genome.fa.s13.2.7.7.80.10.50.1000.116.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  116  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)
35382596--35382631	18	2.0	18	94	0	63	25	16	19	38	1.92
35386774--35386809	14	2.6	14	86	0	54	72	0	8	19	1.10
35386774--35386816	14	3.2	13	80	9	50	69	0	9	20	1.15
35386837--35386873	2	18.5	2	94	0	65	48	0	2	48	1.15
35386957--35387001	23	2.0	23	86	8	65	62	13	0	24	1.31
35387544--35387588	17	2.6	17	80	19	58	64	2	4	28	1.25
35390506--35390621	38	3.1	38	90	6	166	31	13	21	32	1.92
35390527--35390904	37	10.0	37	87	7	469	36	14	20	28	1.92
35390715--35390867	82	1.9	82	95	0	279	36	14	20	28	1.92
35395060--35395129	29	2.3	29	80	9	70	57	14	4	24	1.55
35395320--35395358	18	2.0	20	85	9	55	66	7	5	20	1.36
35395428--35395585	84	1.9	85	97	1	300	56	12	5	25	1.57
35396716--35396851	40	3.4	39	76	17	127	59	0	6	33	1.28
35396982--35397070	3	29.0	3	72	10	56	62	2	4	30	1.27
35397031--35397093	18	3.4	19	78	10	67	58	0	4	36	1.19
35397811--35397869	20	2.7	22	82	12	70	79	5	13	1	0.97
35397805--35397847	11	4.1	11	85	11	63	81	4	13	0	0.84
35398002--35398031	6	5.0	6	100	0	60	0	16	0	83	0.65
35397996--35398031	18	2.0	18	88	0	54	2	13	2	80	0.93
35403701--35403746	20	2.2	21	81	14	60	60	2	0	36	1.09
35406212--35406268	28	2.0	28	93	0	96	24	12	17	45	1.83
35417060--35417096	17	2.2	17	100	0	74	27	16	24	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35423782--35423843	23	2.5	24	82	15	74	32	20	24	22	1.98
35424914--35424953	19	2.2	18	86	13	55	42	10	2	45	1.51
35429199--35429279	42	1.9	42	94	0	144	48	16	6	29	1.70
35429199--35429292	42	2.2	41	87	5	134	48	15	5	29	1.67
35429310--35429349	19	2.2	18	95	4	71	42	15	2	40	1.60
35434284--35434310	3	9.0	3	100	0	54	33	33	0	33	1.58
35434702--35434741	21	2.0	20	85	14	55	27	12	22	37	1.90
35445797--35445860	22	2.9	23	77	11	62	15	3	42	39	1.63
35463294--35463340	17	2.9	16	84	6	58	63	10	8	17	1.49
35468272--35468297	13	2.0	13	100	0	52	53	0	0	46	1.00
35471595--35471634	20	2.0	20	100	0	80	30	5	5	60	1.40
35482946--35482997	27	1.9	27	88	0	77	28	13	36	21	1.91
35485376--35485404	13	2.1	14	93	6	51	68	13	6	10	1.37
35497651--35497688	20	2.0	20	85	10	53	34	0	5	60	1.19
35499902--35500846	105	9.1	105	84	1	1096	23	16	22	37	1.93
35504302--35504350	25	2.0	23	84	7	62	24	12	0	63	1.29
35504293--35504352	25	2.7	22	70	20	54	23	11	0	65	1.26
35513590--35513655	23	2.9	23	88	0	96	22	19	27	30	1.98
35513587--35513662	23	3.3	23	80	12	93	23	19	26	30	1.98
35513866--35513913	23	2.0	25	84	8	64	39	0	22	37	1.55
35520282--35520404	42	3.0	41	82	5	122	16	23	17	43	1.88
35520330--35520398	21	3.3	21	72	8	59	15	24	17	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35526539--35526625	27	3.2	27	78	0	102	37	16	25	20	1.93
35528939--35528997	31	1.9	31	89	0	91	33	25	18	22	1.96
35531983--35532047	34	1.9	34	100	0	130	21	18	15	44	1.86
35560260--35560298	4	9.8	4	94	0	69	25	0	23	51	1.49
35560420--35560476	26	2.2	26	81	9	62	24	7	12	56	1.61
35562013--35562052	20	2.0	20	95	0	71	25	22	2	50	1.62
35562770--35563038	137	2.0	138	80	2	308	33	26	20	20	1.97
35569416--35569512	43	2.3	40	75	15	95	51	4	5	39	1.43
35569476--35569565	10	9.4	10	70	20	52	58	2	4	34	1.30
35569476--35569557	20	4.2	18	74	13	65	58	2	4	34	1.32
35569485--35569566	9	8.7	9	73	16	51	59	2	4	32	1.31
35569818--35569919	9	12.1	8	72	20	59	31	3	0	63	1.19
35569817--35569934	18	6.8	17	69	23	59	31	4	0	63	1.19
35569817--35569935	27	4.5	26	71	18	68	31	4	0	63	1.19
35569893--35569935	19	2.3	19	84	8	52	27	2	2	67	1.15
35570566--35570650	34	2.5	35	81	13	104	67	1	1	30	1.06
