genome.fa.s13.2.7.7.80.10.50.1000.169.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  169  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)
49396043--49396087	18	2.5	18	74	0	54	71	2	20	6	1.20
49399401--49399466	26	2.6	25	77	11	64	69	1	1	27	1.06
49399734--49399781	21	2.2	22	85	3	62	47	4	0	47	1.21
49400972--49401145	94	1.8	94	82	3	224	43	2	14	39	1.59
49401348--49401630	125	2.3	126	91	1	453	30	20	23	25	1.98
49405198--49405237	18	2.2	18	86	0	53	45	10	30	15	1.78
49407079--49407131	22	2.5	21	82	11	63	47	1	30	20	1.61
49407851--49407957	53	2.0	53	100	0	214	42	20	7	29	1.80
49426929--49426959	2	15.5	2	100	0	62	48	0	0	51	1.00
49428536--49428642	40	2.7	40	84	5	128	33	18	28	19	1.96
49428594--49428829	112	2.1	111	96	0	427	28	19	25	26	1.98
49430378--49430430	22	2.5	21	81	9	63	26	5	32	35	1.80
49431350--49431786	84	5.1	84	91	4	705	32	20	18	28	1.96
49431331--49431786	172	2.7	172	92	3	751	31	19	19	29	1.96
49433929--49434069	17	7.6	17	74	22	115	46	12	1	40	1.50
49433920--49434069	57	2.6	57	97	0	282	46	11	1	41	1.48
49434003--49434102	40	2.5	40	91	0	155	43	9	3	45	1.51
49433946--49434124	97	1.9	93	90	4	286	43	10	2	43	1.51
49434074--49434115	13	3.2	13	86	0	57	40	9	2	47	1.49
49434548--49434578	9	3.4	9	90	0	53	48	25	3	22	1.66
49434548--49434598	18	2.9	17	82	14	59	45	23	1	29	1.64
49434572--49434810	51	4.6	51	93	3	383	45	20	0	33	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49440342--49440412	21	3.4	21	88	0	97	32	16	46	4	1.67
49448118--49448165	15	3.1	15	82	8	53	60	12	6	20	1.54
49449648--49450531	50	17.7	50	78	4	840	25	20	21	32	1.97
49449634--49450531	100	9.0	100	88	3	1233	25	20	21	32	1.98
49463361--49463408	15	3.1	15	82	8	53	60	12	6	20	1.54
49477833--49477977	41	3.5	41	92	0	227	26	20	29	23	1.99
49478698--49478723	13	2.0	13	100	0	52	23	38	15	23	1.92
49482269--49482312	9	4.7	9	80	8	52	31	2	2	63	1.19
49482399--49482424	2	13.0	2	100	0	52	50	0	0	50	1.00
49482424--49482459	18	2.1	17	94	5	63	36	0	0	63	0.94
49486144--49486322	97	1.9	95	86	2	259	44	15	6	34	1.72
49487487--49487524	19	2.1	19	85	5	51	55	7	5	31	1.51
49490842--49490900	10	6.1	10	80	4	68	27	1	1	69	1.07
49490842--49490900	28	2.1	28	81	12	68	27	1	1	69	1.07
49496271--49496350	41	2.0	41	100	0	160	41	36	7	15	1.75
49497053--49497102	19	2.6	19	93	3	82	6	36	54	4	1.44
49497875--49497901	2	13.5	2	100	0	54	48	0	0	51	1.00
49512485--49512517	7	4.6	7	92	7	57	84	0	0	15	0.61
49513719--49513997	44	6.5	42	74	10	170	27	22	23	26	1.99
49513814--49513974	46	3.7	45	80	8	163	26	20	24	28	1.99
49513726--49513973	44	5.7	44	75	7	209	27	21	24	26	1.99
49513729--49513997	131	2.1	128	82	4	317	26	22	23	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49513775--49514019	131	1.9	131	83	1	321	26	21	24	27	1.99
49516075--49516379	108	2.8	109	91	3	465	29	17	20	33	1.95
49526259--49526292	6	5.7	6	100	0	68	50	0	50	0	1.00
49526230--49526292	24	2.7	22	80	9	54	52	1	44	1	1.20
49526262--49526379	48	2.4	48	85	1	155	53	1	38	5	1.35
49526361--49526442	6	13.2	6	79	16	69	69	1	28	1	1.03
49526540--49526592	24	2.2	24	86	0	70	9	35	9	45	1.69
49526525--49526586	27	2.3	27	88	0	88	9	37	6	46	1.62
49526549--49526589	21	2.0	21	90	0	64	9	36	4	48	1.58
49526612--49526646	6	5.8	6	87	12	54	80	0	20	0	0.72
49526674--49526729	24	2.4	24	82	8	71	62	7	26	3	1.38
49527553--49527629	35	2.2	35	95	0	136	25	16	24	32	1.96
49531707--49531731	13	1.9	13	100	0	50	12	0	0	88	0.53
49531736--49531847	51	2.2	52	87	4	174	38	3	0	58	1.16
49531726--49531805	40	2.0	40	83	4	101	38	3	0	57	1.17
