genome.fa.s3.2.7.7.80.10.50.1000.28.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  28  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)
7244050--7244134	35	2.5	34	75	21	88	42	1	5	50	1.34
7246544--7246580	15	2.6	14	87	8	56	43	10	8	37	1.69
7249399--7249424	2	13.0	2	100	0	52	50	0	0	50	1.00
7253885--7253948	30	2.2	28	83	5	74	54	0	3	42	1.16
7256267--7256314	18	2.7	18	83	6	62	25	10	16	47	1.78
7260440--7260636	104	1.9	104	89	0	304	24	23	29	21	1.99
7266124--7266203	6	13.8	6	78	12	51	1	26	0	72	0.92
7266136--7266173	20	1.9	20	88	0	58	2	23	0	73	0.95
7266164--7266201	3	12.7	3	100	0	76	0	31	0	68	0.90
7266910--7267210	92	3.0	102	77	14	320	25	21	29	23	1.99
7267766--7267808	23	1.9	22	86	13	61	25	23	13	37	1.92
7276127--7276176	20	2.4	21	83	12	68	60	8	0	32	1.26
7276128--7276236	21	5.2	20	76	12	69	59	3	1	34	1.26
7276149--7276241	20	4.4	20	72	17	57	59	2	3	35	1.26
7276128--7276254	64	2.0	64	81	6	150	55	3	3	37	1.31
7281899--7282002	41	2.5	42	84	1	120	28	19	23	28	1.98
7298136--7298165	15	2.0	15	100	0	60	33	13	13	40	1.83
7305873--7305925	17	3.1	17	88	0	70	11	11	33	43	1.76
7307904--7307935	16	1.9	17	93	6	57	25	9	28	37	1.87
7308777--7308801	11	2.3	11	100	0	50	40	8	0	52	1.31
7308761--7308909	40	3.7	40	90	5	221	33	3	0	63	1.11
7308798--7308859	9	6.4	9	72	20	54	27	1	0	70	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7313153--7313551	43	9.3	43	86	1	518	25	20	25	28	1.99
7313140--7313543	128	3.2	128	86	3	521	25	20	25	28	1.99
7313153--7313551	85	4.7	86	87	2	518	25	20	25	28	1.99
7314981--7315026	17	2.7	17	89	0	74	13	13	32	41	1.82
7321555--7321756	46	4.5	46	94	1	347	28	23	15	33	1.95
7332090--7332141	22	2.4	22	83	6	61	23	21	25	30	1.99
7332874--7332911	19	2.0	19	89	0	58	63	5	0	31	1.17
7341368--7341400	16	2.1	16	100	0	66	36	6	6	51	1.51
7344789--7344870	22	3.6	22	71	3	65	24	28	24	23	2.00
7345983--7346183	100	2.0	99	97	0	375	39	18	9	31	1.84
7365388--7365437	22	2.3	22	79	6	57	56	12	16	16	1.68
7368767--7368807	22	1.9	21	85	5	55	19	2	4	73	1.13
7376632--7376801	54	3.1	54	82	0	196	27	23	27	21	1.99
7378438--7378574	74	1.9	73	86	3	195	33	24	4	37	1.75
7392606--7392675	31	2.3	31	97	0	131	45	8	17	28	1.77
7393600--7393634	18	1.9	18	94	0	61	22	2	0	74	0.95
7393588--7393636	14	3.4	15	76	18	50	24	2	2	71	1.07
7397240--7397471	42	5.5	43	76	4	168	24	16	18	40	1.91
7407017--7407061	7	6.6	7	97	2	83	42	0	0	57	0.98
7407076--7407110	17	2.1	17	94	0	61	25	11	11	51	1.71
7408288--7408425	47	2.9	47	82	2	170	44	7	22	25	1.78
7411310--7411336	14	1.9	14	100	0	54	29	29	7	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7418105--7418143	18	2.2	18	95	0	69	30	28	7	33	1.85
7426210--7426270	28	2.2	28	91	5	97	32	21	14	31	1.93
7431339--7431391	25	2.1	26	86	10	74	22	28	0	49	1.50
7432507--7432543	14	2.4	16	82	13	51	10	8	2	78	1.06
7432511--7432543	15	2.3	15	89	5	50	9	9	3	78	1.05
7434892--7434942	12	4.1	12	72	18	50	45	1	1	50	1.24
7434897--7434938	21	2.0	21	85	0	57	42	2	2	52	1.27
7441815--7441844	12	2.5	12	94	0	51	26	36	26	10	1.88
7453850--7453909	28	2.1	28	87	0	84	45	10	15	30	1.78
7463385--7463434	16	3.1	16	100	0	100	26	0	36	38	1.57
7463415--7463505	45	2.0	45	85	2	121	27	6	28	37	1.82
7463650--7463704	15	3.4	16	80	16	53	54	1	0	43	1.10
7463656--7463704	16	2.9	18	80	20	61	55	0	0	44	0.99
7463557--7463878	156	2.1	156	96	0	590	43	3	6	45	1.47
7463806--7463860	15	3.4	16	80	16	53	50	1	1	45	1.22
7463826--7463860	18	2.0	17	88	5	52	54	0	0	45	0.99
