genome.fa.s13.2.7.7.80.10.50.1000.67.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  67  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)
19848925--19849008	31	2.7	31	79	3	89	35	13	28	22	1.92
19853708--19853757	21	2.4	21	89	0	73	56	4	2	38	1.30
19857432--19857575	25	5.8	25	86	6	177	30	20	20	28	1.98
19864211--19864291	25	3.2	24	77	16	67	25	19	23	30	1.98
19871871--19871965	25	3.8	25	72	0	73	26	23	21	29	1.99
19873576--19873644	27	2.6	27	72	4	68	37	20	18	23	1.94
19874408--19874552	72	2.0	72	85	2	193	35	24	13	26	1.93
19880615--19880646	15	2.1	15	94	0	55	15	3	53	28	1.57
19882602--19882653	25	2.1	25	100	0	104	26	17	26	28	1.97
19885317--19885341	13	1.9	13	100	0	50	48	4	0	48	1.20
19889250--19889287	18	2.1	19	90	5	60	44	13	0	42	1.43
19893425--19893740	155	2.0	155	95	0	578	27	17	17	38	1.92
19897143--19897354	104	2.0	104	97	0	397	38	11	18	30	1.87
19908051--19908107	27	2.1	27	83	3	71	17	14	19	49	1.80
19912496--19912575	39	2.1	39	100	0	160	35	12	23	28	1.91
19920851--19920902	21	2.6	20	93	6	88	36	11	15	36	1.84
19921378--19921415	3	12.7	3	94	0	67	36	0	0	63	0.95
19928198--19928235	14	2.7	14	80	11	51	76	7	10	5	1.15
19929462--19930226	88	8.7	88	83	1	899	27	24	24	23	2.00
19930253--19930604	117	3.0	116	92	0	578	26	18	28	26	1.98
19931129--19931180	21	2.6	20	93	6	88	36	11	15	36	1.84
19931387--19931431	23	2.0	23	81	0	54	22	0	15	62	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19936965--19936995	15	2.1	15	93	0	53	29	51	3	16	1.59
19975333--19975448	58	2.0	58	98	0	223	30	10	28	31	1.90
19975864--19975896	17	1.9	17	88	11	50	33	24	12	30	1.91
19980999--19981115	38	2.9	41	82	7	168	18	29	17	34	1.94
19987942--19988309	41	9.0	41	80	1	335	22	28	15	33	1.95
19991289--19991385	41	2.4	41	91	0	149	31	27	16	23	1.96
20011124--20011192	30	2.3	30	92	0	111	24	34	24	15	1.95
20012078--20012158	35	2.3	35	97	0	153	30	22	9	37	1.87
20012433--20012489	17	3.4	17	95	0	96	24	36	17	21	1.94
20014699--20014735	3	12.3	3	100	0	74	32	0	0	67	0.91
20026663--20026707	22	2.0	23	82	4	56	66	2	4	26	1.22
20043188--20043230	21	2.0	21	82	8	52	46	2	18	32	1.62
20045380--20045408	15	1.9	15	100	0	58	31	13	27	27	1.94
20053463--20053604	55	2.6	56	82	8	175	54	3	1	40	1.26
20053582--20053631	24	2.1	23	82	10	57	60	2	2	36	1.20
20055755--20055779	3	8.3	3	100	0	50	0	0	36	64	0.94
20062364--20062412	21	2.3	21	96	0	89	12	42	18	26	1.85
20062743--20062819	26	3.1	26	59	11	61	36	11	20	31	1.89
20065112--20065210	48	2.1	48	96	0	180	37	10	23	29	1.87
20065550--20065590	21	1.9	22	85	5	57	17	4	12	65	1.42
20069015--20069085	30	2.3	30	92	2	115	50	2	19	26	1.61
20069662--20069873	101	2.1	101	85	3	284	22	21	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20077096--20077136	6	6.8	6	97	0	73	53	0	29	17	1.44
20077282--20077343	26	2.4	26	91	0	97	40	12	16	30	1.86
20077282--20077356	26	2.9	26	86	4	80	42	10	18	28	1.83
20079773--20079833	32	1.9	32	93	0	104	9	22	21	45	1.81
20084513--20084613	27	3.7	27	84	5	132	42	19	17	19	1.89
20084777--20084853	26	3.0	26	90	0	118	14	23	24	37	1.92
20085213--20085290	32	2.4	32	100	0	156	41	6	19	33	1.77
20088143--20088186	22	1.9	22	86	9	61	34	18	2	45	1.62
20093752--20093850	42	2.4	42	82	0	117	24	24	28	23	2.00
20101496--20101555	17	3.6	17	84	2	77	20	20	11	48	1.80
20102602--20102646	22	2.0	22	87	8	65	51	20	2	26	1.59
20107492--20107583	47	2.0	47	95	0	166	61	6	3	28	1.36
20117037--20117067	13	2.5	13	94	5	55	32	29	6	32	1.83
20134844--20134878	17	2.1	17	94	0	61	22	34	5	37	1.78
20136168--20136236	25	2.8	25	79	0	75	26	23	21	28	1.99
20136661--20136964	145	2.1	145	98	0	592	33	22	7	37	1.81
