genome.fa.s6.2.7.7.80.10.50.1000.116.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: Chr06 ID=Chr06-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  51074515

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   

This is table  116  of  168  ( 20060 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)
33796492--33796533	17	2.4	19	77	22	56	0	14	16	69	1.20
33797586--33797653	31	2.2	32	84	7	86	35	8	11	44	1.72
33800497--33800571	28	2.6	28	83	6	80	33	36	9	21	1.85
33800516--33800563	21	2.2	22	82	10	55	37	37	6	18	1.76
33803114--33803183	33	2.0	34	83	10	88	42	12	17	27	1.85
33814651--33815034	125	3.0	125	87	4	525	28	12	22	36	1.91
33815799--33815836	19	2.0	20	89	5	60	15	10	5	68	1.36
33815798--33815836	20	2.0	20	90	10	62	15	10	5	69	1.34
33816406--33816453	24	2.0	23	88	4	69	54	4	0	41	1.20
33820015--33820053	18	2.2	17	86	13	53	33	0	20	46	1.51
33830198--33830372	87	2.0	87	97	0	332	29	10	22	38	1.87
33830607--33830635	10	2.7	11	89	10	51	65	0	0	34	0.93
33836457--33836534	31	2.5	31	85	6	106	23	14	30	32	1.94
33837295--33837345	26	2.0	26	84	7	68	19	15	39	25	1.91
33838523--33838841	164	1.9	165	84	3	419	27	11	20	39	1.88
33852520--33852553	17	1.9	18	88	5	52	20	0	2	76	0.92
33853097--33853140	22	2.0	22	82	13	54	34	6	2	56	1.38
33862377--33862436	22	2.9	20	80	9	66	55	0	8	36	1.30
33862405--33862432	14	2.0	14	100	0	56	57	0	7	35	1.26
33864564--33864643	30	2.7	30	74	14	76	41	13	10	35	1.78
33867363--33867411	22	2.2	24	85	10	68	42	20	4	32	1.71
33869828--33869893	31	2.1	32	83	10	84	24	9	15	51	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33890191--33890346	67	2.3	67	78	5	163	24	20	21	33	1.97
33891860--33891888	14	2.1	14	100	0	58	27	13	31	27	1.94
33894456--33894606	74	2.0	74	98	0	293	47	15	12	24	1.80
33901050--33901093	2	22.0	2	100	0	88	50	0	0	50	1.00
33901530--33902090	214	2.6	216	83	6	623	21	14	18	46	1.84
33901384--33902153	222	3.5	220	79	8	760	21	14	18	46	1.84
33909503--33909639	58	2.3	59	82	7	163	27	15	16	40	1.88
33920430--33920491	30	2.1	30	87	6	90	35	6	17	40	1.76
33922399--33922424	9	2.9	9	100	0	52	46	30	11	11	1.76
33928026--33928068	11	4.0	11	78	6	52	6	0	23	69	1.12
33928913--33928940	3	9.3	3	100	0	56	32	0	0	67	0.91
33937177--33937206	15	2.0	15	93	0	51	40	6	10	43	1.64
33940386--33940436	23	2.2	23	86	6	68	49	5	1	43	1.38
33940835--33940873	19	2.1	19	85	0	51	38	10	5	46	1.60
33944724--33944837	62	1.9	59	83	5	147	40	4	4	50	1.42
33951893--33951968	30	2.6	30	75	10	77	34	9	2	53	1.46
33955124--33955165	17	2.5	17	84	3	50	50	2	2	45	1.27
33956006--33956059	28	2.0	27	85	3	72	38	7	9	44	1.65
33956014--33956068	27	2.0	28	82	10	69	43	3	7	45	1.49
33958716--33958762	21	2.2	21	88	0	67	25	10	8	55	1.62
33964443--33964489	21	2.2	22	88	3	69	21	17	38	23	1.93
33970117--33970197	29	2.7	30	84	5	101	49	14	4	30	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33970786--33970860	9	8.2	9	76	14	73	66	1	0	32	1.00
33970793--33970860	17	3.8	17	73	17	57	66	1	0	32	1.01
33970784--33970839	26	2.2	25	93	3	94	64	0	0	35	0.94
33970786--33970860	38	2.1	35	87	12	107	66	1	0	32	1.00
33973366--33973583	109	2.0	109	99	0	427	27	20	23	27	1.99
33975309--33975375	32	2.1	32	94	0	116	56	0	1	41	1.08
33975306--33975390	11	7.6	11	75	16	77	56	0	1	42	1.07
33975288--33975381	32	3.1	31	82	8	115	59	0	1	39	1.04
33978915--33978945	2	15.5	2	93	0	53	45	0	3	51	1.17
33982606--33982664	29	2.0	29	100	0	118	30	11	27	30	1.92
33983866--33983903	2	19.0	2	94	0	67	47	0	2	50	1.15
33986116--33986277	43	3.7	43	85	4	209	26	29	18	25	1.98
33986349--33986382	16	2.1	16	88	0	50	55	8	0	35	1.31
33986610--33986647	18	2.1	18	90	0	58	15	34	0	50	1.45
