genome.fa.s13.2.7.7.80.10.50.1000.41.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  41  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)
11760985--11761223	50	4.7	50	76	3	165	23	27	20	28	1.99
11762719--11762743	13	1.9	13	100	0	50	32	4	24	40	1.73
11763852--11763976	43	2.9	42	78	14	130	21	19	29	29	1.97
11765550--11765893	102	3.4	101	88	2	478	29	15	25	29	1.96
11765550--11765887	51	6.7	50	82	5	394	29	15	25	29	1.96
11767701--11767731	15	2.1	15	100	0	62	29	0	19	51	1.47
11767860--11767997	47	2.9	46	81	10	161	26	13	20	39	1.89
11767860--11768008	23	6.3	23	81	10	142	26	13	20	38	1.90
11776679--11776735	11	5.2	11	74	16	55	54	1	1	42	1.21
11779456--11779635	90	2.0	90	98	0	351	33	8	16	41	1.79
11779481--11779670	90	2.1	90	82	5	224	38	8	15	37	1.79
11789691--11789870	50	3.6	50	81	3	195	27	21	28	22	1.99
11799307--11799343	18	2.1	18	90	10	58	29	10	0	59	1.31
11809188--11809216	3	9.7	3	100	0	58	31	0	0	68	0.89
11813833--11813900	34	2.0	34	85	5	93	29	23	26	20	1.99
11816120--11816145	12	2.2	12	100	0	52	23	0	0	76	0.78
11822061--11822206	72	2.0	72	85	0	193	21	25	22	30	1.98
11827072--11827105	14	2.4	14	95	0	59	58	0	2	38	1.13
11827415--11827470	10	5.8	10	72	8	53	35	1	0	62	1.06
11827405--11827469	28	2.3	28	89	2	94	33	1	3	61	1.21
11827427--11827480	19	2.8	19	85	2	63	37	1	0	61	1.07
11827443--11827480	20	1.9	19	89	5	58	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11827628--11827832	87	2.3	87	82	1	239	33	12	18	36	1.88
11834000--11834025	13	2.0	13	100	0	52	23	7	46	23	1.78
11843668--11843702	18	1.9	18	88	0	52	28	17	11	42	1.83
11848534--11848655	54	2.3	54	78	8	131	20	30	24	24	1.99
11854231--11854298	34	2.0	34	91	0	109	44	20	5	29	1.75
11855331--11855594	40	6.6	40	79	4	255	31	17	29	21	1.96
11855334--11855594	80	3.3	79	80	2	297	31	16	30	21	1.96
11855331--11855594	120	2.2	120	78	4	291	31	17	29	21	1.96
11856033--11856068	15	2.5	14	82	8	54	25	0	2	72	0.98
11860032--11860200	91	1.9	91	97	0	320	34	15	18	31	1.92
11864071--11864116	7	6.6	7	94	0	83	54	0	2	43	1.12
11864128--11864165	12	3.2	12	96	0	67	73	0	10	15	1.09
11864128--11864172	24	2.0	22	86	8	63	75	0	11	13	1.05
11879008--11879125	44	2.7	44	80	6	141	48	4	22	25	1.68
11885586--11885610	9	2.8	9	100	0	50	32	24	0	44	1.54
11886460--11886492	13	2.5	13	95	0	57	30	0	12	57	1.35
11896751--11896779	11	2.6	11	100	0	58	37	20	24	17	1.93
11899604--11899714	22	5.0	22	72	12	102	28	20	18	32	1.96
11899721--11899760	15	2.7	15	85	11	55	37	35	12	15	1.85
11903201--11903225	12	2.1	12	100	0	50	28	0	24	48	1.52
11905824--11905884	28	2.2	28	91	2	97	32	24	21	21	1.98
11910992--11911073	40	2.0	40	85	4	110	30	19	7	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11911234--11911274	19	2.1	20	86	4	57	26	2	2	68	1.15
11911822--11911859	18	2.1	18	100	0	76	10	15	26	47	1.78
11927647--11927687	20	2.0	20	90	9	66	39	0	2	58	1.11
11928614--11928643	16	1.9	15	93	6	51	76	3	0	20	0.92
11930358--11930480	44	2.8	44	77	0	111	32	17	17	32	1.93
11930457--11930701	94	2.6	94	83	4	305	30	20	17	31	1.95
11930540--11930689	44	3.3	44	68	17	115	29	23	16	31	1.96
11930525--11930730	94	2.2	94	86	1	270	29	24	16	29	1.97
11937185--11937283	28	3.6	27	81	9	119	31	12	28	28	1.92
11938219--11938345	22	5.5	22	77	18	123	29	11	14	44	1.81
11938236--11938408	25	7.3	24	74	19	141	27	13	15	44	1.83
11938217--11938428	47	4.5	47	86	2	266	29	12	15	42	1.84
11943581--11943645	21	3.0	21	86	4	94	33	3	6	56	1.39
11952142--11952186	20	2.2	20	84	7	56	31	0	2	66	1.04
11956647--11956702	25	2.2	24	78	9	58	35	8	1	53	1.43
11969125--11969175	22	2.3	22	96	3	93	47	0	15	37	1.46
