genome.fa.s13.2.7.7.80.10.50.1000.115.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  115  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)
35029737--35029780	23	1.9	23	95	0	79	13	25	6	54	1.63
35029897--35029942	2	23.0	2	95	0	83	52	0	0	47	1.00
35036645--35036669	12	2.1	12	100	0	50	28	32	16	24	1.96
35036770--35036833	21	3.0	21	79	2	74	20	28	17	34	1.95
35042502--35042540	20	2.0	20	90	10	62	28	12	33	25	1.93
35044484--35044525	22	1.9	22	90	0	66	38	0	16	45	1.48
35047335--35047360	2	13.0	2	100	0	52	50	0	0	50	1.00
35047952--35048182	63	3.7	63	80	5	245	43	16	5	35	1.70
35048004--35048182	60	2.9	62	84	6	238	43	16	5	35	1.70
35048200--35048239	2	20.0	2	100	0	80	50	0	0	50	1.00
35050451--35050481	2	15.5	2	100	0	62	51	0	0	48	1.00
35052567--35052602	17	2.1	17	89	5	54	19	2	11	66	1.35
35056169--35056211	21	2.0	21	86	8	61	34	0	6	58	1.25
35056194--35056269	35	2.2	33	84	9	91	43	1	5	50	1.33
35056224--35056270	23	2.1	22	84	4	58	46	0	4	48	1.21
35056482--35056520	16	2.4	16	100	0	78	28	28	7	35	1.85
35078510--35078677	69	2.4	69	81	3	187	19	22	21	36	1.95
35080816--35080855	21	1.9	21	94	0	71	22	32	7	37	1.82
35081259--35081354	40	2.4	40	82	6	113	37	16	18	27	1.92
35084456--35084599	66	2.2	66	86	6	193	42	18	23	15	1.88
35084875--35084971	44	2.2	44	85	3	124	32	26	14	25	1.94
35087000--35087052	23	2.2	22	83	12	61	64	1	1	32	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35087200--35087243	20	2.1	21	95	4	81	70	9	0	20	1.14
35087208--35087232	12	2.1	12	100	0	50	76	8	0	16	1.02
35089070--35089127	30	1.9	30	89	0	89	39	0	41	18	1.51
35089420--35089450	9	3.4	9	90	0	53	38	22	12	25	1.90
35100457--35100489	15	2.2	15	94	0	57	48	3	12	36	1.56
35106212--35106242	14	2.2	14	94	0	53	45	12	12	29	1.80
35119971--35120046	23	3.3	23	96	0	143	31	26	21	21	1.98
35120133--35120161	8	3.6	8	100	0	58	34	27	13	24	1.93
35120266--35120304	18	2.2	17	86	13	53	46	20	0	33	1.51
35127317--35127345	8	3.6	8	100	0	58	34	27	13	24	1.93
35127450--35127488	18	2.2	17	86	13	53	46	20	0	33	1.51
35138869--35138920	26	2.0	26	100	0	104	26	15	26	30	1.96
35146720--35146761	22	1.9	22	100	0	84	21	26	14	38	1.91
35148841--35148865	3	8.3	3	100	0	50	68	0	0	32	0.90
35160999--35161033	18	1.9	18	94	0	61	5	20	5	68	1.31
35161674--35161710	17	2.1	19	85	10	51	37	10	5	45	1.62
35162167--35162250	30	2.8	30	77	12	82	40	3	20	35	1.70
35162918--35163239	168	1.9	168	96	0	590	43	4	23	28	1.73
35166994--35167116	59	2.1	60	93	1	212	45	5	13	34	1.68
35169377--35169504	25	5.1	25	80	9	118	31	23	19	25	1.98
35171964--35171995	16	2.0	16	93	0	55	59	0	0	40	0.97
35171987--35172098	11	9.8	11	85	7	143	51	0	5	42	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35171960--35172108	59	2.5	59	81	14	205	53	0	4	42	1.20
35179121--35179179	26	2.3	26	85	5	75	30	10	13	45	1.76
35189493--35189522	13	2.3	13	100	0	60	60	0	13	26	1.34
35203061--35203278	109	2.0	109	100	0	436	28	26	9	35	1.87
35216625--35216666	17	2.5	17	92	0	66	45	11	0	42	1.41
35224018--35224101	25	3.4	25	83	0	114	28	21	19	30	1.97
35225443--35225539	49	2.0	49	84	8	126	27	24	19	27	1.99
35232114--35232267	25	6.2	26	70	13	83	16	23	19	40	1.91
35232114--35232267	24	6.2	26	67	17	94	16	23	19	40	1.91
35236545--35236593	25	2.0	25	84	15	66	46	14	4	34	1.63
35246718--35246755	14	2.9	14	81	18	55	50	0	0	50	1.00
35246878--35246902	8	3.1	8	100	0	50	24	12	0	64	1.27
35248702--35248735	17	1.9	18	88	5	52	82	2	8	5	0.93
35249614--35249886	100	2.7	100	88	0	420	23	27	22	27	1.99
35249625--35249891	50	5.3	50	72	0	255	23	27	21	27	1.99
35250085--35250399	88	3.6	88	89	0	459	24	27	19	28	1.99
