genome.fa.s7.2.7.7.80.10.50.1000.86.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  86  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)
26381686--26381734	11	3.9	12	80	17	55	53	0	0	46	1.00
26387796--26387894	23	4.3	23	90	0	162	29	27	21	22	1.99
26390430--26390459	11	2.8	11	95	5	53	40	10	10	40	1.72
26392296--26392328	16	2.0	17	88	5	50	48	0	3	48	1.17
26393679--26393709	9	3.4	9	90	0	53	38	9	0	51	1.35
26395813--26395860	12	4.4	11	80	19	55	29	0	6	64	1.18
26395830--26395864	3	11.7	3	93	0	61	31	0	0	68	0.90
26398814--26398842	2	15.0	2	92	7	51	51	0	0	48	1.00
26405030--26405068	17	2.2	19	86	9	55	46	5	2	46	1.38
26411335--26411429	49	1.9	49	82	4	120	44	8	16	30	1.78
26417670--26417772	28	3.9	27	71	12	88	40	12	0	45	1.49
26417660--26417763	51	2.0	51	96	0	190	37	10	0	50	1.43
26418010--26418047	3	12.7	3	100	0	76	31	0	0	68	0.90
26418698--26418757	31	1.9	31	96	0	111	55	5	15	25	1.60
26422854--26422962	50	2.2	49	79	12	109	63	0	34	0	1.07
26423543--26423582	2	20.5	2	94	5	73	47	0	0	52	1.00
26425648--26425710	33	1.9	33	83	0	81	19	36	15	28	1.92
26425998--26426168	62	2.7	63	79	6	186	46	11	8	34	1.69
26428580--26428651	27	2.7	27	88	0	99	30	31	19	18	1.95
26433133--26433164	2	16.0	2	100	0	64	50	0	0	50	1.00
26436356--26436431	30	2.5	31	84	6	100	14	9	6	69	1.34
26438352--26438393	15	2.6	17	75	17	54	23	7	9	59	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26448985--26449028	21	2.0	22	86	4	63	50	20	13	15	1.78
26460693--26460720	3	9.3	3	100	0	56	35	0	32	32	1.58
26460719--26460748	3	10.0	3	92	0	51	36	0	63	0	0.95
26461970--26462028	4	14.8	4	74	13	50	20	3	3	72	1.13
26462424--26462448	13	1.9	13	100	0	50	28	0	0	72	0.86
26467322--26467350	2	14.5	2	100	0	58	48	0	0	51	1.00
26469529--26469592	17	3.8	17	81	8	76	15	3	3	78	1.01
26469536--26469592	21	2.7	20	81	10	69	15	3	1	78	0.96
26476025--26476065	20	2.0	20	100	0	82	34	4	9	51	1.56
26479898--26480004	29	3.7	29	76	14	105	43	24	13	18	1.85
26480367--26480393	10	2.7	10	100	0	54	29	22	18	29	1.97
26491662--26491947	141	2.0	141	93	0	482	37	12	15	34	1.86
26492431--26493029	298	2.0	298	98	0	1144	37	17	9	35	1.83
26493383--26495169	893	2.0	891	98	0	3484	35	17	13	33	1.89
26497809--26497939	43	3.1	42	80	5	147	27	17	24	30	1.97
26499722--26499785	26	2.4	27	92	5	103	25	18	21	34	1.96
26499722--26499901	29	6.3	29	76	9	140	26	14	21	38	1.91
26499751--26499901	59	2.6	57	83	8	196	25	13	21	40	1.89
26499742--26499978	29	8.2	28	73	7	134	24	13	22	39	1.90
26499742--26500012	57	4.7	57	74	6	201	25	13	22	38	1.91
26504215--26504254	2	20.0	2	100	0	80	50	0	0	50	1.00
26508809--26508859	23	2.2	23	86	6	68	45	0	5	49	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26510405--26510438	17	2.0	17	94	0	59	17	23	20	38	1.93
26515416--26515464	22	2.2	22	82	13	57	24	0	4	71	1.03
26516921--26516972	23	2.3	23	93	0	86	36	1	13	48	1.54
26516931--26516972	13	3.5	13	75	18	54	38	0	14	47	1.44
26517810--26517862	20	2.7	20	80	8	56	20	3	3	71	1.17
26518651--26518707	17	3.5	17	86	9	84	68	3	0	28	1.06
26518664--26518707	7	5.9	7	85	15	61	72	2	0	25	0.96
26521729--26521767	21	1.9	20	89	5	60	35	0	0	64	0.94
26523386--26523530	47	3.1	47	68	16	122	44	2	5	48	1.37
26523367--26523574	44	4.6	44	66	20	117	45	3	5	45	1.42
26523367--26523574	91	2.3	91	89	2	310	45	3	5	45	1.42
26523839--26523878	21	2.0	19	85	9	53	47	0	0	52	1.00
26523959--26523998	21	2.0	19	85	9	53	47	0	0	52	1.00
26524195--26524246	15	3.6	15	80	12	56	44	0	1	53	1.11
26524306--26524365	16	3.8	16	76	12	54	45	0	1	53	1.10
