genome.fa.s3.2.7.7.80.10.50.1000.101.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  101  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)
31623818--31623847	16	1.9	15	93	6	51	16	0	3	80	0.85
31625519--31625567	25	1.9	25	83	4	62	14	2	10	73	1.18
31631703--31631864	69	2.3	69	87	0	225	32	25	22	18	1.97
31634646--31634853	69	3.0	68	82	2	236	33	24	22	20	1.97
31634807--31634954	50	3.0	50	81	4	172	31	26	25	16	1.97
31634904--31635292	69	5.7	69	80	3	383	31	24	23	20	1.98
31634904--31635260	137	2.6	137	81	3	421	31	23	24	20	1.98
31642077--31642159	42	2.0	42	87	0	121	48	13	8	30	1.72
31642079--31642172	42	2.3	42	83	1	109	50	14	5	29	1.65
31642190--31642229	19	2.2	18	95	4	71	42	15	2	40	1.60
31645149--31645203	26	2.1	26	96	0	101	67	9	3	20	1.34
31645161--31645204	13	3.4	13	75	12	54	65	6	2	25	1.28
31645693--31645773	42	1.9	42	89	0	126	51	14	2	30	1.55
31645693--31645784	42	2.2	42	86	3	123	54	13	2	30	1.50
31645804--31645843	19	2.2	18	90	4	62	45	12	2	40	1.56
31647254--31647294	20	2.0	21	90	4	66	17	26	9	46	1.79
31647586--31648143	195	2.9	190	80	7	603	32	17	20	29	1.96
31648911--31648956	20	2.2	21	84	3	58	17	0	34	47	1.48
31648911--31649136	7	31.7	7	69	7	96	21	1	31	45	1.62
31651150--31651190	6	6.8	6	100	0	82	17	0	17	65	1.27
31651155--31651203	18	2.5	20	90	6	75	20	0	12	67	1.22
31652097--31652494	120	3.3	120	94	0	688	42	7	2	46	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31652241--31652283	21	2.1	20	86	4	59	44	9	0	46	1.35
31652558--31652741	38	5.4	36	75	20	134	45	19	0	35	1.51
31652591--31652743	9	17.0	9	80	9	152	44	20	0	35	1.52
31652569--31652680	38	3.0	38	88	5	158	43	18	0	37	1.51
31657771--31657799	14	2.1	14	93	6	51	34	0	10	55	1.34
31659992--31660107	19	6.0	21	75	15	83	58	0	6	34	1.28
31660032--31660098	10	6.9	10	77	19	63	59	0	4	35	1.18
31660032--31660086	10	5.5	11	80	20	68	60	0	5	34	1.20
31660593--31660625	8	4.4	8	88	11	52	39	0	0	60	0.97
31664788--31664857	23	3.3	22	76	13	74	44	8	0	47	1.34
31665903--31665953	23	2.3	23	86	3	68	50	1	3	43	1.31
31669596--31669627	2	16.5	2	93	6	57	50	0	0	50	1.00
31675080--31675144	6	10.2	6	73	18	51	72	0	6	21	1.06
31690270--31690536	125	2.1	125	84	5	335	36	17	14	30	1.91
31694050--31694086	18	2.1	18	89	0	56	43	8	24	24	1.81
31694735--31694778	21	2.1	21	100	0	88	9	34	22	34	1.86
31695864--31695932	30	2.3	30	94	0	120	36	1	28	33	1.67
31698199--31698239	20	2.0	22	85	9	59	24	7	4	63	1.40
31710801--31710829	9	3.0	10	90	10	51	58	0	20	20	1.39
31710916--31710978	6	10.5	6	92	0	90	58	0	25	15	1.37
31710915--31710978	24	2.7	24	100	0	128	59	0	25	15	1.36
31714996--31715156	33	4.8	32	73	8	124	29	13	26	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31714962--31715156	33	5.8	34	72	10	123	28	13	26	30	1.94
31714963--31715168	101	2.0	101	94	0	358	29	14	26	30	1.95
31716076--31716108	16	2.0	17	88	5	50	63	21	3	12	1.41
31729630--31729684	16	3.4	16	74	18	60	47	1	29	21	1.61
31729629--31729703	32	2.3	32	95	0	132	46	2	28	22	1.65
31729646--31729700	16	3.4	16	74	18	60	47	3	29	20	1.67
31734155--31734250	39	2.5	39	94	0	165	38	14	15	31	1.88
31736293--31736328	10	3.5	10	96	3	63	19	36	33	11	1.87
31737421--31737611	98	1.9	98	97	0	364	27	10	24	37	1.88
31747937--31748253	44	7.2	43	63	16	139	29	20	25	24	1.99
31747712--31748338	132	4.8	132	93	1	1070	29	20	26	23	1.99
31750281--31750477	98	2.0	98	94	0	349	30	10	21	37	1.87
31756528--31756574	3	15.7	3	100	0	94	0	0	65	34	0.93
31756813--31756861	23	2.1	23	96	0	89	26	2	22	48	1.61
31757457--31757516	26	2.2	28	82	8	70	51	3	0	45	1.17
31758684--31758719	17	2.1	17	89	0	54	33	0	2	63	1.08
