genome.fa.s3.2.7.7.80.10.50.1000.131.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  131  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)
39421917--39421985	25	2.8	25	93	0	120	33	18	31	15	1.93
39421969--39422041	25	2.8	27	74	15	73	32	23	26	17	1.97
39422108--39422167	25	2.4	25	94	0	102	48	18	21	11	1.80
39442310--39442373	9	7.2	9	75	10	69	51	10	3	34	1.53
39442299--39442373	27	2.8	26	76	9	89	50	13	2	33	1.55
39442299--39442373	17	4.2	17	76	8	78	50	13	2	33	1.55
39451175--39451247	24	3.0	24	75	15	78	41	21	32	4	1.72
39451183--39451330	66	2.2	66	84	2	190	40	23	31	4	1.75
39451336--39451396	30	2.0	30	83	0	77	36	21	32	9	1.86
39451438--39451486	24	2.0	24	84	0	62	32	26	30	10	1.89
39454939--39454977	20	2.0	19	85	5	51	33	0	10	56	1.33
39455916--39455998	42	2.0	42	87	0	121	34	19	16	28	1.94
39461015--39461069	25	2.2	25	86	0	74	27	14	27	30	1.95
39464797--39464823	3	9.0	3	100	0	54	33	33	0	33	1.58
39464744--39464886	72	2.0	72	95	0	259	25	34	9	30	1.88
39470618--39470809	98	2.0	93	94	6	332	28	13	18	40	1.88
39474761--39474869	57	1.9	57	100	0	218	33	24	11	30	1.91
39478647--39478702	21	2.7	21	97	0	103	26	8	35	28	1.87
39482021--39482049	5	5.8	5	100	0	58	17	0	0	82	0.66
39484616--39485437	120	6.8	120	97	0	1500	43	1	4	50	1.30
39485383--39485417	18	2.0	17	88	5	52	45	0	0	54	0.99
39485648--39485694	16	2.9	16	96	0	85	21	36	4	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39486573--39486917	29	11.8	29	91	7	556	39	9	0	50	1.36
39486573--39486917	61	5.9	58	91	6	556	39	9	0	50	1.36
39489470--39489542	21	3.4	21	86	1	101	52	19	28	0	1.46
39492136--39492162	14	1.9	14	100	0	54	66	3	7	22	1.33
39494541--39495142	204	3.0	203	88	1	839	35	18	22	22	1.95
39494541--39495144	68	8.9	68	85	0	751	35	18	22	22	1.96
39497391--39497459	21	3.3	21	70	8	59	44	21	20	13	1.85
39497401--39497518	42	2.8	41	78	10	121	45	17	19	16	1.85
39510029--39510070	22	1.9	22	90	0	66	64	0	4	30	1.14
39510369--39510417	19	2.5	20	80	12	57	32	6	6	55	1.49
39514415--39514446	2	16.0	2	100	0	64	50	0	0	50	1.00
39518865--39518892	7	4.0	7	100	0	56	71	0	0	28	0.86
39523591--39523630	22	1.9	22	85	10	57	47	10	7	35	1.65
39523590--39523636	20	2.2	22	77	7	53	51	10	6	31	1.62
39527029--39527218	98	1.9	98	94	0	335	37	24	11	27	1.89
39527482--39527506	12	2.1	12	100	0	50	60	0	8	32	1.26
39527691--39527743	2	26.5	2	96	0	97	50	1	0	47	1.12
39528410--39528478	2	34.5	2	100	0	138	50	0	0	49	1.00
39529701--39529733	14	2.4	14	100	0	66	18	18	30	33	1.94
39530087--39530535	44	10.2	44	66	13	192	25	24	19	30	1.98
39530057--39530647	132	4.5	132	95	0	1031	24	25	19	30	1.98
39542420--39542455	2	17.5	2	94	5	63	50	2	0	47	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39543691--39543723	14	2.4	14	100	0	66	18	18	30	33	1.94
39546975--39547020	23	2.1	22	84	15	60	41	8	10	39	1.71
39549879--39549951	36	2.0	36	92	5	121	20	24	19	35	1.95
39552224--39552278	3	17.3	3	85	10	65	27	36	0	36	1.57
39552280--39552309	15	2.0	15	93	0	51	33	50	0	16	1.46
39563466--39563491	13	2.0	13	100	0	52	84	0	0	15	0.62
39563445--39563522	32	2.3	35	86	8	108	70	2	1	25	1.07
39563443--39563530	32	2.8	32	81	5	99	65	2	1	30	1.12
39563862--39563903	6	7.0	6	100	0	84	33	0	0	66	0.92
39564402--39564435	2	17.0	2	100	0	68	50	0	0	50	1.00
39565362--39566029	113	5.9	114	74	6	482	30	19	23	26	1.98
39565476--39565914	228	1.9	225	78	5	472	31	19	23	25	1.98
39565454--39566110	340	1.9	340	81	5	783	30	19	22	27	1.98
39566204--39566367	90	1.8	90	94	2	294	29	3	23	43	1.69
39569234--39569386	9	17.9	9	66	16	58	47	16	4	31	1.67