26524315--26524356	15	2.9	15	82	10	52	47	0	0	52	1.00
26523593--26524359	120	6.4	120	97	0	1358	41	2	4	50	1.39
26526509--26526548	13	3.1	13	96	0	71	35	7	17	40	1.78
26528212--26528280	32	2.2	32	94	0	120	21	4	31	42	1.73
26533750--26533782	14	2.5	13	90	9	50	27	0	33	39	1.57
26535710--26535759	18	2.7	18	87	3	73	46	12	6	36	1.66
26536677--26536712	18	2.0	18	100	0	72	27	0	16	55	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26539119--26539152	16	2.1	16	89	10	52	67	2	0	29	1.05
26541179--26541209	12	2.5	13	94	5	55	16	22	0	61	1.34
26550696--26550741	19	2.5	19	82	3	58	4	23	54	17	1.61
26555595--26555626	14	2.2	15	94	5	57	28	3	6	62	1.34
26558546--26558578	16	2.0	17	88	5	50	45	27	0	27	1.54
26558685--26558731	12	3.8	12	83	8	51	53	8	4	34	1.51
26559982--26560011	10	2.8	11	90	10	53	76	6	6	10	1.15
26561104--26561563	44	10.2	45	69	9	251	28	23	17	30	1.97
26561144--26561587	89	4.9	91	86	3	567	28	23	18	29	1.97
26561574--26561825	133	1.9	132	90	2	398	28	23	19	28	1.98
26568567--26568598	15	2.1	15	94	5	55	84	0	0	15	0.63
26568566--26568596	9	3.3	9	91	8	53	87	0	0	12	0.55
26573398--26573430	2	16.5	2	100	0	66	51	0	0	48	1.00
26584677--26584825	50	3.0	49	71	7	156	29	21	23	25	1.99
26585903--26585944	20	2.0	21	86	4	59	47	2	7	42	1.43
26588448--26588490	19	2.2	20	87	4	61	44	11	6	37	1.68
26590578--26590645	34	2.0	34	88	5	102	29	10	22	38	1.87
26599004--26599033	2	15.0	2	100	0	60	50	0	0	50	1.00
26603635--26603692	18	3.2	17	74	16	55	51	0	24	24	1.48
26604011--26604035	9	2.8	9	100	0	50	32	12	12	44	1.78
26604102--26604132	9	3.4	9	90	0	53	38	22	12	25	1.90
26608702--26608727	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26608981--26609024	24	1.9	24	81	9	56	40	4	2	52	1.34
26616984--26617040	20	2.7	21	86	5	71	10	29	21	38	1.87
26616992--26617040	22	2.3	20	86	6	62	10	30	20	38	1.86
26620677--26620742	24	2.7	24	79	11	71	25	18	24	31	1.97
26620697--26620769	24	3.0	24	84	9	94	28	20	24	26	1.99
26624793--26624830	20	2.0	20	94	5	69	26	10	13	50	1.73
26625257--26625295	21	1.9	21	89	5	62	41	25	5	28	1.77
26636002--26636042	2	21.0	2	85	5	57	48	0	2	48	1.14
26638440--26638526	25	3.5	25	69	13	72	25	17	12	44	1.83
26638421--26638501	23	3.4	23	69	12	65	24	18	16	40	1.90
26638421--26638649	48	4.7	48	85	6	289	25	16	15	42	1.87
26638421--26638649	100	2.3	96	83	4	298	25	16	15	42	1.87
26656170--26656285	27	4.3	27	80	1	117	43	19	18	18	1.88
26656434--26656533	26	3.8	26	82	2	94	17	22	22	39	1.93
26656647--26656703	28	2.0	28	89	0	87	22	24	24	28	2.00
26659954--26660001	7	6.9	7	97	0	87	41	2	14	41	1.57
26660895--26660931	9	4.1	9	92	0	65	45	13	10	29	1.77
26661909--26661954	5	9.2	5	100	0	92	21	19	19	39	1.93
26662044--26662069	5	5.2	5	100	0	52	19	19	19	42	1.90
26666949--26666988	21	1.9	21	94	0	71	20	30	10	40	1.85
26684183--26684421	87	2.7	86	80	7	259	35	12	9	42	1.74
26684151--26684730	84	6.8	83	79	7	441	32	12	10	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26684292--26684730	84	5.2	84	80	6	478	33	11	10	45	1.74
26683982--26684730	165	4.5	168	75	11	576	32	12	9	45	1.74
26684746--26684872	59	2.2	59	81	2	148	25	10	13	51	1.72
26687561--26687596	10	3.5	10	92	3	54	50	0	25	25	1.50
26690924--26690974	24	2.2	24	77	22	56	33	0	5	60	1.21
26691132--26691169	14	2.6	14	84	15	51	36	7	5	50	1.54
26691885--26691941	30	1.9	30	82	13	73	47	3	0	49	1.18
26692113--26692178	13	5.1	13	81	7	89	37	24	6	31	1.80
26712924--26713000	14	5.0	15	71	20	52	42	15	9	32	1.78
26712940--26712979	20	2.0	20	90	0	62	50	12	10	27	1.72

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