genome.fa.s3.2.7.7.80.10.50.1000.47.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  47  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)
13361113--13361177	30	2.2	30	85	0	85	81	7	9	1	0.93
13361572--13361909	42	8.1	42	83	3	387	23	21	21	34	1.97
13361583--13361909	126	2.6	125	87	1	449	22	21	22	33	1.97
13362727--13362995	147	1.8	147	84	6	375	41	3	10	44	1.56
13364351--13364400	3	16.7	3	100	0	100	68	0	0	32	0.90
13371538--13371631	45	2.1	45	89	0	143	32	24	17	25	1.96
13374399--13374435	16	2.3	17	86	9	51	24	5	0	70	1.08
13374892--13375104	109	2.0	109	86	4	306	31	16	13	38	1.87
13376077--13376149	22	3.3	22	84	0	101	31	13	26	28	1.94
13381289--13381467	95	1.9	95	95	2	324	36	13	16	33	1.88
13382475--13382499	12	2.1	12	100	0	50	24	28	24	24	2.00
13399579--13399604	12	2.2	12	100	0	52	50	11	15	23	1.76
13414674--13414707	16	2.1	16	94	0	59	41	26	17	14	1.88
13417348--13417582	85	2.8	85	80	8	250	44	9	10	35	1.71
13417620--13418054	77	5.5	77	84	5	487	36	11	15	35	1.85
13417650--13418129	77	5.9	81	81	8	402	37	12	14	35	1.84
13419555--13419649	33	2.9	33	76	6	88	53	2	4	40	1.32
13419746--13419779	2	17.0	2	100	0	68	50	0	0	50	1.00
13420683--13420742	26	2.3	25	81	13	68	26	3	8	61	1.40
13435282--13435314	12	2.8	12	82	17	50	48	18	0	33	1.48
13435801--13435849	17	2.9	17	81	0	62	42	18	8	30	1.79
13435838--13435884	17	2.8	17	87	6	60	44	14	8	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13436077--13436119	20	2.2	20	100	0	86	32	34	9	23	1.87
13441539--13441588	7	7.5	6	87	12	55	18	6	0	76	0.99
13441539--13441588	14	3.7	13	82	17	66	18	6	0	76	0.99
13448573--13448781	104	2.0	104	99	0	409	32	13	16	37	1.88
13451430--13451471	17	2.4	18	84	7	52	47	14	0	38	1.44
13452558--13452659	37	2.8	37	78	0	105	28	12	21	37	1.90
13481180--13481206	14	1.9	14	100	0	54	14	25	22	37	1.93
13482525--13482570	22	2.1	22	84	8	58	41	2	8	47	1.46
13485238--13485436	30	6.7	30	77	6	154	41	14	25	19	1.88
13485246--13485317	29	2.4	30	86	2	92	43	13	27	15	1.85
13485274--13485440	90	1.9	90	88	2	255	39	13	27	19	1.89
13485274--13485468	90	2.2	90	85	3	250	38	13	28	19	1.89
13490489--13490629	28	5.1	28	87	1	203	31	20	24	23	1.98
13490735--13490809	25	2.9	26	88	4	107	38	18	22	20	1.93
13490953--13491458	27	18.9	27	81	5	413	17	18	19	43	1.88
13496315--13496354	15	2.6	15	84	4	53	50	10	17	22	1.76
13496763--13496795	17	1.9	17	100	0	66	18	12	12	57	1.64
13513087--13513137	11	4.5	11	77	18	52	78	5	1	13	1.02
13521845--13521910	13	5.1	13	83	0	87	31	9	22	36	1.86
13529858--13529906	25	2.0	25	87	0	71	18	14	48	18	1.80
13544445--13544475	15	2.0	16	93	6	55	48	6	6	38	1.55
13544532--13544724	39	5.0	38	83	3	233	17	32	16	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13544546--13544723	19	9.2	19	64	12	76	16	31	17	34	1.92
13544532--13544724	78	2.5	78	84	5	259	17	32	16	34	1.92
13546533--13546566	17	2.1	16	88	5	50	76	14	0	8	1.01
13548067--13548193	48	2.6	48	86	2	157	26	23	29	19	1.98
13552100--13552318	119	1.8	119	82	7	284	23	25	13	38	1.91
13552100--13552468	30	12.3	30	78	7	295	23	25	13	37	1.91
13553418--13553618	107	1.9	109	82	7	257	39	14	10	34	1.82
13558980--13559053	36	2.1	36	100	0	148	18	21	27	32	1.97
13559751--13559797	18	2.4	20	75	17	53	46	4	6	42	1.48
13559804--13559835	16	1.9	17	93	6	57	59	6	3	31	1.38
13559932--13559987	27	2.2	26	81	12	64	44	7	3	44	1.48
13559941--13559992	27	2.0	28	85	11	74	40	5	5	48	1.51
13560857--13560937	36	2.2	37	88	2	119	7	22	9	60	1.53
13560921--13560965	23	2.0	23	95	0	81	8	35	11	44	1.71
13568202--13568248	23	2.0	23	91	0	76	44	12	34	8	1.73
