genome.fa.s3.2.7.7.80.10.50.1000.147.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  147  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)
44485832--44485868	2	18.5	2	88	0	56	43	0	5	51	1.24
44487872--44487918	19	2.5	19	96	3	87	19	14	25	40	1.90
44506954--44506992	13	2.9	13	84	3	51	0	17	2	79	0.84
44520860--44520916	27	2.1	27	83	3	71	28	1	3	66	1.18
44522323--44522543	55	4.0	55	83	0	262	26	9	17	47	1.77
44523696--44523773	37	2.2	36	84	6	97	20	11	19	48	1.79
44523726--44523905	55	3.2	55	80	5	191	25	8	17	48	1.75
44524928--44525302	123	3.0	123	90	1	579	29	15	22	32	1.95
44529480--44529513	16	2.1	17	88	5	52	73	5	2	17	1.16
44529562--44529633	3	23.0	3	78	16	67	63	2	2	30	1.22
44530326--44530365	18	2.3	18	86	4	55	77	2	10	10	1.08
44530900--44531148	21	11.3	23	84	9	274	25	0	23	50	1.55
44530899--44531124	23	10.2	23	85	7	155	26	0	23	50	1.55
44530910--44531148	44	5.5	43	86	6	306	25	0	23	50	1.53
44530910--44531148	108	2.2	110	88	6	362	25	0	23	50	1.53
44531580--44531614	18	1.9	18	100	0	70	45	5	28	20	1.73
44532271--44532299	14	2.1	14	100	0	58	58	20	0	20	1.39
44532465--44532502	20	1.9	20	84	10	51	55	7	2	34	1.43
44533425--44533545	51	2.4	51	94	0	215	46	0	25	27	1.59
44533451--44533534	29	3.1	29	61	22	74	45	0	25	29	1.54
44534301--44534361	30	2.0	31	87	12	90	54	3	4	37	1.39
44534419--44534460	21	2.0	22	85	4	59	61	0	2	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44535197--44535387	74	2.6	74	92	1	310	40	26	8	25	1.83
44535443--44535585	42	3.4	42	88	1	187	13	28	13	44	1.81
44535798--44536400	43	14.1	43	88	1	705	30	25	21	22	1.99
44535798--44536400	171	3.5	172	86	1	786	30	25	21	22	1.99
44536812--44536851	21	1.9	21	89	0	62	5	45	15	35	1.68
44536745--44536928	87	2.1	87	88	4	273	10	31	19	38	1.86
44536818--44536862	21	2.1	21	91	0	72	2	42	17	37	1.62
44542623--44542867	9	26.6	9	71	22	113	37	0	14	47	1.45
44542624--44542833	16	13.9	15	65	25	88	37	0	15	47	1.46
44542624--44542730	47	2.3	48	100	0	200	35	0	17	46	1.49
44542663--44542879	72	3.1	71	82	14	261	38	0	14	47	1.44
44542671--44542879	103	2.0	103	100	0	418	38	0	13	47	1.43
44543359--44543452	47	2.0	47	89	0	143	32	22	14	29	1.94
44544533--44544573	16	2.5	16	88	4	64	24	14	4	56	1.58
44545993--44546033	13	3.1	14	82	6	50	46	24	7	21	1.77
44553330--44553367	20	2.0	19	90	10	60	47	5	0	47	1.24
44557141--44557179	20	2.0	20	100	0	78	46	33	0	20	1.51
44560380--44560417	17	2.2	17	95	0	67	39	13	36	10	1.79
44560658--44560725	33	2.1	33	94	0	118	35	29	2	32	1.73
44562710--44563030	41	7.8	41	86	2	356	32	26	25	15	1.96
44562752--44563032	84	3.4	82	86	3	375	32	26	25	15	1.95
44563114--44563191	40	2.0	40	84	5	104	17	29	23	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44564356--44564383	2	14.0	2	100	0	56	50	0	0	50	1.00
44569131--44569189	22	2.5	24	78	13	70	49	1	6	42	1.39
44569281--44569336	29	1.9	29	85	0	76	51	1	12	33	1.50
44571069--44571121	27	2.0	26	82	14	63	9	28	1	60	1.38
44592489--44592586	47	2.1	46	87	7	137	45	12	11	30	1.76
44592512--44592608	47	2.1	47	82	7	117	49	15	7	27	1.71
44597543--44597771	55	4.2	55	84	1	262	26	9	17	46	1.78
44597543--44597773	110	2.1	110	83	1	293	26	9	16	46	1.78
44598828--44598884	28	2.0	29	93	3	98	28	26	8	36	1.86
44598999--44599138	55	2.5	55	86	3	210	22	9	17	50	1.74
44601229--44601437	74	2.8	74	87	2	292	40	27	8	24	1.83
44601490--44601626	42	3.3	42	92	0	211	14	27	13	43	1.84
44608318--44608433	57	2.0	57	98	0	223	25	35	12	25	1.92
44610219--44610265	24	2.0	24	83	8	60	70	12	4	12	1.31
44613897--44613936	17	2.4	17	91	4	64	55	10	2	32	1.47
