genome.fa.s3.2.7.7.80.10.50.1000.123.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  123  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)
37532534--37532648	61	1.9	61	82	7	144	53	10	13	23	1.70
37532551--37532655	21	5.1	21	74	4	106	55	11	10	22	1.66
37539889--37539930	18	2.3	18	92	8	68	23	11	14	50	1.76
37541617--37541754	59	2.4	58	86	4	188	23	17	19	39	1.92
37542832--37542865	18	1.9	17	88	5	50	50	0	11	38	1.39
37542950--37542985	18	2.1	17	90	10	56	38	0	0	61	0.96
37542930--37543096	29	5.6	29	65	21	87	44	0	3	51	1.23
37542971--37543109	26	5.4	26	69	16	85	45	0	4	49	1.27
37543326--37543386	16	3.8	16	93	0	95	21	31	4	42	1.74
37543318--37543386	32	2.2	32	89	5	104	21	30	5	42	1.76
37552932--37552970	16	2.4	16	87	8	53	58	5	28	7	1.47
37557985--37558092	38	2.8	38	88	0	153	30	11	21	37	1.88
37558525--37558564	20	2.0	20	90	4	64	27	12	12	47	1.77
37561093--37561195	40	2.6	39	77	11	109	53	1	3	40	1.30
37585766--37585945	88	2.1	88	81	6	206	34	18	8	38	1.81
37586127--37586212	8	11.2	8	73	19	51	60	0	2	37	1.10
37586435--37586460	13	2.0	13	100	0	52	38	0	23	38	1.55
37586476--37586526	10	5.1	10	74	9	50	31	1	1	64	1.15
37586476--37586557	40	2.1	39	84	6	103	31	4	1	62	1.24
37586476--37586560	19	4.4	19	73	14	66	32	4	1	61	1.24
37586995--37587021	13	2.1	13	100	0	54	37	7	14	40	1.74
37593613--37593651	21	1.9	20	89	5	60	58	0	2	38	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37593632--37593671	17	2.4	17	84	12	55	62	0	0	37	0.95
37594020--37600065	829	7.3	829	88	2	8660	30	16	16	36	1.91
37594020--37600065	415	14.6	415	88	1	8638	30	16	16	36	1.91
37599736--37600391	327	2.0	326	84	2	843	28	17	17	37	1.92
37599321--37600806	741	2.0	742	88	3	2204	29	17	16	36	1.92
37600063--37603770	416	9.0	415	87	2	5098	31	16	16	36	1.91
37607454--37607519	18	3.8	18	80	4	73	46	10	15	27	1.78
37608605--37608816	51	4.3	51	87	8	312	30	23	13	33	1.93
37608668--37608823	44	3.4	44	88	6	204	32	22	14	30	1.94
37608605--37608821	95	2.2	95	86	5	299	30	23	13	32	1.93
37610924--37610965	21	2.0	21	85	0	57	45	9	4	40	1.58
37611506--37611648	54	2.7	53	80	1	169	18	35	22	23	1.95
37612843--37612974	43	3.1	43	81	5	151	32	24	14	28	1.94
37614936--37614976	21	2.0	21	90	0	64	29	4	9	56	1.53
37619033--37619266	106	2.2	105	87	6	348	36	14	17	30	1.91
37620048--37620391	110	3.2	106	75	12	308	32	17	17	31	1.94
37624060--37624122	2	31.5	2	96	0	117	49	0	0	50	1.00
37624316--37624373	10	6.7	9	79	16	61	60	1	0	37	1.07
37624311--37624369	9	7.1	8	80	18	59	59	1	1	37	1.18
37624316--37624361	16	2.8	16	96	3	83	60	0	0	39	0.97
37624487--37624546	3	20.3	3	76	10	61	65	1	1	31	1.13
37624486--37624543	24	2.4	24	85	5	73	63	1	1	32	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37625921--37625975	23	2.3	23	80	17	60	49	1	1	47	1.23
37625930--37625977	19	2.5	20	77	16	55	54	0	0	45	0.99
37627641--37627674	15	2.3	15	94	0	59	29	0	0	70	0.87
37628599--37628815	110	2.0	110	95	0	389	33	20	15	30	1.94
37628923--37628958	18	2.1	17	89	5	54	72	8	5	13	1.27
37629285--37629335	24	2.2	24	85	3	68	58	1	3	35	1.28
37629345--37629374	3	10.0	3	92	0	51	63	0	3	33	1.11
37629677--37629731	23	2.3	23	80	17	60	49	1	1	47	1.23
37629686--37629733	19	2.5	20	77	16	55	54	0	0	45	0.99
37630311--37630429	44	2.7	44	78	10	127	26	24	18	31	1.98
37631299--37631338	18	2.2	18	86	0	53	27	2	2	67	1.16
37632275--37632321	21	2.2	21	96	0	85	70	0	17	12	1.17
37632850--37632905	23	2.4	23	80	16	62	46	1	1	50	1.22
37633364--37633445	42	2.0	42	87	0	119	36	13	29	20	1.91
37634671--37634723	23	2.3	22	78	18	54	49	1	1	47	1.23
37635666--37635758	42	2.2	42	82	1	107	17	35	12	34	1.88
