genome.fa.s13.2.7.7.80.10.50.1000.36.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  36  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)
10211847--10211968	28	4.4	28	83	7	160	21	24	23	30	1.99
10217502--10217677	94	1.9	94	91	0	289	46	4	12	36	1.62
10217643--10217711	35	2.0	35	94	0	120	47	0	5	46	1.26
10217647--10217725	35	2.2	35	84	6	95	50	0	7	41	1.31
10217672--10217789	52	2.4	50	83	12	145	50	0	5	44	1.30
10218820--10218873	16	3.4	16	92	0	90	35	1	35	27	1.68
10222420--10222451	16	2.0	16	93	0	55	43	0	21	34	1.53
10228003--10228043	19	2.2	19	100	0	82	9	14	36	39	1.79
10231065--10231096	16	2.0	16	93	0	55	43	0	21	34	1.53
10235559--10235591	15	2.1	16	88	5	50	30	6	12	51	1.63
10239238--10239303	34	2.0	33	88	8	98	42	0	10	46	1.38
10239279--10239388	47	2.3	48	81	9	127	53	1	8	36	1.41
10242057--10242109	26	2.0	27	88	3	81	26	20	18	33	1.96
10247649--10247692	16	2.8	16	73	13	54	34	11	27	27	1.91
10249974--10250031	29	2.0	29	100	0	116	27	34	10	27	1.89
10251557--10251593	6	6.3	6	87	12	51	45	0	2	51	1.15
10251557--10251593	17	2.1	18	95	5	67	45	0	2	51	1.15
10256306--10256420	43	2.7	42	78	8	124	31	26	15	26	1.96
10262213--10262253	21	2.0	21	90	0	64	17	39	26	17	1.91
10280959--10281044	27	3.2	27	90	1	129	41	23	19	15	1.89
10281391--10281471	28	2.9	28	94	3	137	24	27	23	24	2.00
10283032--10283084	23	2.2	24	83	6	63	15	7	24	52	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10283957--10283995	20	1.9	21	89	5	62	76	2	0	20	0.90
10283957--10284013	21	2.7	21	81	13	55	71	3	3	21	1.15
10291874--10292071	50	3.8	52	85	6	251	23	31	20	25	1.98
10306838--10306954	62	1.9	59	87	5	171	43	3	4	48	1.39
10314772--10314876	54	1.9	55	88	5	160	16	23	28	31	1.96
10317334--10317368	6	5.8	6	86	0	52	14	5	0	80	0.89
10317605--10317644	19	2.1	19	100	0	80	42	10	0	47	1.37
10320741--10320779	16	2.4	17	82	8	53	35	12	33	17	1.88
10322674--10322704	16	1.9	16	100	0	62	29	0	32	38	1.57
10331896--10331930	18	2.0	18	88	5	54	14	45	28	11	1.79
10333845--10333892	23	2.0	24	92	4	80	37	10	18	33	1.85
10333853--10333904	23	2.5	21	81	12	63	36	7	15	40	1.76
10333978--10334003	9	2.9	9	100	0	52	53	0	11	34	1.37
10334735--10334775	23	1.9	21	85	14	57	43	7	9	39	1.65
10335355--10335612	85	3.1	83	87	2	329	29	18	17	34	1.94
10335559--10335669	48	2.3	48	98	0	213	35	16	13	35	1.88
10336219--10336327	28	3.9	28	76	2	119	51	5	19	23	1.67
10336175--10336340	56	2.9	56	76	5	156	52	6	17	23	1.68
10336216--10336338	28	4.4	27	70	16	97	50	5	18	25	1.69
10340596--10340669	38	1.9	38	88	0	112	32	20	14	32	1.93
10341713--10341752	14	2.9	14	84	0	53	32	7	17	42	1.77
10341736--10341775	20	2.0	20	90	0	62	27	10	12	50	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10341721--10341787	34	1.9	35	90	3	109	31	8	13	46	1.74
10341715--10341791	14	5.0	15	71	20	52	32	9	15	42	1.78
10344583--10344633	18	2.8	18	75	0	66	39	3	43	13	1.63
10347952--10348069	59	2.0	59	93	0	200	29	14	22	33	1.94
10348391--10348430	17	2.4	17	86	0	53	30	25	17	27	1.97
10350763--10350790	14	2.0	14	100	0	56	57	7	14	21	1.61
10360137--10360175	12	3.2	12	85	0	51	15	23	10	51	1.73
10360434--10360572	50	2.8	50	77	2	136	24	28	19	27	1.98
10364422--10364458	13	2.8	13	87	0	56	45	5	13	35	1.66
10366312--10366356	20	2.1	22	84	12	58	15	6	8	68	1.36
10370290--10370334	21	2.1	22	84	12	58	68	8	6	15	1.36
10376432--10376486	27	2.0	27	85	0	74	29	18	14	38	1.90
10379171--10379216	21	2.2	21	84	7	58	19	30	0	50	1.48
10379171--10379214	20	2.2	20	84	8	54	20	29	0	50	1.49
10392390--10392424	17	2.1	17	94	0	61	37	20	11	31	1.88
