genome.fa.s3.2.7.7.80.10.50.1000.10.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  10  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)
2871697--2871730	14	2.3	15	85	5	52	50	0	0	50	1.00
2873139--2873239	3	33.3	3	82	5	123	60	1	3	33	1.26
2873296--2873346	23	2.2	23	86	6	68	74	5	5	13	1.19
2877443--2877490	18	2.7	18	100	0	96	35	14	12	37	1.84
2877937--2878100	72	2.3	72	84	6	208	25	5	13	56	1.59
2879490--2879531	3	14.0	3	85	9	50	33	4	33	28	1.78
2884816--2884845	12	2.6	12	94	5	53	40	0	6	53	1.27
2893062--2893243	51	3.6	51	95	0	328	28	23	15	32	1.95
2903590--2903820	102	2.3	102	93	0	390	21	19	27	31	1.97
2903720--2903932	75	2.8	76	84	4	286	23	18	25	31	1.97
2906085--2906119	7	4.9	7	86	6	52	0	11	5	82	0.82
2909758--2909799	21	2.0	22	86	13	61	54	2	2	40	1.26
2913431--2913467	13	2.8	13	95	0	65	29	8	16	45	1.76
2919473--2919509	3	12.0	3	94	5	65	67	0	0	32	0.91
2920206--2920244	18	2.1	19	85	4	53	28	2	7	61	1.37
2920215--2920250	18	2.0	17	89	10	54	27	0	8	63	1.23
2924224--2924263	7	5.6	7	96	3	71	42	45	0	12	1.42
2925174--2925345	63	2.7	63	83	1	220	27	24	18	30	1.98
2925918--2925955	12	2.9	13	88	11	60	78	0	21	0	0.74
2927157--2927214	28	2.1	28	100	0	116	32	13	18	34	1.91
2929971--2930033	31	2.1	30	93	3	108	50	11	1	36	1.47
2933315--2933695	122	3.1	122	84	3	496	30	15	20	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2933315--2933689	124	3.0	124	84	3	499	30	15	20	33	1.93
2944025--2944079	19	2.9	19	81	10	60	16	3	3	76	1.07
2944026--2944078	27	2.0	27	84	0	70	16	1	3	77	1.01
2945724--2945766	18	2.2	20	84	8	54	9	2	9	79	1.03
2945715--2945767	21	2.5	20	79	11	52	11	1	7	79	1.01
2951310--2951370	31	2.0	31	87	6	88	37	6	8	47	1.59
2953138--2953176	20	1.9	21	89	5	62	61	7	2	28	1.37
2958793--2958835	17	2.6	16	78	7	50	48	6	2	41	1.43
2961954--2961991	12	3.2	12	82	10	51	55	0	10	34	1.34
2961920--2961991	25	3.0	24	82	13	69	52	0	13	33	1.41
2966041--2966200	80	2.0	80	96	0	293	35	25	25	13	1.93
2969942--2970140	44	4.6	44	71	8	147	33	19	21	26	1.97
2969800--2970200	132	3.0	132	89	0	604	32	20	22	24	1.97
2971621--2971667	20	2.3	21	92	3	78	19	4	2	74	1.09
2973721--2973750	2	15.0	2	100	0	60	50	0	0	50	1.00
2975196--2975256	31	2.0	31	90	0	95	59	21	1	18	1.47
2976846--2976892	19	2.6	18	77	9	60	34	0	0	65	0.93
2976871--2976912	22	1.9	22	85	9	59	26	4	0	69	1.08
2977480--2977543	29	2.2	30	83	8	78	31	7	21	39	1.82
2977488--2977552	29	2.2	30	77	2	69	33	6	16	43	1.73
2986999--2987350	183	1.9	183	85	2	492	29	22	19	28	1.98
2987362--2987666	89	3.4	88	73	11	269	27	22	17	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2987399--2987676	44	6.2	45	71	12	149	27	21	18	32	1.97
2988607--2988654	15	3.3	13	83	16	51	0	10	4	85	0.73
3001591--3001631	19	2.1	19	86	4	55	65	0	4	29	1.13
3007113--3007240	64	2.0	64	92	3	213	46	9	4	39	1.57
3009696--3009761	32	2.1	32	100	0	132	21	9	18	51	1.73
3012710--3012766	30	1.9	30	85	0	78	26	12	19	42	1.86
3016356--3016384	6	4.8	6	100	0	58	31	0	51	17	1.45
3022435--3022613	23	8.0	23	88	3	240	41	21	17	18	1.90
3025506--3025608	31	3.4	30	75	12	102	37	2	5	53	1.40
3030665--3030707	10	4.3	10	78	0	50	69	9	0	20	1.15
3030676--3030728	19	2.7	20	85	11	65	60	7	0	32	1.25
3031927--3031989	14	4.6	14	75	11	51	38	1	4	55	1.31
3043087--3043136	15	3.4	15	81	13	68	26	2	0	72	0.96
3043084--3043144	21	2.9	21	80	20	65	27	3	0	68	1.05
3043084--3043144	11	6.2	10	83	14	67	27	3	0	68	1.05
3043354--3043416	14	4.6	14	75	11	51	38	1	4	55	1.31
