genome.fa.s3.2.7.7.80.10.50.1000.108.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  108  of  150  ( 17918 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)
33575712--33576109	109	3.7	109	89	3	613	34	19	15	30	1.93
33576226--33576264	18	2.2	17	90	4	60	74	7	5	12	1.20
33576510--33576586	27	2.9	26	79	11	86	54	2	6	36	1.40
33576621--33576658	3	12.7	3	94	0	67	63	2	0	34	1.09
33577487--33577889	109	3.7	109	89	3	623	34	19	14	31	1.92
33577487--33577891	220	1.8	218	89	2	632	34	19	14	31	1.92
33578001--33578039	18	2.2	17	90	4	60	74	7	5	12	1.20
33579403--33579441	20	2.0	20	89	0	60	7	20	53	17	1.68
33579402--33579447	20	2.3	20	80	0	56	10	19	50	19	1.77
33579869--33580230	50	7.3	50	72	10	285	23	19	24	32	1.98
33579869--33580311	100	4.4	100	88	2	547	23	19	24	31	1.98
33579869--33580291	150	2.8	149	75	8	385	23	19	24	31	1.98
33579869--33580319	50	9.0	50	70	7	272	23	19	24	31	1.98
33579801--33580326	100	5.3	99	85	3	544	24	19	23	31	1.98
33591959--33592356	109	3.7	109	93	2	665	34	19	15	30	1.93
33592599--33592630	4	8.0	4	100	0	64	25	0	25	50	1.50
33592842--33592898	3	18.3	3	82	13	71	64	0	5	29	1.15
33595601--33595635	18	1.9	18	88	0	52	17	5	8	68	1.35
33596795--33596835	22	1.9	22	85	14	59	58	7	4	29	1.46
33602081--33602130	18	2.7	18	81	3	64	38	20	2	40	1.64
33608498--33608550	18	2.9	18	77	5	63	35	20	1	41	1.64
33609488--33609522	17	2.0	18	88	5	54	17	45	25	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33611336--33611384	22	2.2	22	77	0	53	36	12	16	34	1.86
33616389--33616432	17	2.8	16	83	13	56	50	0	2	47	1.13
33620922--33620964	18	2.4	18	80	0	50	13	44	4	37	1.65
33625879--33625909	2	15.5	2	100	0	62	51	0	0	48	1.00
33626418--33626448	9	3.4	9	95	0	53	67	0	0	32	0.91
33627598--33627640	19	2.2	20	88	8	63	48	0	4	46	1.22
33634753--33634810	29	2.0	29	100	0	116	24	13	20	41	1.89
33639616--33639692	40	1.9	39	82	10	93	32	24	20	22	1.98
33642234--33642279	21	2.2	22	88	7	69	13	26	17	43	1.85
33645399--33645488	20	4.6	20	69	15	53	14	31	18	35	1.91
33662196--33662237	22	1.9	21	85	9	57	45	28	0	26	1.54
33666166--33666318	51	3.0	51	99	0	299	49	5	11	32	1.63
33671536--33671597	26	2.4	26	91	0	97	20	20	20	37	1.95
33680787--33680849	21	3.0	21	72	9	56	19	46	17	17	1.85
33681691--33681734	3	14.7	3	95	0	79	31	2	0	65	1.05
33682326--33682642	109	2.9	109	90	1	478	31	16	17	34	1.92
33692301--33692331	4	7.8	4	100	0	62	51	22	0	25	1.48
33692939--33692994	3	18.7	3	88	0	85	32	3	1	62	1.23
33693588--33693901	109	2.9	107	90	4	481	31	17	16	34	1.92
33696147--33696208	25	2.5	25	78	7	72	33	19	29	17	1.95
33703204--33703406	71	2.9	71	81	2	237	32	29	20	18	1.96
33711410--33711468	30	1.9	31	89	3	93	44	6	20	28	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33711937--33712276	51	6.7	51	82	4	366	28	15	26	29	1.96
33711937--33712280	102	3.4	101	88	2	467	28	15	26	29	1.96
33715468--33715514	25	2.0	23	84	16	60	61	2	27	8	1.36
33717701--33717763	31	2.0	31	96	0	117	26	1	28	42	1.65
33727689--33727724	19	1.9	18	88	5	54	72	2	0	25	0.98
33727917--33727949	17	2.0	17	88	5	50	39	0	0	60	0.97
33727887--33727946	25	2.5	24	78	10	68	40	0	1	58	1.08
33737877--33737927	25	2.0	25	85	7	68	23	0	3	72	1.01
33738379--33738425	21	2.3	21	85	10	62	59	0	4	36	1.17
33741930--33742357	213	2.0	214	96	0	786	27	16	24	32	1.96
33753267--33753352	24	3.6	24	83	0	91	15	40	5	38	1.71
33756000--33756048	22	2.2	22	96	0	89	16	24	28	30	1.96
33758227--33758324	51	2.0	49	88	6	144	32	7	32	27	1.84
33761712--33762188	126	3.8	126	92	1	782	29	15	22	33	1.95
33765218--33765457	116	2.1	116	93	0	408	43	9	8	38	1.68
