773	16	2.1	16	88	0	50	32	17	11	38	1.86
57883975--57884015	2	20.5	2	89	0	64	51	0	0	48	1.00
57886386--57886425	20	1.9	20	85	10	53	62	2	2	32	1.22
57895025--57895570	281	1.9	285	93	3	947	32	11	13	42	1.79
57902705--57902878	88	2.0	88	85	4	235	33	13	9	43	1.77
57903314--57903354	20	2.0	20	90	9	66	29	2	0	68	1.03
57903323--57903374	27	1.9	27	96	0	95	26	1	0	71	0.97
57903326--57903384	27	2.2	27	84	3	75	25	1	5	67	1.20
57905331--57905408	30	2.5	31	81	10	88	48	2	1	47	1.23
57907557--57907585	15	2.0	15	93	6	51	41	13	0	44	1.44
57909553--57909637	45	1.9	44	83	7	109	38	27	15	18	1.91
57916723--57916803	28	3.0	28	96	3	148	9	13	14	61	1.56
57918410--57919034	81	7.7	81	85	2	783	30	23	18	28	1.97
57923817--57923893	29	2.6	29	79	4	82	49	15	12	22	1.78
57924731--57925928	81	14.8	81	92	1	1855	28	25	20	25	1.99
57928468--57928743	81	3.4	81	75	8	233	32	24	15	27	1.95
57928486--57928839	161	2.2	155	75	7	347	30	24	16	29	1.96
57929368--57929392	8	3.1	8	100	0	50	48	0	0	52	1.00
57931968--57932001	2	17.0	2	93	0	59	50	0	2	47	1.16
57932364--57932407	21	2.1	21	86	0	61	36	6	0	56	1.26
57935134--57935194	31	2.0	31	86	0	86	34	8	11	45	1.70
57936456--57936480	13	1.9	13	100	0	50	12	8	0	80	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57939599--57939633	18	1.9	18	88	11	54	37	0	5	57	1.23
57939628--57939687	29	2.0	31	83	6	79	36	10	13	40	1.78
57940884--57940929	24	2.0	23	83	8	58	63	2	4	30	1.26
57945269--57945306	14	2.7	15	84	16	62	39	0	13	47	1.42
57950216--57950490	108	2.6	107	84	4	360	25	23	23	26	2.00
57950409--57950799	99	4.0	99	82	3	475	23	19	27	29	1.98
57950964--57950997	14	2.4	14	90	0	50	67	5	2	23	1.26
57954952--57955018	31	2.1	32	83	2	82	43	8	1	46	1.44
57958912--57958954	19	2.3	18	80	11	52	37	2	4	55	1.33
57966861--57966894	15	2.2	16	94	5	61	58	11	2	26	1.47

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