33986610--33986638	6	4.8	6	100	0	58	17	34	0	48	1.47
33992221--33992453	73	3.2	73	86	0	295	28	24	19	27	1.99
33992353--33992681	115	2.9	114	86	3	482	27	26	20	25	1.99
33992582--33992753	72	2.4	72	94	0	299	27	25	18	28	1.98
33992467--33992864	185	2.1	187	89	2	606	27	25	19	27	1.99
33992934--33992959	12	2.2	12	100	0	52	46	30	15	7	1.74
33996773--33996839	21	3.2	21	74	16	59	49	13	0	37	1.42
33996810--33996856	24	2.0	24	84	16	62	51	17	0	31	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33997500--33997591	11	7.9	11	70	13	51	1	22	5	70	1.14
34000970--34001038	20	3.3	21	82	11	72	40	0	1	57	1.07
34000983--34001038	21	2.8	20	79	17	62	41	0	1	57	1.09
34001046--34001089	16	2.9	15	76	6	52	38	2	4	54	1.33
34001129--34001174	18	2.5	19	72	10	51	45	2	0	52	1.13
34001155--34001202	23	2.1	23	92	0	78	45	2	0	52	1.12
34001158--34001217	23	2.6	23	84	5	68	38	5	3	53	1.39
34001260--34001302	20	2.1	20	91	4	68	62	0	0	37	0.95
34001216--34001303	33	2.7	33	75	3	97	59	0	0	40	0.98
34001280--34001344	22	2.9	22	78	15	71	63	1	0	35	1.04
34001252--34001335	22	3.8	23	79	16	88	58	1	0	40	1.06
34001330--34001390	14	4.2	15	77	8	56	78	3	4	13	1.03
34001350--34001432	16	5.2	17	77	20	81	79	3	6	10	1.03
34001331--34001434	47	2.3	46	83	9	124	78	4	4	11	1.05
34001346--34001434	14	6.1	14	75	18	67	79	4	5	10	1.03
34001342--34001432	32	2.8	33	76	15	109	79	5	5	9	1.06
34002003--34002035	6	5.5	6	96	0	57	36	0	0	63	0.95
34002574--34002620	24	2.0	23	87	4	67	38	6	6	48	1.54
34004966--34005028	29	2.2	28	85	2	81	20	15	25	38	1.92
34007745--34007813	9	7.7	9	85	0	93	43	21	10	24	1.83
34007902--34007945	18	2.4	18	80	0	52	15	2	40	40	1.60
34011508--34011709	72	2.8	71	83	5	262	22	26	30	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34013342--34013823	159	3.0	159	85	0	660	24	25	13	36	1.92
34014935--34014993	4	14.8	4	100	0	118	50	25	0	23	1.49
34031483--34031709	103	2.3	98	82	7	260	45	19	10	24	1.82
34032377--34032413	7	5.4	7	96	3	67	32	27	24	16	1.96
34032613--34032762	78	1.9	79	87	4	223	32	12	8	47	1.70
34033159--34033206	14	3.4	14	70	0	51	31	6	0	62	1.20
34033680--34033716	12	3.1	12	88	0	56	8	0	16	75	1.02
34033634--34033766	56	2.4	56	80	6	135	8	5	21	65	1.39
34034157--34034219	30	2.1	30	93	0	108	58	12	3	25	1.49
34038765--34038793	3	9.7	3	100	0	58	31	0	0	68	0.89
34040578--34040617	19	2.2	19	90	4	64	45	10	0	45	1.37
34041409--34041456	14	3.3	14	78	16	53	50	4	2	43	1.33
34041411--34041458	16	3.2	15	77	8	53	50	4	2	43	1.33
34043844--34043903	17	3.6	17	81	2	59	45	8	3	43	1.50
34043857--34043904	17	2.8	17	83	0	60	50	8	2	39	1.44
34045004--34045042	21	1.9	20	84	5	51	48	2	0	48	1.15
34059999--34060033	2	18.0	2	94	5	63	48	0	0	51	1.00
34064114--34064198	31	2.8	30	80	5	91	40	12	11	35	1.80
34068349--34068379	15	2.1	14	94	5	53	83	0	16	0	0.64
34074526--34074604	30	2.7	29	76	11	72	44	11	1	43	1.48
34075591--34075764	59	2.9	60	87	2	242	22	17	12	47	1.81
34080144--34080203	18	3.2	18	88	4	75	48	0	3	48	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34083578--34083653	37	2.1	37	97	0	143	48	5	19	26	1.70
34085434--34085490	25	2.3	25	87	0	87	21	19	17	42	1.90
34092565--34092599	17	2.0	18	88	5	54	42	0	8	48	1.33
34092895--34092962	31	2.2	31	83	0	82	47	13	5	33	1.67
34097878--34097912	17	2.1	17	88	0	52	65	8	2	22	1.34
34097894--34097953	27	2.1	30	81	9	72	61	5	10	23	1.47
34098553--34098594	16	2.6	16	100	0	84	35	7	38	19	1.79
34098574--34098664	46	2.0	46	93	4	159	26	4	30	38	1.76
34098574--34098681	46	2.5	44	85	11	145	28	3	31	36	1.75
34098823--34098861	17	2.5	15	84	15	60	61	0	0	38	0.96

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