13572033--13572097	32	2.0	32	96	0	121	24	20	6	49	1.71
13582543--13582567	2	12.5	2	100	0	50	48	0	52	0	1.00
13584832--13584928	29	3.3	31	78	10	87	29	11	21	37	1.89
13584844--13584998	29	5.4	28	80	6	125	25	14	22	38	1.92
13584844--13584995	58	2.6	58	76	11	168	25	14	23	37	1.92
13585950--13585990	13	2.8	15	85	10	50	58	0	0	41	0.98
13585950--13585990	15	2.9	15	82	17	52	58	0	0	41	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13586538--13586575	14	2.7	14	91	0	58	31	18	10	39	1.85
13590607--13590698	42	2.2	42	86	3	123	22	25	22	29	1.99
13592093--13592207	25	4.6	25	78	4	92	29	18	24	27	1.98
13594259--13594375	36	3.2	36	71	7	110	38	27	16	17	1.91
13594210--13594390	73	2.5	73	85	1	238	37	27	14	20	1.92
13594601--13594629	10	3.0	10	95	5	51	37	10	0	51	1.36
13607588--13607649	29	2.2	27	86	11	81	69	0	1	29	0.98
13607583--13607649	30	2.4	28	85	9	91	68	0	1	29	0.98
13607670--13607709	5	8.2	5	89	10	57	0	45	55	0	0.99
13609026--13609092	29	2.3	29	86	0	107	29	20	16	32	1.95
13612481--13612548	33	2.1	33	86	8	95	19	0	22	58	1.39
13612595--13612643	14	3.4	14	72	5	53	48	4	12	34	1.59
13623094--13623218	64	2.0	64	100	0	250	37	18	16	28	1.92
13623196--13623808	305	2.0	305	94	0	1075	33	20	16	29	1.95
13627728--13627969	41	5.9	42	86	4	291	33	26	19	21	1.97
13628620--13628654	17	2.1	17	89	5	54	31	14	5	48	1.67
13633329--13633407	40	2.0	40	87	0	113	37	22	17	21	1.94
13633497--13633654	41	3.9	41	82	4	149	20	21	29	28	1.98
13634047--13634080	14	2.4	14	90	9	52	26	0	38	35	1.57
13635930--13635969	16	2.5	16	95	0	71	37	7	27	27	1.84
13635951--13636043	44	2.1	44	90	6	143	34	4	24	36	1.75
13636156--13636265	54	2.0	54	82	6	134	53	3	0	42	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13638630--13638680	16	3.2	16	68	15	52	49	5	29	15	1.68
13642199--13642255	25	2.2	26	81	9	64	50	1	5	42	1.35
13643022--13643091	17	3.7	17	68	23	50	34	1	5	58	1.31
13643022--13643108	41	2.2	40	87	6	122	33	1	5	59	1.28
13644664--13644693	15	1.9	16	93	6	53	13	3	3	80	0.97
13645481--13645537	27	2.1	27	86	0	78	26	38	19	15	1.92
13645536--13645572	6	6.2	6	90	9	58	16	70	0	13	1.17
13649438--13649602	62	2.6	64	81	6	194	33	7	11	47	1.67
13649465--13649601	65	2.0	69	83	9	176	32	6	11	48	1.65
13651973--13652025	26	2.0	26	82	13	65	66	15	1	16	1.35
13652691--13652717	14	1.9	14	100	0	54	11	14	0	74	1.08
13654844--13654884	21	2.0	21	85	0	55	43	4	26	24	1.74
13655611--13655659	20	2.5	20	86	0	62	57	4	6	32	1.42
13659251--13659333	27	3.1	27	76	0	85	37	12	26	24	1.90
13664246--13664536	50	5.7	50	85	4	316	26	19	30	22	1.98
13664252--13664543	150	1.9	154	83	5	387	26	20	30	22	1.98
13670257--13670544	50	5.7	50	88	4	373	25	19	31	23	1.98
13670256--13670538	148	1.9	152	86	5	412	25	19	31	23	1.98
13670262--13670602	98	3.4	98	83	4	313	25	19	30	24	1.98
13673267--13673310	22	2.0	22	90	0	70	40	6	11	40	1.68
13683414--13683447	11	3.2	11	87	8	52	64	14	11	8	1.49
13685980--13686065	46	1.9	44	85	4	118	24	19	22	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13688956--13688994	17	2.2	18	86	4	53	25	2	20	51	1.60
13690850--13690909	2	30.0	2	100	0	120	50	50	0	0	1.00
13691765--13691834	29	2.3	31	85	4	90	24	12	14	48	1.78
13692221--13692328	55	2.0	55	100	0	216	33	12	22	32	1.91
13700876--13700927	23	2.2	23	89	6	77	26	0	9	63	1.25
13700885--13700933	23	2.3	22	82	10	66	30	0	12	57	1.36
13703433--13703480	25	1.9	25	86	0	69	8	0	14	77	0.99
13706883--13706969	23	3.8	23	82	0	93	17	12	25	44	1.83
13726714--13726804	45	2.0	45	91	0	146	43	10	28	16	1.82
13728467--13728501	16	2.2	16	89	0	52	40	0	2	57	1.14

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