33765480--33765551	21	3.5	22	83	9	89	29	0	31	38	1.57
33765510--33765644	45	3.2	44	78	20	171	27	0	28	44	1.55
33765530--33765982	29	14.2	33	80	13	268	27	0	26	45	1.56
33765462--33765916	88	5.8	74	78	17	328	28	0	27	44	1.56
33765614--33765981	58	6.6	58	81	12	438	27	0	26	45	1.56
33765614--33765981	117	3.3	116	83	12	504	27	0	26	45	1.56
33765816--33765916	45	2.2	45	84	11	127	26	0	26	45	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33765997--33766108	25	4.7	25	73	16	121	43	12	0	43	1.42
33765997--33766150	69	2.3	68	90	4	240	46	11	0	41	1.45
33766583--33766617	18	1.9	18	94	0	61	34	8	31	25	1.86
33767268--33767293	7	3.7	7	100	0	52	57	15	0	26	1.38
33768435--33768523	29	3.3	29	63	26	77	47	0	23	29	1.52
33768431--33768538	51	2.1	51	94	0	189	46	0	24	29	1.53
33775448--33775488	19	2.2	19	86	8	57	31	9	4	53	1.55
33776013--33776075	30	2.0	32	87	12	94	20	9	12	57	1.63
33782734--33783022	50	5.7	50	81	2	256	23	27	20	28	1.99
33785818--33785846	2	14.5	2	100	0	58	51	0	0	48	1.00
33786014--33786056	18	2.6	16	85	10	59	69	6	0	23	1.12
33786753--33786795	22	2.0	22	86	4	61	79	6	11	2	1.02
33787099--33787129	13	2.4	13	94	0	53	6	0	38	54	1.26
33787211--33787246	12	2.8	13	83	8	56	27	2	13	55	1.52
33787524--33787636	44	2.6	44	81	5	113	28	20	21	30	1.98
33793048--33793080	16	2.1	16	94	0	57	21	27	12	39	1.88
33795087--33795125	12	3.2	13	85	10	55	20	0	15	64	1.30
33839095--33839164	29	2.3	29	85	4	86	22	14	15	47	1.82
33857049--33857202	77	2.0	77	98	0	299	25	16	23	35	1.95
33857617--33857664	18	2.7	18	90	0	78	52	0	25	22	1.48
33860565--33860642	22	3.5	22	89	0	102	30	26	15	26	1.96
33875904--33876097	108	1.8	107	83	1	262	38	11	27	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33882513--33882538	13	2.0	13	100	0	52	23	7	7	61	1.49
33885331--33885375	18	2.6	17	83	13	56	53	2	0	44	1.13
33885331--33885382	18	3.0	17	81	10	52	55	1	0	42	1.10
33899850--33900004	72	2.2	72	97	0	292	26	23	24	25	2.00
33899977--33900323	41	8.4	41	90	1	514	18	19	31	31	1.96
33899977--33900392	123	3.4	121	84	5	471	20	18	29	30	1.97
33900006--33900392	82	4.7	80	84	7	341	21	18	29	30	1.97
33900307--33900383	40	1.9	40	82	10	95	25	16	23	33	1.96
33900565--33900725	14	10.9	14	75	12	126	19	0	32	47	1.54
33900565--33900725	7	22.7	7	73	8	112	19	0	32	47	1.54
33900990--33901088	21	4.6	22	77	8	98	26	0	37	36	1.57
33901056--33901091	8	4.8	8	86	13	58	22	0	38	38	1.54
33900993--33901115	7	17.6	7	71	15	67	24	0	38	36	1.61
33901281--33901427	7	20.7	7	72	9	93	19	0	32	46	1.55
33901298--33901363	29	2.3	28	84	5	87	19	0	30	50	1.48
33901692--33901793	21	4.8	22	77	8	104	26	0	38	35	1.57
33901758--33901790	8	4.4	8	85	14	52	24	0	33	42	1.55
33901695--33901817	7	17.6	7	70	17	60	25	0	37	36	1.62
33901984--33902130	7	20.7	7	74	9	102	19	0	33	46	1.55
33901977--33902066	29	3.2	28	85	6	101	17	0	32	50	1.47
33900542--33902666	702	3.0	703	98	0	4092	29	6	21	43	1.78
33902396--33902497	21	4.8	22	77	8	104	26	0	38	35	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33902462--33902494	8	4.4	8	85	14	52	24	0	33	42	1.55
33902399--33902521	7	17.6	7	70	17	60	25	0	37	36	1.62
33906548--33906604	27	2.2	26	81	9	62	26	8	1	63	1.34
33906844--33906922	39	2.0	40	90	2	124	26	18	25	29	1.98
33908655--33908714	31	1.9	31	96	0	111	26	21	26	25	2.00
33909560--33909591	11	2.9	11	90	0	55	71	0	0	28	0.86
33913645--33913671	13	2.1	13	100	0	54	33	7	22	37	1.82
33914344--33914413	33	2.1	33	91	0	113	32	14	34	18	1.91
33915396--33915432	20	2.0	20	89	10	60	35	2	8	54	1.44
33915374--33915422	24	2.0	25	88	4	73	42	2	4	51	1.32

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