3046976--3047023	19	2.5	20	83	12	57	31	20	4	43	1.71
3051334--3051388	19	2.9	19	86	10	69	52	7	1	38	1.40
3063440--3063493	20	2.9	18	84	13	58	51	7	1	38	1.41
3066535--3066597	14	4.6	14	75	11	51	38	1	4	55	1.31
3076950--3077070	43	2.8	43	82	8	147	33	26	16	23	1.95
3077179--3077322	31	4.8	30	81	9	168	45	15	7	31	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3079501--3079862	44	7.9	44	76	7	235	31	17	20	30	1.96
3079678--3079826	51	2.9	51	85	2	183	33	17	19	29	1.95
3081465--3081506	3	14.7	3	81	18	54	26	2	0	71	0.98
3081465--3081501	11	3.4	11	100	0	74	27	0	0	72	0.84
3081465--3081523	22	2.6	22	84	12	68	27	3	0	69	1.04
3081736--3081822	3	30.0	3	70	11	56	35	3	2	58	1.27
3084443--3084501	29	2.0	30	90	3	93	47	15	8	28	1.74
3084453--3084522	29	2.3	29	85	4	86	40	15	10	34	1.81
3085225--3085249	13	1.9	13	100	0	50	32	4	24	40	1.73
3087377--3087412	6	6.0	6	100	0	72	16	0	0	83	0.65
3087387--3087442	28	2.0	28	82	6	69	16	3	3	76	1.06
3089116--3089394	17	15.5	17	69	12	139	32	11	10	45	1.74
3089107--3089361	35	7.1	35	71	13	115	30	11	10	47	1.73
3089116--3089246	53	2.5	52	80	5	145	32	13	10	42	1.79
3089115--3089352	18	13.1	18	70	11	137	30	10	10	48	1.71
3089235--3089337	39	2.6	39	77	7	93	27	7	10	54	1.62
3089279--3089320	22	1.9	22	90	0	66	28	4	7	59	1.44
3089169--3089394	18	12.5	18	69	15	103	30	11	10	47	1.73
3091513--3091669	68	2.3	68	87	1	226	31	24	29	14	1.95
3094347--3094385	20	2.0	19	85	5	51	66	0	0	33	0.92
3096234--3096310	41	1.9	41	89	2	120	27	18	24	29	1.98
3096239--3096480	114	2.1	114	81	6	267	25	21	24	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3097995--3098329	146	2.3	146	82	4	372	26	15	21	36	1.93
3100828--3101005	63	2.8	63	99	0	347	42	8	7	42	1.63
3100876--3100987	36	3.4	36	70	25	127	42	8	7	41	1.61
3101004--3101047	23	1.9	23	95	0	79	43	18	0	38	1.50
3101027--3101118	37	2.4	38	89	3	132	50	11	0	38	1.40
3101103--3101590	9	54.0	9	74	15	395	44	19	1	34	1.59
3101209--3101291	12	6.6	12	70	24	55	45	21	2	30	1.65
3101120--3101333	64	3.3	64	85	9	244	45	20	1	32	1.60
3101317--3101383	28	2.4	28	97	0	125	46	14	2	35	1.61
3101565--3101658	32	2.8	33	85	8	127	38	17	4	40	1.69
3101565--3101646	32	2.5	32	94	2	137	37	15	4	41	1.69
3107235--3107299	21	3.1	21	79	0	76	33	20	41	4	1.72
3107747--3107847	42	2.4	42	80	6	107	31	23	19	24	1.98
3107821--3107874	27	2.0	27	88	0	81	29	24	16	29	1.97
3107847--3108000	42	3.6	42	86	3	209	25	22	19	33	1.97
3115132--3115173	18	2.3	18	83	4	57	50	0	2	47	1.14
3117021--3117100	3	26.7	3	100	0	160	32	0	0	67	0.91
3121947--3122245	100	2.9	102	83	6	379	26	16	8	49	1.73
3122747--3122799	26	2.0	26	100	0	106	37	15	32	15	1.88
3123143--3123877	46	16.0	46	88	3	1034	25	15	27	31	1.96
3123973--3124105	44	3.0	43	74	16	128	33	16	22	27	1.96
3124136--3124284	44	3.4	44	81	1	129	30	20	24	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3124258--3124368	42	2.7	42	88	4	154	23	27	21	27	1.99
3124174--3124411	127	1.9	130	83	6	315	26	25	22	26	2.00
3125283--3125334	6	8.7	6	100	0	104	15	0	0	84	0.62
3126042--3126124	3	27.7	3	100	0	166	32	0	0	67	0.91
3126165--3126199	14	2.5	14	90	0	52	40	14	2	42	1.60
3127474--3127507	16	2.1	16	89	10	52	55	0	2	41	1.15
3133405--3133451	24	1.9	25	91	4	78	36	0	4	59	1.17
3134634--3134667	18	1.9	17	88	5	50	64	2	2	29	1.22
3138947--3139106	49	3.3	47	76	6	149	30	12	11	45	1.78
3141398--3141423	2	13.0	2	100	0	52	50	0	0	50	1.00

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