genome.fa.s3.2.7.7.80.10.50.1000.112.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  112  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)
34758121--34758259	9	14.3	9	70	14	64	23	2	16	57	1.50
34758116--34758305	38	4.9	38	78	10	197	25	2	15	57	1.49
34761715--34761746	14	2.3	14	94	0	55	12	3	21	62	1.43
34763098--34763150	23	2.2	24	77	16	56	67	1	15	15	1.31
34765067--34765102	17	2.1	18	89	5	56	66	2	0	30	1.06
34776869--34776911	15	2.8	15	78	3	50	72	0	23	4	1.04
34788670--34788698	12	2.3	13	94	5	51	51	0	41	6	1.28
34791271--34791295	10	2.5	10	100	0	50	76	0	8	16	1.02
34791316--34791353	19	2.0	20	89	5	60	55	0	2	42	1.14
34792590--34792666	22	3.5	22	78	1	84	54	1	0	44	1.08
34792725--34792781	13	4.2	13	75	6	51	56	3	1	38	1.27
34792847--34792902	27	2.1	27	84	12	73	75	7	12	5	1.18
34797092--34797160	29	2.4	28	90	7	111	28	20	26	24	1.99
34797503--34797562	19	3.2	19	63	13	52	35	3	18	43	1.67
34797486--34797562	37	2.1	37	100	0	154	35	2	18	44	1.63
34799644--34799677	13	2.6	13	90	0	50	0	5	17	76	0.98
34814740--34814770	9	3.4	9	95	0	53	22	0	0	77	0.77
34814977--34815032	19	2.9	19	69	10	51	37	0	3	58	1.15
34816419--34816460	8	5.4	8	81	13	52	28	0	0	71	0.86
34817934--34817959	5	5.2	5	100	0	52	19	0	0	80	0.71
34818432--34818509	41	1.9	41	89	0	120	23	20	29	26	1.99
34818534--34818593	30	2.0	31	87	9	88	33	18	20	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34818965--34818999	15	2.4	14	86	9	52	22	0	37	40	1.55
34818986--34819026	21	2.0	20	85	4	55	19	0	41	39	1.52
34819014--34819073	22	2.7	22	86	0	84	25	0	41	33	1.55
34819247--34819295	14	3.4	15	83	8	66	28	0	32	38	1.57
34819282--34819322	21	2.0	20	85	4	55	19	0	41	39	1.52
34822971--34823078	44	2.5	44	82	8	132	24	13	26	35	1.93
34823080--34823175	43	2.2	43	90	0	147	20	16	30	32	1.95
34822969--34823179	107	2.0	109	86	3	302	22	15	27	34	1.95
34825113--34825170	17	3.1	17	71	21	53	44	5	20	29	1.73
34827378--34827410	16	2.0	17	88	5	50	30	6	3	60	1.36
34828515--34828543	14	2.1	14	100	0	58	51	13	0	34	1.42
34830616--34830669	27	2.0	27	100	0	108	33	18	18	29	1.95
34835700--34835817	57	2.1	58	88	1	175	44	6	18	29	1.75
34840577--34840675	39	2.5	39	91	0	162	23	11	21	44	1.84
34841002--34841038	19	1.9	19	100	0	74	32	32	8	27	1.86
34843739--34843804	21	3.1	21	82	8	89	27	27	22	22	1.99
34845298--34845337	19	2.1	19	86	9	55	20	25	35	20	1.96
34848956--34849083	41	3.1	41	80	2	150	27	27	21	23	1.99
34853051--34853076	11	2.4	11	100	0	52	30	0	0	69	0.89
34854297--34854379	42	2.0	43	87	2	123	24	16	25	33	1.96
34854299--34854390	42	2.2	42	82	2	103	28	17	23	30	1.97
34856043--34856075	16	2.0	17	88	5	50	27	3	18	51	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34864074--34864149	29	2.7	29	80	12	86	32	3	2	60	1.29
34864124--34864169	19	2.4	19	92	0	74	32	6	0	60	1.22
34864236--34864262	12	2.2	12	100	0	54	14	7	0	77	0.97
34864266--34864486	89	2.5	90	84	4	286	33	8	22	35	1.85
34864727--34864784	10	6.4	9	74	20	50	36	0	0	63	0.94
34867673--34867708	2	18.0	2	94	0	63	50	2	0	47	1.15
34867754--34867794	16	2.6	16	81	18	50	34	4	2	58	1.32
34872536--34872564	11	2.7	11	94	5	51	55	0	0	44	0.99
34872538--34872635	43	2.3	42	79	12	110	46	3	1	48	1.24
34873733--34873775	22	2.0	22	100	0	86	23	25	13	37	1.92
34878149--34878200	3	17.0	3	84	11	70	61	0	5	32	1.20
34878143--34878194	18	2.9	18	81	16	63	59	0	7	32	1.26
34879528--34879634	44	2.4	44	87	0	151	22	22	22	32	1.98
34879671--34880887	89	13.6	88	79	5	1118	31	22	15	30	1.95
34879671--34880863	134	8.9	134	86	2	1259	30	22	15	31	1.95
34879648--34880887	223	5.6	220	80	4	1099	30	22	15	30	1.95