49531775--49531825	23	2.3	22	86	10	68	33	1	0	64	1.05
49532627--49532704	20	4.0	19	75	11	77	52	1	8	37	1.41
49534786--49534833	19	2.4	21	89	6	73	68	0	0	31	0.90
49541213--49541266	8	6.9	8	76	16	51	44	1	0	53	1.11
49541211--49541266	16	3.6	16	77	20	64	44	1	0	53	1.11
49541222--49541276	22	2.5	21	82	8	65	50	1	0	47	1.11
49542502--49542557	2	28.0	2	100	0	112	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49543454--49543509	28	2.0	28	92	0	94	28	12	12	46	1.78
49543681--49544021	43	8.0	43	91	1	551	29	34	17	18	1.94
49546286--49546310	2	12.5	2	100	0	50	48	0	0	52	1.00
49546927--49547032	7	15.0	7	72	13	74	35	43	0	20	1.52
49546928--49546984	22	2.6	22	94	0	96	33	47	0	19	1.50
49546929--49547032	29	3.7	27	83	7	111	35	43	0	21	1.53
49547951--49548124	41	4.2	41	76	12	140	35	30	14	19	1.92
49549414--49549446	2	16.5	2	100	0	66	48	0	0	51	1.00
49550335--49550368	2	17.0	2	100	0	68	50	0	0	50	1.00
49566746--49566796	15	3.1	16	74	20	59	19	7	27	45	1.78
49567384--49567421	3	13.0	3	94	5	69	0	31	0	68	0.90
49567691--49567740	2	25.0	2	100	0	100	0	50	0	50	1.00
49568416--49568471	28	2.0	28	83	10	71	37	1	3	57	1.27
49571493--49571642	58	2.6	58	79	5	142	32	22	13	32	1.92
49577150--49577187	19	2.1	18	90	9	60	57	2	0	39	1.12
49579342--49579457	50	2.3	50	83	2	135	23	18	19	37	1.94
49580997--49581041	17	2.6	18	89	6	67	13	28	20	37	1.90
49581016--49581122	29	3.7	29	73	13	94	13	28	18	40	1.88
49581689--49581713	13	1.9	13	100	0	50	48	12	16	24	1.79
49582333--49582370	20	1.9	20	94	0	67	68	0	10	21	1.19
49582332--49582377	20	2.3	19	85	10	65	67	2	8	21	1.29
49582353--49582425	28	2.6	30	78	12	91	58	6	10	23	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49588647--49588755	36	3.0	36	89	0	164	40	11	17	30	1.86
49601926--49601959	15	2.3	15	94	0	59	38	14	14	32	1.87
49603980--49604026	18	2.5	19	80	13	53	31	10	8	48	1.68
49605428--49605458	16	1.9	16	93	0	53	35	3	0	61	1.12
49605851--49605875	2	12.5	2	100	0	50	48	0	0	52	1.00
49609889--49609919	3	10.7	3	93	6	55	70	0	29	0	0.87
49611211--49611519	45	6.9	45	85	4	381	30	18	21	29	1.97
49611772--49612166	45	8.7	45	72	8	257	31	18	22	27	1.97
49611772--49612272	228	2.2	228	87	1	709	32	17	21	28	1.96
49613831--49613866	3	12.0	3	100	0	72	33	0	0	66	0.92
49619065--49619102	3	12.7	3	100	0	76	68	0	0	31	0.90
49623543--49623592	25	2.0	25	84	0	64	18	22	18	42	1.90
49623573--49623785	25	8.6	25	74	10	156	19	24	21	35	1.96
49623572--49623785	74	2.9	73	77	9	191	19	24	21	35	1.96
49623550--49623785	49	4.8	47	77	13	185	19	24	20	35	1.96
49635470--49635530	20	3.0	20	68	13	54	52	6	3	37	1.44
49643624--49643650	12	2.2	12	100	0	54	14	18	18	48	1.82
49651665--49651730	32	2.1	32	100	0	132	27	18	18	36	1.94
49651673--49651738	32	2.2	31	89	8	100	28	16	21	33	1.95
49652368--49652418	12	4.1	12	73	16	50	60	7	1	29	1.36
49652388--49652428	12	3.3	12	80	6	55	65	7	4	21	1.37
49652378--49652428	25	2.0	25	96	0	93	62	7	3	25	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49652388--49652428	13	3.2	13	74	19	50	65	7	4	21	1.37
49653305--49653332	14	2.0	14	100	0	56	35	21	7	35	1.81
49658362--49658390	14	2.1	14	100	0	58	34	24	6	34	1.82
49662783--49662849	30	2.3	29	82	7	73	62	2	0	34	1.10
49662757--49662857	49	2.0	51	86	7	145	61	3	0	33	1.21
49662871--49663085	94	2.3	94	83	7	269	36	9	17	37	1.82
49674288--49674756	231	2.0	231	96	1	868	35	4	21	38	1.73
49675640--49675696	2	28.5	2	89	7	89	49	0	3	47	1.18
49688944--49689188	126	1.9	126	94	1	429	28	20	15	35	1.93
49689239--49689420	98	1.9	95	90	5	294	40	19	1	38	1.62

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