35570609--35570638	11	2.7	11	89	0	51	56	0	3	40	1.16
35571308--35571348	6	6.8	6	85	0	55	65	0	4	29	1.13
35578164--35578198	18	1.9	18	94	0	61	17	11	37	34	1.85
35586444--35586473	14	2.1	15	93	6	53	13	43	13	30	1.82
35590396--35590433	20	1.9	20	88	0	58	13	2	39	44	1.57
35590729--35590800	31	2.3	31	87	0	108	33	22	4	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35599941--35599965	8	3.1	8	100	0	50	64	0	0	36	0.94
35606286--35606328	22	2.0	22	90	0	68	9	20	25	44	1.81
35606423--35606709	43	6.7	43	75	6	174	27	30	18	23	1.98
35607053--35607097	21	2.1	21	87	0	63	6	44	15	33	1.73
35607053--35607108	21	2.7	22	74	20	57	7	42	16	33	1.75
35607094--35607246	66	2.3	66	82	5	186	15	26	16	41	1.88
35607136--35607260	66	1.9	66	86	3	180	16	24	16	43	1.87
35607455--35607514	30	2.0	30	100	0	120	36	16	16	30	1.91
35610150--35610275	9	14.9	9	72	12	106	32	2	20	44	1.65
35610163--35610282	25	4.8	25	80	5	143	33	1	20	45	1.61
35610151--35610282	50	2.6	50	86	3	183	34	2	20	43	1.64
35610267--35610343	32	2.3	34	78	17	88	41	1	15	41	1.55
35610295--35610319	12	2.1	12	100	0	50	40	0	8	52	1.31
35610302--35610342	22	1.9	21	90	5	64	39	2	14	43	1.59
35610497--35610649	9	17.2	9	70	20	65	31	1	20	47	1.58
35610555--35610599	23	1.9	24	90	4	74	40	0	17	42	1.50
35610568--35610761	32	6.2	32	69	22	126	35	0	15	47	1.50
35610595--35610733	21	6.0	21	66	22	66	33	0	16	48	1.51
35610595--35610783	49	3.9	49	77	12	208	33	0	16	49	1.50
35610565--35610787	96	2.3	97	88	6	330	35	0	15	48	1.49
35610642--35610713	36	2.0	36	89	5	110	37	0	12	50	1.41
35610557--35610731	12	16.1	11	69	20	77	36	0	16	47	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35610793--35610837	19	2.3	19	85	11	56	53	2	0	44	1.13
35610804--35610856	21	2.5	22	78	9	65	56	0	1	41	1.10
35613336--35613365	4	7.5	4	92	0	51	26	0	0	73	0.84
35613377--35613443	20	3.2	21	75	14	59	49	0	7	43	1.31
35613462--35613494	11	3.1	11	86	8	50	18	3	0	78	0.87
35614132--35614206	7	10.1	7	81	11	53	33	44	0	22	1.53
35614129--35614212	15	5.6	14	77	13	62	32	44	0	23	1.54
35614132--35614181	7	6.5	8	86	11	61	38	44	0	18	1.50
35614809--35615163	41	8.7	41	83	5	398	30	24	22	22	1.99
35619669--35619700	2	16.0	2	100	0	64	50	0	50	0	1.00
35633060--35633137	28	2.8	28	82	7	104	56	1	10	32	1.41
35634126--35634181	20	2.8	19	81	7	58	67	7	21	3	1.30
35635041--35635792	175	4.3	175	94	0	1308	28	19	17	33	1.95
35635201--35635884	46	15.5	46	73	12	468	28	20	18	32	1.96
35635794--35635869	23	3.3	23	64	14	66	23	21	17	38	1.93
35646428--35646475	25	1.9	25	82	0	60	50	10	16	22	1.76
35647456--35647533	28	2.8	28	82	7	104	55	1	11	32	1.44
35647796--35647840	23	1.9	24	81	4	56	51	4	8	35	1.54
35648519--35648586	20	3.6	19	77	11	59	69	5	22	2	1.24
35649090--35649143	25	2.1	26	83	13	67	18	0	3	77	0.91
35649109--35649149	16	2.5	17	80	11	50	17	0	7	75	1.02
35658593--35658632	20	2.0	21	85	5	55	30	5	5	60	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35664346--35664383	17	2.2	17	95	0	67	18	5	0	76	0.97
35665444--35665485	18	2.3	18	83	4	57	64	2	0	33	1.07
35671490--35671537	23	2.0	24	84	8	62	39	22	8	29	1.83
35672146--35672243	42	2.3	42	92	0	169	30	23	21	24	1.99
35679930--35679982	22	2.5	22	81	3	63	77	5	1	15	1.04
35680534--35680560	14	1.9	14	100	0	54	25	0	0	74	0.83
35683666--35683757	19	4.8	19	89	0	148	35	9	17	36	1.83
35683666--35683780	38	2.9	38	88	5	167	35	8	17	38	1.81
35683970--35684014	23	2.0	23	81	0	54	20	2	15	62	1.43
35689406--35689438	14	2.3	15	89	5	50	27	12	33	27	1.92

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