11973375--11973402	2	14.0	2	100	0	56	50	0	0	50	1.00
11974036--11974079	2	22.5	2	81	4	54	45	0	4	50	1.22
11979235--11979295	30	2.0	30	96	0	113	39	11	29	19	1.87
11995966--11995994	3	9.7	3	100	0	58	68	0	31	0	0.89
11997052--11997119	23	2.9	24	86	4	86	33	25	17	23	1.96
12001102--12001131	14	2.1	15	93	6	53	36	13	6	43	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12001903--12001947	20	2.3	19	84	3	54	13	20	26	40	1.89
12003121--12003177	27	2.1	27	100	0	114	33	15	3	47	1.63
12003912--12003967	27	2.1	27	83	6	69	58	7	3	30	1.42
12009311--12009353	22	2.0	22	86	9	61	20	6	18	53	1.67
12038410--12038577	85	2.0	83	95	2	300	42	10	14	33	1.79
12041723--12041794	37	2.0	35	84	10	92	55	2	2	38	1.29
12043131--12043285	77	2.0	77	100	0	310	27	12	14	45	1.81
12044681--12044735	23	2.4	23	100	0	110	30	29	14	25	1.95
12046034--12046080	21	2.2	22	84	3	60	38	21	10	29	1.87
12046305--12046382	38	2.1	38	90	0	120	33	19	15	32	1.93
12046349--12046414	24	2.8	24	85	0	78	36	22	18	22	1.95
12046535--12046636	53	1.9	53	90	4	161	23	33	24	18	1.97
12064987--12065047	31	2.0	31	86	0	86	36	3	1	59	1.24
12076472--12076516	23	2.0	23	86	8	65	46	6	6	40	1.56
12078478--12078951	92	5.1	92	97	1	905	40	6	4	48	1.50
12078759--12078896	42	3.1	42	63	26	95	41	6	5	47	1.51
12078478--12078951	185	2.6	184	97	1	905	40	6	4	48	1.50
12078954--12079347	9	45.7	9	67	14	134	45	19	4	30	1.70
12079041--12079181	55	2.6	55	86	0	201	48	17	4	29	1.67
12079166--12079287	16	8.0	16	68	20	82	45	18	5	29	1.73
12079186--12079317	25	5.3	25	71	5	70	43	20	5	31	1.74
12084765--12084935	66	2.6	65	85	4	218	40	19	27	12	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12084906--12085014	21	5.2	21	84	0	74	34	18	42	4	1.71
12084926--12085014	42	2.1	42	85	0	115	33	17	43	4	1.70
12085390--12085584	43	4.5	44	77	9	195	21	16	33	28	1.95
12085370--12085620	86	2.9	85	86	2	322	23	16	30	29	1.96
12085814--12085856	22	2.0	22	95	0	77	41	27	20	9	1.83
12094855--12094884	15	2.0	15	100	0	60	40	20	13	26	1.89
12098058--12098248	36	4.7	41	75	20	177	37	10	21	29	1.88
12098101--12098265	36	4.3	36	79	14	186	36	12	20	31	1.89
12098058--12098248	82	2.3	82	92	0	319	37	10	21	29	1.88
12105878--12106111	36	5.6	45	76	19	247	36	13	21	29	1.91
12105878--12106111	82	2.9	82	93	1	384	36	13	21	29	1.91
12106780--12106857	11	7.4	11	79	19	78	60	0	0	39	0.97
12106791--12106846	28	2.0	28	89	6	87	58	0	0	41	0.98
12106788--12106912	39	3.2	38	88	4	189	59	0	0	40	1.03
12106879--12106913	16	2.1	16	89	10	52	57	0	0	42	0.99
12108809--12108855	21	2.3	21	82	10	53	36	0	10	53	1.36
12108882--12108975	26	3.4	26	68	16	71	40	0	4	55	1.19
12108980--12109008	6	4.8	6	100	0	58	68	13	0	17	1.20
12109549--12109591	21	2.0	21	90	0	68	44	23	9	23	1.82
12109687--12109730	16	2.8	15	80	12	61	54	0	0	45	0.99
12109687--12109731	17	2.8	17	83	6	58	53	0	0	46	1.00
12110502--12110566	32	2.0	32	96	0	121	46	1	9	43	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12112187--12112587	196	2.0	196	92	0	658	33	27	10	28	1.90
12115502--12115549	25	2.0	25	83	4	62	37	16	25	20	1.93
12115425--12115916	164	3.0	163	86	3	664	35	19	22	22	1.96
12116241--12116282	21	2.0	21	85	0	57	38	23	0	38	1.55
12118502--12118607	54	2.0	54	84	3	142	28	19	31	20	1.97
12120000--12120240	50	4.7	50	77	4	198	24	26	21	27	1.99
12120048--12120247	100	2.0	102	81	7	237	24	27	20	27	1.99
12121441--12121602	81	2.0	82	95	1	290	27	19	4	48	1.67
12121558--12121612	26	2.1	27	90	10	87	12	21	7	58	1.59
12123300--12123324	2	12.5	2	100	0	50	52	0	48	0	1.00

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