37637043--37637195	22	7.0	22	90	0	225	32	14	26	26	1.94
37637264--37637318	23	2.3	23	80	17	60	47	1	1	49	1.23
37637273--37637317	22	2.1	22	84	12	58	48	0	0	51	1.00
37637768--37638028	108	2.4	110	80	6	305	33	17	19	29	1.94
37638634--37638727	42	2.2	42	86	0	125	15	32	13	37	1.88
37640120--37640174	23	2.3	23	80	17	60	49	1	1	47	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37643474--37643522	22	2.2	22	82	7	55	67	10	0	22	1.20
37644261--37644291	6	5.0	6	96	4	53	80	0	16	3	0.83
37644658--37644684	11	2.5	11	100	0	54	0	18	25	55	1.43
37645391--37647365	312	6.3	312	92	0	3076	28	20	18	32	1.96
37645808--37646936	44	25.4	44	70	15	274	28	21	18	31	1.97
37646904--37646987	44	1.9	44	85	0	114	27	22	17	32	1.97
37647134--37647293	44	3.6	44	77	9	130	27	22	18	31	1.97
37652898--37652922	11	2.3	11	100	0	50	72	8	0	20	1.10
37653010--37653072	30	2.1	30	93	0	108	57	17	3	22	1.54
37653110--37653148	11	3.5	11	85	0	51	61	5	10	23	1.48
37653154--37653196	21	2.0	22	86	4	61	69	11	4	13	1.33
37656804--37656856	22	2.5	22	88	11	83	20	30	1	47	1.61
37656806--37656856	11	4.5	11	85	9	68	21	31	1	45	1.63
37658997--37659041	21	2.1	21	84	8	56	31	40	24	4	1.75
37662359--37662649	126	2.3	126	87	0	420	27	22	18	31	1.97
37683082--37683116	19	1.9	17	88	11	52	40	0	14	45	1.45
37684612--37684682	28	2.5	28	71	13	72	63	2	0	33	1.09
37684624--37684683	19	3.0	21	76	16	65	58	1	0	40	1.08
37684623--37684685	28	2.2	28	83	5	83	57	1	0	41	1.08
37685597--37685693	48	2.0	48	97	0	185	30	11	10	47	1.73
37686275--37686304	16	1.9	16	93	6	53	40	0	6	53	1.27
37689433--37689482	24	2.1	24	89	10	77	24	12	10	54	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37694445--37694491	24	1.9	25	82	4	60	46	2	0	51	1.13
37699052--37699122	28	2.6	28	84	4	92	33	1	23	40	1.64
37699239--37699276	14	2.7	14	87	0	58	55	0	13	31	1.38
37699312--37699626	127	2.5	127	86	2	436	40	13	18	27	1.89
37699722--37699787	25	2.6	25	90	0	105	53	3	22	21	1.60
37702752--37702862	58	1.9	57	89	5	170	53	5	6	35	1.49
37705150--37705265	17	6.4	17	72	17	74	40	12	12	33	1.82
37705202--37705266	19	3.5	18	76	17	62	40	10	15	33	1.82
37705202--37705265	18	3.5	17	76	19	58	39	10	15	34	1.83
37705244--37705302	28	2.1	28	84	6	75	49	13	11	25	1.76
37705273--37705401	18	6.9	17	74	15	80	43	8	11	36	1.72
37705280--37705328	20	2.6	18	81	12	62	42	6	6	44	1.54
37705280--37705329	19	2.7	18	78	6	55	42	6	6	46	1.53
37705326--37705400	35	2.1	35	85	9	100	41	8	14	36	1.76
37705895--37705941	20	2.3	21	75	17	55	4	14	0	80	0.85
37706048--37706112	25	2.6	25	79	16	71	3	27	43	26	1.70
37706285--37706325	9	4.7	9	90	3	66	9	12	0	78	0.98
37706285--37706340	18	3.0	18	87	10	69	8	14	0	76	1.00
37706345--37706387	7	6.1	7	86	10	61	0	25	0	74	0.82
37706497--37706566	15	4.5	15	78	18	63	2	15	4	77	1.05
37706898--37706999	29	3.5	28	76	11	98	44	2	18	34	1.65
37707180--37707621	76	5.6	78	84	3	489	34	17	16	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37707180--37707621	153	2.8	156	82	5	516	34	17	16	30	1.93
37715756--37715873	19	6.2	19	72	21	86	40	12	11	35	1.79
37715753--37715871	39	3.2	37	83	9	134	39	11	11	36	1.79
37715756--37715845	17	4.9	18	72	17	69	41	12	10	36	1.76
37715900--37715934	18	1.9	18	88	0	52	45	11	5	37	1.64
37715911--37715957	23	2.0	24	88	12	71	38	6	8	46	1.60
37715890--37715970	41	2.0	41	85	2	108	44	8	8	38	1.66
37715953--37716027	35	2.1	36	85	9	100	38	10	12	38	1.77
37716628--37716692	25	2.6	24	83	13	78	4	29	43	23	1.74
37716868--37716939	12	6.5	11	77	16	60	1	18	0	80	0.78

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