genome.fa.s13.2.7.7.80.10.50.1000.35.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  35  of  199  ( 23770 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)
9926988--9927884	45	20.0	45	86	0	1134	30	22	16	30	1.96
9929109--9929197	47	1.9	46	88	2	133	16	19	21	42	1.89
9930279--9930344	25	2.6	25	83	9	71	56	6	18	19	1.62
9933922--9934014	22	4.2	22	90	0	132	31	13	25	29	1.94
9935027--9935124	21	4.7	21	79	14	67	38	16	8	36	1.78
9935027--9935084	22	2.6	22	81	7	64	41	17	5	36	1.72
9935063--9935137	19	3.8	19	89	6	123	34	16	12	37	1.85
9935925--9935981	15	3.5	15	71	17	51	49	1	1	47	1.22
9937557--9937696	43	3.3	43	91	0	217	23	29	18	28	1.98
9938046--9938092	21	2.2	21	88	0	67	2	44	17	36	1.60
9939819--9939880	25	2.4	26	86	2	81	41	1	12	43	1.53
9939821--9939965	9	17.1	9	70	14	85	35	2	15	46	1.58
9939867--9939913	25	1.9	24	91	4	76	36	2	14	46	1.57
9939841--9939925	34	2.5	34	84	5	111	37	2	14	45	1.57
9939877--9939989	25	4.5	25	72	18	76	29	1	18	50	1.57
9939902--9939983	16	5.0	16	75	11	69	28	1	18	52	1.53
9939963--9940294	44	7.5	44	85	11	453	33	1	16	48	1.57
9939965--9940126	53	3.2	50	72	19	158	34	1	16	48	1.54
9939924--9940294	178	2.2	166	87	8	505	33	1	16	48	1.57
9940279--9940421	9	16.2	9	65	20	61	32	2	18	46	1.61
9940275--9940394	25	4.7	25	74	15	102	32	1	19	46	1.60
9940268--9940421	41	3.8	41	73	13	138	31	1	19	46	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9940335--9940415	37	2.2	36	82	10	103	30	1	18	49	1.55
9940417--9940444	12	2.3	12	100	0	56	42	0	10	46	1.38
9941631--9941676	7	6.6	7	94	0	74	32	45	0	21	1.52
9942480--9942669	84	2.3	84	87	3	301	31	22	18	27	1.97
9942493--9942714	84	2.6	84	85	4	243	33	21	15	29	1.94
9943117--9943437	89	3.5	88	86	6	421	42	25	1	29	1.64
9943487--9943511	12	2.1	12	100	0	50	32	52	0	16	1.44
9943559--9943592	15	2.3	15	95	5	61	35	35	0	29	1.58
9944167--9944512	114	3.0	114	88	0	478	28	25	20	25	1.99
9944420--9944593	95	1.8	95	88	0	267	25	22	22	29	1.99
9955974--9956030	29	1.9	30	82	3	71	40	14	12	33	1.83
9956109--9956146	17	2.2	17	90	0	58	42	0	18	39	1.50
9961805--9961866	33	1.9	32	87	9	90	38	4	1	54	1.31
9962267--9962307	17	2.4	18	80	19	52	56	0	4	39	1.21
9965109--9965145	18	2.1	18	100	0	74	21	27	13	37	1.91
9995327--9995364	17	2.2	18	90	4	60	39	5	10	44	1.61
9996769--9996827	30	2.0	30	83	6	75	37	32	10	20	1.86
9996867--9997000	29	4.6	29	81	3	142	34	28	12	24	1.92
9996891--9997003	60	1.9	60	92	0	190	38	27	11	23	1.89
9998723--9998774	25	2.1	25	100	0	104	44	13	23	19	1.86
10007319--10007388	33	2.1	33	100	0	140	42	24	2	30	1.69
10007658--10007926	41	6.6	41	83	1	279	36	16	26	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10007646--10007926	82	3.4	81	81	4	307	35	16	26	21	1.94
10007631--10007939	123	2.5	123	77	8	317	36	15	25	22	1.94
10012726--10012868	54	2.6	54	80	8	157	21	25	20	32	1.97
10012976--10013010	15	2.2	16	90	5	54	28	28	17	25	1.97
10018607--10018644	17	2.4	16	83	12	51	42	2	5	50	1.39
10022333--10022439	11	10.4	11	76	23	117	56	0	2	41	1.14
10022343--10022416	17	4.0	17	80	19	94	56	0	1	41	1.07
10022333--10022447	40	2.8	40	98	1	221	56	0	2	40	1.13
10022371--10022428	29	2.0	29	93	6	100	55	0	3	41	1.17
10022535--10022605	34	2.2	33	85	10	92	19	32	14	33	1.92
10025367--10025451	27	3.1	27	79	0	80	34	20	20	25	1.96
10025496--10025568	24	3.1	23	82	5	83	19	5	26	49	1.69
10025632--10025696	27	2.4	27	83	14	82	18	23	26	32	1.97
10025684--10025749	26	2.5	26	90	0	96	16	19	27	36	1.93
10025737--10025927	96	2.0	96	88	2	285	23	16	19	40	1.91
10025743--10025927	32	5.8	32	81	8	207	22	16	20	40	1.91