20139859--20139957	43	2.3	43	89	1	144	30	26	17	26	1.97
20140081--20140164	31	2.7	31	87	1	116	41	17	10	29	1.84
20140081--20140174	31	3.1	30	80	7	100	43	18	9	28	1.81
20148228--20148271	22	2.0	23	82	13	56	50	0	0	50	1.00
20149330--20149446	62	1.9	59	82	5	144	47	5	4	43	1.45
20149422--20149468	17	2.6	18	81	18	53	51	6	2	40	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20151164--20151308	50	2.9	49	79	7	143	22	26	21	30	1.99
20161517--20161712	41	4.7	40	83	7	248	34	26	16	22	1.95
20161517--20161712	84	2.4	83	90	4	299	34	26	16	22	1.95
20164151--20164189	20	2.0	20	90	10	62	15	23	5	56	1.59
20164448--20164586	50	2.8	49	77	2	134	21	28	23	26	1.99
20165199--20165224	13	2.0	13	100	0	52	46	7	7	38	1.61
20170301--20170369	36	1.9	36	90	0	111	33	21	34	10	1.87
20170299--20170376	18	4.3	18	73	0	66	34	24	32	8	1.86
20173535--20173572	20	1.9	20	94	0	67	28	36	5	28	1.79
20182799--20182827	14	2.1	14	100	0	58	51	13	13	20	1.75
20189030--20189220	41	4.6	40	78	9	177	35	24	17	22	1.95
20190386--20190622	51	4.7	51	80	3	237	29	14	27	29	1.95
20190378--20190578	102	2.0	102	92	0	339	30	13	26	29	1.94
20197723--20197764	21	2.0	22	85	4	59	19	16	28	35	1.93
20203439--20203479	21	2.0	21	85	9	57	12	19	31	36	1.89
20210544--20210592	16	3.1	16	82	11	57	51	0	6	42	1.27
20239873--20239950	33	2.4	32	82	6	93	26	23	15	34	1.94
20242531--20242855	159	2.0	159	94	0	569	32	20	14	33	1.92
20247705--20247764	28	2.1	28	100	0	120	55	3	18	23	1.58
20247957--20248003	17	2.9	16	78	9	51	14	4	2	78	0.99
20271209--20271272	32	2.0	32	96	0	119	37	14	18	29	1.90
20273360--20273395	18	1.9	19	88	5	56	27	25	5	41	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20277440--20277557	41	2.9	41	83	9	152	23	27	15	33	1.95
20278005--20278059	24	2.3	24	93	0	92	27	10	21	40	1.87
20278476--20278555	25	3.2	24	78	3	79	22	28	33	15	1.94
20278490--20278572	25	3.3	25	76	6	87	22	25	36	15	1.94
20279981--20280044	21	3.2	21	63	24	57	39	14	14	32	1.85
20279973--20280048	38	2.0	38	100	0	152	36	13	15	34	1.87
20291713--20291769	30	1.9	30	85	0	78	17	35	33	14	1.90
20296004--20296051	19	2.6	18	80	9	60	10	2	8	79	1.02
20296002--20296086	34	2.4	34	76	19	86	11	4	8	75	1.18
20303230--20303431	43	4.7	42	80	9	205	29	28	18	24	1.98
20308535--20308569	6	5.8	6	89	0	52	28	0	2	68	1.04
20308537--20308576	18	2.2	19	90	4	64	25	0	5	70	1.08
20317232--20317543	154	2.0	154	92	0	516	36	8	13	42	1.74
20318697--20318749	2	27.0	2	92	3	90	49	0	0	50	1.00
20319085--20319130	24	1.9	24	86	8	67	26	6	17	50	1.70
20326349--20326449	40	2.6	38	84	3	121	48	8	4	37	1.56
20328584--20328622	12	3.2	12	85	0	51	20	23	5	51	1.67
20328883--20329006	50	2.5	50	82	0	149	23	28	22	25	1.99
20329348--20329405	30	1.9	30	85	0	80	31	24	8	36	1.85
20333762--20333952	48	4.0	48	80	4	224	28	20	28	22	1.98
20333778--20333952	96	1.8	96	86	2	253	28	21	29	21	1.98
20334060--20334139	38	2.1	38	84	9	101	46	1	22	30	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20338699--20338761	29	2.2	29	81	13	76	30	26	6	36	1.81
20338706--20338761	29	1.9	30	85	7	80	30	23	7	39	1.81
20345303--20345327	10	2.5	10	100	0	50	8	52	8	32	1.60
20353146--20353232	41	2.1	41	93	0	147	20	29	16	33	1.94
20365040--20365356	30	10.6	30	75	5	241	36	13	23	26	1.92
20365220--20365300	29	2.7	30	88	3	128	38	13	24	23	1.91
20371233--20371278	8	5.5	8	80	10	56	8	43	2	45	1.47
20381999--20382047	25	2.0	25	84	8	64	34	18	16	30	1.93
20393646--20393788	71	2.0	71	97	0	268	34	20	18	25	1.95
20395507--20395546	20	2.0	20	85	5	53	47	7	7	37	1.60

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