34879672--34880887	45	27.2	45	79	3	1098	31	22	15	30	1.95
34882176--34882226	13	3.8	13	75	14	50	13	19	0	66	1.24
34882179--34882242	28	2.2	29	86	13	89	15	20	0	64	1.30
34882176--34882243	7	9.6	7	74	15	59	14	19	0	66	1.26
34887052--34887097	22	2.0	23	87	4	67	58	0	8	32	1.28
34887509--34887557	21	2.3	21	89	3	71	55	0	12	32	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34892303--34892376	21	3.6	21	87	7	116	37	10	10	40	1.75
34892314--34892377	19	3.3	19	93	4	101	37	14	9	39	1.78
34892580--34892678	44	2.2	45	83	5	121	29	25	16	29	1.96
34892713--34893413	44	15.9	44	63	15	187	25	24	19	30	1.98
34892669--34893456	132	6.0	132	94	1	1310	25	24	19	30	1.98
34894723--34894772	7	6.7	7	80	8	55	12	14	2	72	1.22
34894723--34894772	15	3.4	14	78	13	55	12	14	2	72	1.22
34894717--34894762	23	2.1	22	88	8	67	13	13	0	73	1.09
34894721--34894774	23	2.3	23	84	6	65	12	14	1	70	1.25
34899778--34899816	16	2.4	16	82	0	51	46	2	10	41	1.51
34899829--34900008	68	2.9	61	86	8	247	38	5	10	46	1.59
34899892--34899919	9	3.1	9	100	0	56	32	0	10	57	1.33
34899808--34899978	68	2.5	68	96	1	310	39	4	9	47	1.55
34900075--34900118	24	1.9	24	90	9	74	61	2	0	36	1.09
34903910--34903940	15	2.1	15	93	0	53	35	9	9	45	1.70
34907309--34907376	16	4.2	16	96	0	127	38	35	0	26	1.57
34908909--34908984	21	3.7	21	82	7	111	38	11	7	42	1.71
34908922--34908985	19	3.3	19	86	4	83	39	14	6	40	1.71
34911044--34911079	18	2.0	18	88	0	54	25	8	0	66	1.19
34911088--34911141	25	2.1	26	83	10	67	31	9	0	59	1.29
34912684--34912712	14	2.1	14	100	0	58	44	0	20	34	1.52
34917215--34918341	89	12.7	89	88	3	1579	30	17	23	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34917217--34918370	133	8.7	133	77	4	1038	31	17	23	27	1.97
34920140--34920177	19	2.0	19	89	0	58	23	7	0	68	1.16
34920186--34920239	25	2.1	26	86	10	76	31	7	0	61	1.24
34921717--34921810	48	2.0	48	89	4	145	19	14	25	40	1.90
34925723--34925758	17	2.0	19	89	10	58	38	0	0	61	0.96
34928986--34929019	11	3.2	11	83	8	52	11	11	8	67	1.42
34934876--34935009	57	2.3	57	85	3	180	43	0	2	52	1.21
34935175--34935213	16	2.4	16	86	0	51	28	20	7	43	1.79
34940661--34940707	18	2.5	20	76	13	55	51	10	0	38	1.37
34942443--34942473	9	3.4	9	90	0	53	25	12	22	38	1.90
34942526--34942562	9	4.1	9	92	0	65	45	13	10	29	1.77
34943476--34943501	5	5.2	5	100	0	52	23	19	19	38	1.93
34945977--34946042	34	1.9	35	87	3	98	42	15	9	33	1.78
34946506--34946648	72	2.0	72	91	2	234	28	19	16	34	1.94
34954455--34954751	50	5.8	50	83	3	292	28	21	27	22	1.99
34961433--34961627	50	3.9	50	86	1	255	26	23	29	20	1.99
34961433--34961627	101	1.9	100	85	1	264	26	23	29	20	1.99
34961440--34961676	50	4.8	49	83	3	154	27	23	27	21	1.99
34963272--34963333	31	2.0	31	100	0	124	32	9	16	41	1.80
34968377--34968546	87	1.9	87	82	8	207	32	18	19	28	1.96
34968421--34968760	88	3.8	87	75	10	294	30	20	21	27	1.98
34968471--34968760	44	6.4	44	73	7	170	30	20	22	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34968465--34968760	132	2.2	135	80	10	336	30	20	21	27	1.98
34969844--34969893	23	2.2	23	85	0	64	40	20	12	28	1.87
34972799--34972851	23	2.3	23	83	3	61	35	7	5	50	1.54
34972853--34972928	2	39.5	2	70	12	52	42	6	1	50	1.37
34972846--34972928	27	3.0	27	73	18	73	42	6	1	50	1.34
34973311--34973453	72	2.0	73	92	1	243	27	16	18	37	1.92
34973954--34973993	21	2.0	20	86	13	57	37	7	0	55	1.29
34973954--34974006	20	2.6	20	79	11	54	35	7	0	56	1.28
34975165--34975296	59	2.3	59	90	1	203	37	12	14	36	1.83
34975164--34975278	40	3.0	40	92	5	184	38	12	14	34	1.84

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