10027068--10027105	19	2.0	19	85	10	51	21	42	0	36	1.53
10028720--10028761	17	2.4	18	80	15	52	42	7	26	23	1.80
10035928--10036219	50	5.7	50	78	6	239	26	20	28	24	1.99
10035928--10036212	100	2.8	100	82	4	304	27	20	28	23	1.99
10040654--10040713	25	2.4	25	81	8	68	30	6	0	63	1.20
10040654--10040708	26	2.2	25	83	9	67	25	5	0	69	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10046536--10046631	47	2.0	47	100	0	192	35	25	14	25	1.94
10053413--10053466	28	2.0	27	85	10	74	16	22	27	33	1.95
10058532--10058758	102	2.2	103	92	0	366	33	29	18	18	1.96
10062700--10062756	19	2.9	19	73	5	51	68	5	3	22	1.25
10069657--10069803	61	2.4	61	85	2	188	31	12	24	31	1.93
10071552--10071635	7	12.0	7	93	0	114	36	0	34	28	1.58
10072496--10072520	13	1.9	13	100	0	50	24	4	0	72	1.02
10082237--10082298	16	3.6	18	71	18	60	32	6	3	58	1.40
10085007--10085121	57	2.0	58	98	1	223	26	10	14	48	1.76
10089800--10089851	16	3.3	15	71	12	50	50	0	0	50	1.00
10093399--10093482	25	3.4	25	84	0	105	27	19	19	34	1.95
10096176--10096202	6	4.5	6	100	0	54	85	0	0	14	0.61
10097200--10097260	30	2.0	32	87	6	90	13	18	11	57	1.65
10099416--10099501	20	4.3	20	74	11	77	12	26	18	41	1.87
10103663--10103802	70	2.0	70	92	2	237	36	22	10	30	1.88
10105229--10105352	29	4.2	29	90	2	176	20	26	16	36	1.94
10115094--10115181	45	2.0	45	93	0	149	34	22	19	23	1.97
10115183--10115327	51	2.8	52	79	7	163	28	28	17	26	1.97
10117946--10117988	20	2.2	20	82	0	50	30	20	37	11	1.89
10123218--10123328	51	2.2	51	93	0	186	46	3	38	10	1.56
10124745--10125242	27	18.4	27	81	5	508	20	14	20	44	1.86
10124744--10125242	81	6.2	80	82	2	566	20	14	20	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10136787--10136819	2	16.5	2	100	0	66	0	48	0	51	1.00
10140747--10140801	21	2.7	21	91	5	87	38	14	9	38	1.78
10141359--10141692	44	7.7	44	72	9	166	27	23	19	29	1.98
10141397--10141692	44	6.8	44	71	11	196	28	23	19	28	1.98
10141438--10141643	84	2.4	85	79	13	226	28	25	17	28	1.98
10141651--10141888	100	2.4	97	77	8	223	26	20	20	33	1.97
10141707--10141857	50	3.0	50	72	0	140	25	18	20	35	1.95
10141707--10141905	100	2.0	100	87	2	283	25	19	21	34	1.96
10141732--10141905	50	3.5	50	74	1	170	24	20	20	33	1.97
10141927--10142068	45	3.2	45	80	6	180	26	20	22	30	1.98
10142079--10142476	88	4.5	88	89	3	606	20	24	26	28	1.99
10142092--10142476	174	2.2	176	90	2	607	21	24	27	27	1.99
10142324--10142462	44	3.2	44	63	4	118	19	23	30	25	1.98
10148249--10148288	16	2.5	17	80	19	50	70	0	5	25	1.08
10149123--10149177	21	2.7	21	91	5	87	38	14	9	38	1.78
10159611--10159683	24	3.1	23	67	21	69	27	13	27	31	1.94
10159595--10159690	48	2.0	48	97	0	183	30	12	26	31	1.93
10163860--10164050	35	5.4	35	68	13	95	33	23	19	23	1.97
10164095--10164139	21	2.2	21	96	4	83	40	24	0	35	1.56
10164111--10164202	37	2.5	36	85	7	96	38	22	1	38	1.62
10176324--10176396	37	2.0	37	97	0	137	45	17	6	30	1.75
10184268--10184424	81	1.9	81	97	0	296	44	24	8	22	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10185719--10185755	16	2.3	16	90	0	56	29	8	37	24	1.84
10192702--10193120	187	2.3	180	90	4	630	24	25	7	42	1.81
10193410--10193442	14	2.3	15	90	10	52	57	0	42	0	0.98
10195274--10195306	3	11.0	3	100	0	66	66	33	0	0	0.92
10196142--10197216	315	3.4	315	89	3	1583	36	18	17	27	1.94
10205431--10205468	16	2.3	17	86	13	53	13	2	7	76	1.11
10210284--10210325	12	3.5	12	75	12	50	33	0	42	23	1.55
10210284--10210330	24	1.9	24	91	4	76	34	0	38	27	1.57
10211000--10211431	27	16.1	27	82	3	496	42	21	17	18	1.90
10211665--10211745	26	3.1	26	75	7	74	18	20	25	34	1.96

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