genome.fa.s3.2.7.7.80.10.50.1000.103.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  103  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)
32267311--32267346	16	2.2	16	100	0	72	50	5	11	33	1.61
32272235--32272288	22	2.3	24	78	15	60	35	3	7	53	1.47
32284635--32284673	18	2.2	18	90	4	62	53	2	0	43	1.14
32284645--32284748	39	2.7	37	78	12	102	62	3	0	33	1.13
32284690--32284748	18	3.3	18	73	13	59	62	5	0	32	1.17
32287627--32287668	3	14.0	3	100	0	84	33	0	0	66	0.92
32288331--32288416	44	2.0	44	92	0	145	40	11	17	30	1.85
32290404--32290517	57	2.0	57	100	0	228	40	15	8	35	1.79
32297236--32297268	14	2.3	15	85	15	52	48	18	0	33	1.48
32302664--32302712	8	6.0	8	77	13	55	12	14	2	71	1.23
32302660--32302703	17	2.6	17	82	13	56	9	15	2	72	1.19
32302778--32302815	20	1.9	20	88	0	58	34	2	0	63	1.09
32303934--32303986	27	2.0	27	100	0	106	30	3	15	50	1.61
32314534--32314563	10	3.0	10	95	0	51	50	3	10	36	1.53
32314547--32314687	55	2.6	55	98	0	273	45	4	11	38	1.62
32314693--32315031	29	11.6	29	90	6	549	27	1	27	43	1.62
32314693--32315031	59	5.8	58	90	6	549	27	1	27	43	1.62
32314693--32315031	88	3.9	87	94	3	549	27	1	27	43	1.62
32315001--32315053	23	2.7	18	85	14	61	28	0	20	50	1.48
32315055--32315236	71	2.5	71	94	0	319	45	14	3	36	1.64
32316324--32316348	7	3.6	7	100	0	50	60	12	0	28	1.32
32332167--32332197	9	3.4	9	90	0	53	25	12	22	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32339421--32339472	24	2.2	24	96	0	95	28	3	46	21	1.69
32340400--32340442	13	3.1	14	84	12	54	60	0	0	39	0.97
32340766--32340813	19	2.5	19	96	0	87	58	8	2	31	1.39
32344228--32344285	22	2.6	22	81	7	64	41	17	5	36	1.72
32344936--32345428	45	11.1	44	71	10	306	26	23	19	30	1.98
32344945--32345428	87	5.5	87	76	11	369	27	23	19	30	1.98
32345129--32345374	132	1.9	132	88	0	375	26	27	19	26	1.99
32351936--32351981	11	4.1	11	82	2	56	19	28	2	50	1.60
32351936--32352041	22	5.0	21	68	22	69	24	27	1	46	1.63
32351959--32352057	50	2.0	50	88	6	146	25	26	2	46	1.64
32351945--32352044	11	9.6	10	71	22	57	23	28	2	47	1.63
32353873--32353909	18	2.1	18	89	0	56	21	27	8	43	1.80
32356366--32356423	22	2.6	22	81	7	64	41	17	5	36	1.72
32358182--32358231	23	2.1	23	82	10	57	8	10	14	68	1.40
32359175--32359208	17	1.9	18	88	5	52	32	0	8	58	1.29
32359173--32359216	18	2.4	18	77	11	54	29	0	9	61	1.27
32365875--32365933	28	2.0	31	83	9	79	44	0	5	50	1.24
32366826--32366971	41	3.4	44	74	14	144	26	18	26	28	1.98
32366815--32366947	45	3.0	43	78	11	139	24	17	26	31	1.97
32366950--32366995	24	1.9	24	100	0	92	32	21	23	21	1.98
32369217--32369251	16	2.1	17	89	5	54	51	5	0	42	1.25
32369360--32369399	21	1.9	21	89	0	62	37	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32374346--32374466	40	3.0	37	72	20	109	37	4	1	56	1.31
32380954--32381028	37	2.0	37	97	0	141	37	14	8	40	1.76
32384004--32384296	129	2.3	129	96	1	543	32	23	17	27	1.96
32384064--32384518	172	2.6	172	85	8	595	30	23	18	27	1.98
32384004--32384473	44	10.9	44	69	14	248	30	23	18	27	1.97
32384445--32384562	44	2.7	44	82	13	161	27	27	19	26	1.99
32384268--32384560	89	3.4	88	73	11	298	27	24	19	27	1.99
32384269--32384562	45	6.7	45	71	19	178	27	25	19	27	1.99
32386575--32386605	13	2.4	13	94	0	53	41	16	38	3	1.64
32398130--32398154	12	2.1	12	100	0	50	24	36	24	16	1.94
32398315--32398407	9	10.2	9	81	2	105	39	26	10	22	1.87
32402387--32402419	2	16.5	2	93	0	57	51	0	0	48	1.00
32408264--32408301	20	1.9	20	94	0	67	50	0	0	50	1.00
32408399--32408487	39	2.2	40	92	5	146	39	0	5	55	1.24
32414559--32414608	26	1.9	26	83	0	64	36	0	10	54	1.34
32421748--32421781	17	2.0	17	94	0	59	55	5	14	23	1.61