31758698--31758742	11	4.4	11	77	11	51	20	0	4	75	0.97
31759116--31759171	27	2.1	26	83	9	69	64	1	19	14	1.38
31765034--31765106	25	3.0	25	64	16	62	20	24	21	32	1.97
31764933--31765103	74	2.3	75	77	10	174	20	25	20	33	1.97
31765035--31765139	49	2.1	49	92	0	174	19	25	22	32	1.97
31767651--31767676	5	5.2	5	100	0	52	42	19	19	19	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31768649--31768685	9	4.1	9	85	0	56	32	10	10	45	1.74
31770562--31770614	27	2.0	26	85	10	72	66	1	18	13	1.34
31771187--31771247	20	3.1	19	77	13	52	47	0	1	50	1.10
31771180--31771248	22	3.1	22	77	12	70	47	0	1	50	1.09
31778308--31778529	111	2.0	111	97	0	417	28	10	27	33	1.90
31778970--31779063	28	3.2	32	83	14	98	32	22	20	24	1.97
31778980--31779063	28	3.0	28	89	6	134	32	23	20	23	1.98
31779418--31779504	27	3.2	27	80	6	70	21	13	26	37	1.91
31779429--31779626	54	3.7	53	82	5	245	22	16	20	39	1.92
31779429--31779626	27	7.3	27	83	0	198	22	16	20	39	1.92
31779429--31779626	81	2.4	81	82	1	236	22	16	20	39	1.92
31783070--31783234	44	3.6	44	72	12	152	29	21	16	31	1.96
31783012--31783236	94	2.4	94	85	1	281	27	21	17	33	1.96
31783053--31783260	94	2.2	93	82	1	272	27	21	16	33	1.95
31794689--31794715	14	1.9	14	100	0	54	14	0	3	81	0.82
31798006--31798198	50	3.8	50	87	0	269	21	30	22	25	1.98
31810320--31810368	19	2.6	18	78	9	53	48	0	8	42	1.32
31810847--31810949	29	3.6	28	76	12	77	46	30	0	22	1.58
31811424--31811631	40	5.2	39	83	5	211	24	22	20	32	1.98
31814481--31814636	40	3.9	40	84	0	177	28	19	21	30	1.97
31819622--31819655	12	2.8	12	90	0	50	32	8	0	58	1.29
31824555--31824584	12	2.5	12	100	0	60	36	13	0	50	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31832260--31832311	24	2.2	24	83	10	63	61	11	1	25	1.40
31832256--31832320	25	2.7	24	79	9	71	63	9	1	26	1.34
31834584--31834616	2	16.5	2	100	0	66	51	0	0	48	1.00
31834752--31834803	20	2.6	19	79	8	59	32	0	0	67	0.91
31849557--31849600	22	2.0	23	90	4	72	34	6	15	43	1.74
31851635--31851726	46	2.0	46	97	0	175	19	11	19	48	1.79
31853553--31853609	28	2.0	28	100	0	114	40	3	10	45	1.56
31854039--31854103	31	2.1	31	85	5	87	36	10	13	38	1.80
31854257--31854306	26	2.0	24	84	7	64	48	0	4	48	1.20
31856087--31856119	2	16.5	2	100	0	66	0	48	0	51	1.00
31857506--31857627	61	2.0	61	100	0	244	42	9	11	36	1.74
31865692--31865855	27	5.8	27	76	13	143	20	15	21	42	1.88
31865757--31865823	35	1.9	35	90	0	107	20	16	17	44	1.86
31865725--31865842	62	1.9	62	91	3	193	20	16	20	43	1.88
31871512--31871682	43	4.0	42	81	13	206	21	17	28	32	1.96
31871527--31871682	84	1.9	84	87	5	235	22	17	29	30	1.97
31871843--31871874	16	1.9	17	93	6	57	40	0	21	37	1.54
31872581--31872610	2	14.5	2	93	6	51	46	0	3	50	1.18
31875624--31875681	24	2.5	24	85	2	73	39	18	18	22	1.92
31884373--31884406	12	2.8	12	100	0	68	67	14	0	17	1.23
31884370--31884412	12	3.6	11	90	9	59	67	16	0	16	1.24
31884370--31884430	18	3.4	18	85	14	74	65	16	1	16	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31884398--31884431	12	2.8	12	86	4	50	67	14	2	14	1.34
31885969--31886010	14	3.1	14	82	3	50	71	0	4	23	1.05
31886209--31886262	5	11.4	5	84	15	71	77	0	0	22	0.76
31886209--31886261	19	2.8	18	81	18	72	77	0	0	22	0.77
31886217--31886266	23	2.2	21	86	13	73	78	0	0	22	0.76
31893121--31893252	59	2.2	58	82	7	160	48	3	0	47	1.22
31893239--31893303	33	2.0	33	96	0	121	40	0	1	58	1.07
31896622--31896686	16	4.1	16	95	0	112	36	3	33	26	1.72
31896624--31896690	32	2.1	32	97	0	125	35	1	34	28	1.67
31896675--31896767	44	2.1	44	82	6	107	32	2	27	37	1.69

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