10395149--10395482	51	6.7	51	77	9	280	26	14	27	31	1.95
10395252--10395519	100	2.7	100	91	1	403	27	11	27	33	1.92
10402534--10402563	16	1.9	16	93	6	53	30	0	20	50	1.49
10404334--10404497	86	1.9	86	85	0	229	31	18	14	35	1.91
10415108--10415605	138	3.6	138	87	2	703	45	5	7	42	1.53
10416985--10417019	15	2.2	15	90	10	52	71	2	5	20	1.19
10432498--10432536	12	3.2	12	85	0	51	51	5	23	20	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10434551--10434593	4	10.8	4	84	0	59	51	2	20	25	1.60
10434556--10434594	20	2.0	20	94	0	69	53	2	20	23	1.57
10435937--10435975	4	9.8	4	82	0	51	51	2	23	23	1.61
10435938--10435976	20	2.0	20	94	0	69	53	2	23	20	1.57
10437209--10437247	12	3.2	12	85	0	51	51	5	23	20	1.67
10437785--10437823	12	3.2	12	85	0	51	51	5	23	20	1.67
10440768--10440818	12	4.2	12	78	9	50	52	5	21	19	1.66
10444921--10444971	12	4.2	12	78	9	50	52	5	21	19	1.66
10448621--10448723	51	2.0	51	88	0	152	46	11	20	21	1.82
10458465--10458515	21	2.4	21	96	0	93	33	9	17	39	1.83
10461575--10461616	2	21.0	2	95	0	75	50	2	47	0	1.14
10466128--10466174	21	2.2	21	85	7	60	10	21	31	36	1.88
10467106--10467131	7	3.7	7	100	0	52	57	15	0	26	1.38
10467299--10467336	20	1.9	20	84	10	51	55	7	2	34	1.43
10469644--10469833	20	9.8	20	69	15	71	61	2	4	31	1.31
10469664--10469734	21	3.7	19	80	9	81	64	1	2	30	1.16
10469664--10469763	10	10.3	10	71	11	75	65	1	4	30	1.18
10469619--10469740	49	2.6	49	83	7	146	64	0	2	31	1.12
10469619--10469734	19	6.2	18	76	13	74	65	0	2	31	1.12
10469654--10469754	49	2.1	50	83	7	127	63	0	3	31	1.19
10470036--10470155	9	12.7	9	66	19	57	28	2	2	66	1.17
10469990--10470070	19	4.3	19	75	9	76	25	6	3	64	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10472900--10472950	24	2.0	26	82	17	63	41	5	27	25	1.78
10473773--10473840	21	3.3	21	68	15	61	32	5	20	41	1.76
10473737--10473840	40	2.6	40	84	1	129	32	5	21	40	1.77
10474045--10474131	45	1.9	45	90	0	138	26	17	13	42	1.86
10474040--10474281	39	6.1	39	70	21	153	22	17	17	42	1.89
10474185--10474248	33	1.9	33	96	0	119	20	15	23	40	1.90
10474101--10474334	117	2.0	116	88	2	344	20	16	20	42	1.89
10474090--10474340	39	6.3	39	73	16	201	21	16	19	42	1.89
10474317--10474359	22	1.9	23	85	4	61	23	9	13	53	1.69
10478952--10478981	13	2.3	13	94	0	51	40	23	0	36	1.55
10487344--10487383	20	2.0	20	90	0	62	50	12	10	27	1.72
10487332--10487398	34	1.9	35	90	3	109	46	13	8	31	1.74
10487367--10487406	14	2.9	14	84	0	53	42	17	7	32	1.77
10487794--10487843	25	2.0	25	100	0	100	40	8	4	48	1.51
10488929--10488984	11	5.2	11	76	4	60	67	10	1	19	1.29
10488929--10488984	22	2.6	21	82	2	67	67	10	1	19	1.29
10490378--10490410	17	1.9	17	88	11	50	57	0	3	39	1.14
10490444--10490501	3	19.3	3	78	0	53	60	6	1	31	1.33
10490425--10490459	18	1.9	18	88	11	54	62	8	0	28	1.24
10490455--10490503	18	2.7	18	80	0	62	57	6	4	32	1.42
10490444--10490499	15	3.7	15	78	4	60	60	7	1	30	1.33
10496178--10496220	18	2.4	18	84	7	52	69	4	2	23	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10497931--10497972	15	2.7	16	82	14	52	52	2	0	45	1.13
10497940--10497981	15	2.9	15	82	10	52	52	0	0	47	1.00
10497929--10498223	120	2.5	121	94	1	513	49	5	3	42	1.41
10498069--10498105	16	2.2	17	86	13	51	54	0	2	43	1.14
10498027--10498215	59	3.2	58	69	21	165	49	4	4	41	1.43
10498208--10498374	47	3.7	46	69	19	143	46	4	2	46	1.37
10498241--10498446	91	2.3	91	93	0	340	46	4	2	45	1.39
10498269--10498408	44	3.1	43	66	13	102	49	3	2	45	1.31
10498291--10498429	47	3.0	47	67	14	126	50	4	2	43	1.34
10499693--10499738	15	3.0	16	76	23	62	56	26	6	10	1.58

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