32422207--32422260	21	2.6	21	87	0	81	25	38	0	35	1.57
32439892--32439933	18	2.3	19	91	4	68	42	0	4	52	1.22
32449198--32449693	166	3.0	165	88	1	749	28	23	19	28	1.99
32468355--32468399	20	2.3	20	88	3	65	64	15	4	15	1.44
32468592--32468641	26	1.9	26	91	0	82	34	14	4	48	1.62
32474351--32474405	16	3.4	16	78	9	51	34	10	9	45	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32474481--32474522	16	2.6	16	84	0	57	40	23	9	26	1.85
32474686--32474728	15	2.9	15	86	6	52	44	9	4	41	1.57
32474686--32474715	15	1.9	16	93	6	53	43	10	6	40	1.64
32480235--32480278	17	2.6	17	85	7	54	18	40	25	15	1.90
32482597--32482832	39	6.1	39	82	0	256	31	5	18	44	1.74
32482595--32482829	117	2.0	117	83	0	299	30	5	18	44	1.74
32487032--32487076	21	2.1	21	100	0	90	37	4	15	42	1.67
32487294--32487363	29	2.4	29	90	2	106	35	1	12	50	1.50
32488243--32488284	21	2.0	21	95	0	75	35	4	16	42	1.69
32488247--32488292	21	2.2	21	88	0	65	41	4	15	39	1.67
32488254--32488297	21	2.2	20	84	8	54	47	4	11	36	1.60
32488763--32488838	29	2.6	29	83	10	91	34	1	13	51	1.49
32489848--32489892	21	2.1	21	92	8	74	42	4	13	40	1.64
32492828--32492898	25	2.8	25	89	0	88	32	23	22	21	1.98
32492828--32492909	25	3.3	25	84	0	74	32	21	23	21	1.98
32494468--32494575	17	6.4	17	71	0	90	27	7	17	47	1.74
32500506--32500540	6	5.8	6	100	0	70	14	17	0	68	1.21
32501186--32501241	29	1.9	29	81	0	67	26	14	17	41	1.88
32501370--32501438	22	3.1	22	89	0	102	31	26	0	42	1.56
32501445--32501483	21	1.9	20	85	15	53	35	30	0	33	1.58
32501391--32501490	52	1.9	52	85	4	139	33	29	0	38	1.58
32501527--32501591	29	2.2	29	89	5	96	35	0	1	63	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32501542--32501585	21	2.2	20	84	11	56	34	0	0	65	0.93
32501682--32501715	15	2.3	15	90	5	52	26	0	5	67	1.13
32505008--32505289	126	2.2	125	87	6	392	31	21	16	29	1.95
32510893--32510956	32	2.0	32	93	0	110	26	26	3	43	1.69
32515280--32515382	39	2.6	41	89	7	135	32	13	17	36	1.89
32515294--32515382	39	2.3	39	94	1	153	31	15	15	37	1.90
32515404--32515467	32	2.0	32	93	0	110	26	26	3	43	1.69
32518351--32518403	28	1.9	27	88	3	79	32	22	24	20	1.98
32518355--32518415	28	2.2	28	84	0	77	39	22	19	18	1.92
32518573--32518637	27	2.4	27	92	2	105	33	23	23	20	1.97
32518840--32518891	27	1.9	27	92	0	86	26	19	19	34	1.95
32522293--32522372	36	2.2	36	84	4	108	26	5	21	47	1.71
32522299--32522367	18	3.9	17	81	7	75	26	4	23	46	1.71
32523709--32523747	20	2.0	20	100	0	78	41	5	15	38	1.69
32524311--32524344	15	2.3	15	95	5	61	26	32	8	32	1.87
32535513--32535542	15	2.0	15	93	0	51	30	26	6	36	1.82
32547401--32547480	39	2.1	39	85	0	106	40	22	8	28	1.84
32548713--32548763	22	2.3	22	83	6	59	47	11	13	27	1.78
32551428--32551495	34	2.0	34	100	0	136	17	23	14	44	1.86
32553398--32553448	24	2.1	24	100	0	102	11	43	11	33	1.78
32560481--32560551	27	2.6	27	77	4	81	33	22	16	26	1.96
32565776--32565831	19	3.2	19	65	19	57	19	26	10	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32565928--32565970	18	2.5	17	82	10	52	27	11	20	39	1.88
32566110--32566154	16	2.8	16	79	0	54	26	17	15	40	1.90
32566239--32566271	16	2.1	16	94	0	57	42	24	9	24	1.83
32568271--32568296	12	2.2	12	100	0	52	7	0	23	69	1.14
32576787--32576866	21	3.8	21	85	3	108	45	17	21	16	1.86
32579187--32579330	46	3.1	46	81	4	164	31	21	18	28	1.97
32583338--32583368	3	10.3	3	100	0	62	67	0	0	32	0.91
32587147--32587177	5	6.2	5	92	0	53	41	16	19	22	1.89
32587267--32587292	5	5.2	5	100	0	52	38	19	19	23	1.93
32588083--32588119	9	4.1	9	92	0	65	29	10	13	45	1.77

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