39569353--39569426	37	2.0	37	94	0	130	50	14	2	32	1.58
39569435--39569467	15	2.2	15	94	0	57	39	3	3	54	1.31
39569699--39569818	25	4.6	25	70	10	80	55	13	3	28	1.54
39569765--39570009	41	6.3	41	73	19	211	46	19	3	31	1.66
39569803--39570072	25	10.7	25	80	1	297	44	20	3	31	1.69
39569803--39570072	75	3.6	75	91	3	400	44	20	3	31	1.69
39575540--39575608	21	3.3	21	70	8	59	39	21	37	1	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39575593--39575665	12	6.3	12	81	9	89	39	19	39	1	1.60
39575580--39575653	33	2.2	33	100	0	148	37	20	41	0	1.52
39576081--39576352	42	6.4	42	82	7	268	27	21	21	29	1.99
39576083--39576330	84	2.9	83	84	6	295	26	22	21	30	1.99
39577910--39577952	16	2.6	16	77	3	50	41	20	4	32	1.73
39579205--39579251	20	2.3	21	85	7	62	29	2	2	65	1.15
39580055--39580095	15	2.8	16	78	14	52	26	2	7	63	1.33
39598912--39598952	20	2.0	20	85	0	55	63	4	0	31	1.15
39599625--39599705	11	7.4	11	86	9	94	22	34	0	43	1.54
39601815--39601854	21	1.9	21	84	0	53	32	42	17	7	1.77
39605189--39605604	126	3.3	127	93	1	701	26	21	18	33	1.97
39608306--39608373	30	2.2	31	84	2	84	26	17	7	48	1.73
39609482--39609538	2	29.0	2	89	10	91	49	0	1	49	1.11
39621498--39621531	9	3.9	9	96	3	61	67	0	11	20	1.21
39625728--39625775	19	2.7	18	75	9	53	60	0	4	35	1.16
39625688--39625775	35	2.5	36	78	19	96	59	1	3	36	1.22
39626500--39626542	20	2.2	20	84	8	54	55	23	2	18	1.54
39627409--39627469	31	2.0	31	83	6	79	39	13	11	36	1.80
39631034--39631076	12	3.6	12	77	0	50	16	16	18	48	1.81
39631193--39631252	23	2.6	23	76	5	68	30	8	20	41	1.81
39635132--39635163	15	2.1	15	94	0	55	12	31	0	56	1.37
39640142--39640186	23	1.9	24	86	4	65	22	15	15	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39643195--39643224	15	2.0	15	93	0	51	26	23	10	40	1.86
39656454--39656492	17	2.3	17	86	8	53	56	5	0	38	1.22
39660654--39660698	22	2.0	22	83	8	56	35	2	2	60	1.22
39662199--39662224	3	8.7	3	100	0	52	65	0	34	0	0.93
39667337--39667401	28	2.3	28	80	15	80	56	9	9	24	1.60
39684491--39684530	2	19.5	2	94	5	71	47	0	2	50	1.14
39685800--39686083	125	2.3	125	85	3	410	27	18	23	29	1.98
39689263--39690516	22	59.4	21	67	15	393	21	0	29	48	1.56
39689264--39689358	21	4.4	21	74	11	77	17	0	29	52	1.45
39689388--39689831	7	61.9	7	66	20	77	23	0	27	47	1.57
39689398--39689488	37	2.4	37	87	1	128	20	0	27	51	1.48
39689377--39689466	15	5.6	15	70	23	67	20	0	28	51	1.48
39689381--39689488	15	7.3	15	68	14	55	19	0	29	50	1.48
39689526--39689572	15	3.2	15	81	3	60	25	0	23	51	1.49
39689561--39689678	28	4.5	26	72	16	91	24	0	24	50	1.55
39689457--39689628	84	2.0	85	83	8	217	25	0	27	46	1.53
39689527--39689688	78	2.1	79	83	5	204	25	1	24	49	1.58
39689656--39689831	15	12.2	14	66	23	66	21	1	28	48	1.60
39689777--39689845	15	4.7	15	78	10	70	21	0	27	50	1.49
39689904--39689945	15	3.0	14	76	13	50	26	0	30	42	1.55
39689866--39689963	28	3.5	26	78	12	97	25	0	32	41	1.56
39689913--39689964	14	3.7	14	79	7	61	23	0	30	46	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39690150--39690221	36	2.0	35	89	7	110	20	1	27	50	1.57
39689655--39690197	87	6.3	85	71	13	274	21	0	29	48	1.57
39690255--39690346	37	2.5	37	83	5	96	18	1	26	54	1.50
39690291--39690362	15	4.9	15	73	13	51	16	0	29	54	1.43
39690294--39690495	43	4.7	43	81	4	214	18	0	30	50	1.53
39690472--39690518	21	2.2	21	88	0	67	21	0	29	48	1.50
39690482--39690544	33	1.9	33	87	6	92	28	0	26	44	1.55
39690548--39690615	22	3.1	22	82	0	82	20	0	23	55	1.43
39690521--39690580	29	2.1	28	81	9	68	25	0	23	51	1.48
39690807--39690853	21	2.2	21	84	0	58	4	25	38	31	1.75

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