35255152--35255208	27	2.1	27	86	0	78	63	8	12	15	1.52
35263268--35263305	16	2.3	16	83	16	51	81	2	7	7	0.96
35265740--35265793	27	2.1	25	82	6	63	25	1	0	72	0.95
35265696--35265798	35	3.0	34	76	18	97	24	3	0	70	1.09
35265936--35266011	10	7.4	10	69	5	53	28	1	5	64	1.23
35270543--35270585	22	1.9	22	85	4	59	58	4	6	30	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35279160--35279204	20	2.3	20	85	7	58	28	0	0	71	0.87
35289496--35289564	16	4.3	16	85	7	95	40	5	31	21	1.77
35289496--35289564	32	2.2	32	92	5	113	40	5	31	21	1.77
35289544--35289640	44	2.2	44	85	5	124	30	4	28	36	1.76
35289797--35289831	18	2.0	17	88	5	52	54	0	0	45	0.99
35291683--35291717	4	8.8	4	93	0	61	25	2	22	48	1.64
35292686--35292778	46	2.0	46	95	0	168	40	20	12	25	1.88
35293769--35293822	17	3.2	17	76	7	56	61	5	0	33	1.19
35293775--35293824	17	2.9	17	81	3	64	58	6	0	36	1.23
35298926--35299195	43	6.3	43	91	1	416	32	30	17	19	1.95
35298926--35299195	87	3.1	87	90	1	411	32	30	17	19	1.95
35298926--35299195	130	2.1	128	89	1	414	32	30	17	19	1.95
35309562--35309589	10	2.8	10	100	0	56	17	21	17	42	1.89
35315349--35315378	10	3.0	10	100	0	60	50	0	0	50	1.00
35319577--35319675	47	2.1	48	96	1	182	46	0	7	46	1.30
35320720--35320758	7	5.4	7	81	6	51	35	46	0	17	1.49
35319975--35320899	318	2.9	313	88	4	1297	42	27	2	28	1.68
35320720--35320761	15	2.9	15	89	3	59	35	47	0	16	1.47
35320781--35320818	14	2.7	15	88	12	62	42	31	0	26	1.56
35321813--35321890	29	2.6	29	83	4	93	47	14	14	24	1.80
35321838--35321911	29	2.5	29	86	4	94	51	16	12	20	1.76
35321972--35322413	41	10.8	41	83	3	514	33	26	19	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35325826--35325894	23	2.8	25	86	10	106	62	10	10	17	1.53
35326100--35326133	8	4.2	8	100	0	68	76	0	0	23	0.79
35329595--35329635	20	2.0	20	100	0	82	26	19	4	48	1.69
35330259--35330327	29	2.4	29	77	0	84	46	14	20	18	1.84
35331648--35331961	42	7.4	42	85	6	377	30	20	21	26	1.98
35331648--35331955	127	2.4	127	86	7	394	30	20	22	26	1.98
35331648--35331960	85	3.7	84	86	5	384	30	20	22	26	1.98
35332394--35332475	33	2.5	33	86	4	112	7	39	14	39	1.74
35332444--35332509	21	3.1	21	86	0	87	4	42	18	34	1.70
35337968--35338013	7	6.0	7	90	9	56	30	0	17	52	1.45
35337975--35338307	9	36.8	9	77	5	325	32	2	18	47	1.62
35337975--35338293	100	3.2	100	89	4	398	31	2	18	47	1.62
35338261--35338305	21	2.3	19	84	7	54	33	8	17	40	1.81
35338469--35338506	16	2.4	16	91	4	60	52	5	0	42	1.24
35338503--35338530	13	2.2	13	100	0	56	46	7	7	39	1.59
35338499--35338548	17	3.2	17	81	18	72	52	6	6	36	1.51
35339953--35340331	191	2.0	191	89	0	587	44	12	24	18	1.85
35340909--35340942	14	2.3	15	85	5	52	35	44	2	17	1.64
35341171--35341199	15	1.9	15	100	0	58	44	34	0	20	1.52
35341702--35342577	114	7.7	114	88	3	1275	24	20	21	34	1.97
35341702--35342571	342	2.5	342	92	1	1406	24	20	21	33	1.97
35342827--35343061	126	1.9	126	90	1	373	35	13	4	46	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
35346158--35346200	3	14.0	3	85	4	59	62	0	4	32	1.15
35348480--35348518	3	13.0	3	100	0	78	33	0	0	66	0.92
35351008--35351255	124	2.0	124	95	0	451	26	23	15	33	1.95
35357606--35357656	20	2.5	20	83	3	57	43	13	11	31	1.80
35357606--35357666	21	3.0	20	80	4	59	42	14	11	31	1.81
35359502--35359538	19	1.9	19	94	0	65	13	32	0	54	1.40
35364385--35364494	55	2.0	55	96	0	202	28	20	20	30	1.98
35374207--35374273	28	2.4	28	82	7	75	50	8	1	38	1.43
35376926--35377019	47	2.0	47	95	0	170	48	8	18	24	1.75
35378696--35378748	24	2.2	24	86	3	72	26	24	0	49	1.51

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