7463743--7464008	137	1.9	138	90	2	419	44	3	4	47	1.41
7463764--7464042	137	2.0	135	81	8	323	45	5	3	45	1.45
7467184--7467247	33	1.9	33	87	0	92	29	10	18	40	1.85
7467324--7467368	18	2.5	18	100	0	90	20	0	28	51	1.48
7467272--7467420	70	2.1	70	100	0	298	24	5	22	47	1.72
7467240--7467350	52	2.2	51	98	1	213	25	7	20	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7467240--7467464	122	1.9	120	95	3	407	27	6	19	46	1.74
7467342--7467464	51	2.4	52	94	4	214	27	5	19	47	1.72
7475267--7475295	13	2.2	13	100	0	58	48	13	6	31	1.69
7476252--7476651	41	9.6	40	82	7	433	34	25	17	23	1.96
7476248--7476650	84	4.8	84	90	1	589	33	25	17	23	1.96
7478147--7478184	20	1.9	19	89	5	58	63	2	2	31	1.22
7479692--7479754	30	2.1	30	82	5	74	41	4	14	39	1.67
7480043--7480114	31	2.3	31	82	0	90	34	9	8	47	1.67
7480241--7480297	29	1.9	30	89	3	89	47	15	8	28	1.75
7480902--7480942	2	21.0	2	95	5	75	48	0	0	51	1.00
7502437--7502466	15	1.9	16	93	6	53	30	33	0	36	1.58
7503963--7504055	46	2.0	46	97	0	177	44	3	21	31	1.68
7505705--7505743	18	2.2	18	95	0	69	46	17	15	20	1.84
7527450--7527481	14	2.3	14	100	0	64	34	6	18	40	1.76
7530476--7530758	27	10.5	27	82	1	273	19	16	20	43	1.88
7530476--7530756	81	3.5	81	85	0	364	18	16	20	43	1.88
7534257--7534283	12	2.2	12	100	0	54	55	14	14	14	1.70
7535312--7535336	13	1.9	13	100	0	50	52	0	0	48	1.00
7545200--7545471	39	6.9	39	91	0	391	30	4	21	44	1.71
7545425--7545456	16	1.9	17	93	6	57	31	6	18	43	1.75
7548651--7548734	35	2.4	36	89	4	134	46	16	3	33	1.64
7558261--7558303	11	3.9	11	78	9	52	25	4	6	62	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7558260--7558301	21	2.0	21	90	4	66	26	4	7	61	1.42
7561293--7561426	41	3.3	41	85	2	171	35	15	26	21	1.94
7578406--7578484	30	2.6	30	78	4	79	25	29	15	30	1.96
7578470--7578548	29	2.6	31	76	15	101	18	22	10	48	1.78
7578472--7578675	60	3.4	60	70	14	170	21	22	14	41	1.89
7578530--7578723	30	6.5	31	72	15	133	23	24	14	37	1.92
7578607--7578662	29	1.9	29	88	0	85	16	28	16	39	1.89
7578530--7578723	60	3.3	58	73	11	169	23	24	14	37	1.92
7578460--7578723	119	2.2	119	85	0	366	22	23	14	39	1.91
7581481--7581615	41	3.3	41	81	4	164	36	13	26	23	1.92
7581532--7581598	20	3.3	19	69	19	55	35	16	31	16	1.91
7582053--7582113	27	2.3	27	91	2	97	36	24	9	29	1.88
7582851--7582891	22	2.0	21	90	9	66	43	24	0	31	1.54
7589344--7589451	53	2.0	53	96	0	198	41	21	9	27	1.83
7593847--7593871	13	1.9	13	100	0	50	0	20	0	80	0.72
7606558--7606582	5	5.0	5	100	0	50	20	0	0	80	0.72
7610482--7610564	38	2.2	39	84	6	107	46	2	3	46	1.33
7610784--7610846	16	3.9	15	73	19	56	23	23	4	47	1.70
7610787--7610848	32	1.9	32	90	6	99	24	24	3	48	1.66
7614424--7614547	61	2.0	61	82	1	149	44	15	2	37	1.60
7616891--7616999	4	27.2	4	100	0	218	25	0	24	49	1.50
7622174--7622337	51	3.2	51	96	0	303	28	25	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7627562--7627680	51	2.4	50	92	1	193	26	24	15	33	1.95
7630090--7630197	33	3.3	34	77	16	88	26	23	21	28	1.99
7630121--7630197	33	2.4	32	81	14	95	25	22	22	29	1.99
7635067--7635131	25	2.6	25	80	4	69	43	13	10	32	1.79
7639920--7639973	24	2.2	24	100	0	108	50	7	3	38	1.48
7640795--7640991	100	2.0	100	97	0	376	23	12	34	29	1.91
7642052--7642087	2	18.0	2	100	0	72	0	0	50	50	1.00
7643297--7643339	17	2.6	16	78	10	50	13	4	20	60	1.51
7643356--7643492	66	2.1	66	91	2	222	40	18	7	33	1.79
7652046--7652299	103	2.5	103	90	4	404	29	29	20	19	1.97

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