44623209--44623281	36	2.0	36	84	5	94	27	21	20	30	1.98
44625086--44625157	33	2.2	33	82	7	85	58	4	0	37	1.18
44625117--44625145	14	2.0	15	93	6	51	62	0	0	37	0.96
44625086--44625170	33	2.7	33	79	15	81	56	3	1	38	1.24
44625345--44625402	28	2.1	27	84	9	73	51	15	6	25	1.68
44625946--44625986	20	2.0	20	95	0	73	39	9	36	14	1.79
44625949--44625993	20	2.2	20	88	0	63	46	8	31	13	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44626312--44626353	11	3.7	11	82	14	50	42	7	0	50	1.30
44627733--44627806	38	1.9	39	88	2	114	41	10	10	36	1.75
44632945--44633031	34	2.5	35	79	7	97	27	19	21	31	1.98
44637879--44638012	42	3.2	42	88	2	180	45	10	29	14	1.78
44638069--44638383	76	4.1	76	92	0	531	24	7	26	41	1.82
44644948--44644974	4	6.8	4	100	0	54	25	22	0	51	1.48
44644972--44645004	2	16.5	2	100	0	66	48	0	0	51	1.00
44646217--44646531	76	4.1	76	90	2	481	25	8	25	40	1.83
44646719--44646744	12	2.2	12	100	0	52	7	15	30	46	1.74
44646812--44647021	114	1.8	113	87	3	314	26	23	24	25	2.00
44646924--44647090	73	2.3	74	89	3	248	29	21	21	26	1.99
44648085--44648127	22	1.9	23	86	13	63	11	51	25	11	1.72
44658306--44658346	3	13.7	3	100	0	82	0	31	0	68	0.90
44658770--44658819	22	2.4	21	83	9	59	70	0	6	24	1.10
44663738--44663774	2	18.5	2	100	0	74	48	0	0	51	1.00
44665315--44665482	89	1.9	89	92	2	284	39	20	11	27	1.88
44670375--44670461	42	2.1	42	82	8	106	34	2	24	39	1.68
44672092--44672146	17	3.1	17	74	23	58	45	16	3	34	1.65
44678284--44678320	16	2.2	17	90	4	58	32	2	0	64	1.07
44679536--44679774	76	3.1	76	92	0	379	25	7	26	41	1.81
44683070--44683103	17	2.0	17	100	0	68	47	0	5	47	1.26
44683069--44683106	17	2.3	16	91	8	67	50	0	5	44	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44688926--44688988	30	2.1	30	93	0	108	28	3	11	57	1.49
44690528--44690588	9	6.9	8	76	14	50	29	0	1	68	0.99
44701363--44701398	15	2.4	15	90	0	54	38	5	33	22	1.77
44708871--44708939	20	3.5	20	70	18	72	34	2	0	62	1.10
44708895--44708963	27	2.5	26	93	4	102	30	2	0	66	1.06
44708922--44709041	11	11.9	11	68	21	50	36	2	0	60	1.10
44708922--44709041	41	3.0	40	90	7	181	36	2	0	60	1.10
44708981--44709041	31	2.0	30	87	12	88	37	3	0	59	1.14
44709307--44709356	21	2.3	22	79	3	57	18	12	6	64	1.47
44712812--44712862	17	3.1	17	72	16	52	58	3	0	37	1.16
44712822--44712879	17	3.5	17	75	13	66	60	5	1	32	1.29
44712807--44712877	33	2.2	33	92	0	115	57	4	1	36	1.27
44719166--44719204	21	2.0	21	85	10	55	33	0	10	56	1.33
44719376--44719452	31	2.5	31	78	4	75	28	15	14	41	1.86
44723385--44723409	2	12.5	2	100	0	50	48	0	0	52	1.00
44724458--44724485	12	2.3	12	100	0	56	32	21	35	10	1.88
44730174--44730210	16	2.2	18	85	9	51	64	0	21	13	1.27
44736395--44736442	25	1.9	25	86	0	69	22	8	6	62	1.46
44741678--44741708	6	5.2	6	92	0	53	51	0	35	12	1.40
44752260--44752298	16	2.4	16	87	8	53	53	10	0	35	1.35
44759670--44759696	10	2.7	10	100	0	54	29	0	0	70	0.88
44763667--44763745	39	2.0	39	100	0	158	32	10	27	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44773504--44773554	18	2.7	19	76	14	52	50	13	3	31	1.60
44778638--44778680	12	3.3	13	87	9	61	65	0	0	34	0.93
44778645--44778685	14	2.9	15	79	13	52	60	0	0	39	0.96
44778654--44778695	22	1.9	22	90	0	66	59	0	0	40	0.97
44779200--44779229	2	15.0	2	100	0	60	50	0	0	50	1.00
44793414--44793440	2	13.5	2	100	0	54	48	0	0	51	1.00
44794188--44794255	26	2.6	27	78	2	75	55	2	0	41	1.15
44794190--44794235	19	2.6	18	83	12	60	56	4	0	39	1.19
44794189--44794255	27	2.5	26	80	4	80	55	2	0	41	1.15
44794606--44794645	5	8.0	5	94	0	62	20	25	20	35	1.96

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