genome.fa.s3.2.7.7.80.10.50.1000.95.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  95  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)
29787101--29787160	30	2.0	31	83	9	79	20	38	0	41	1.52
29787251--29787295	20	2.6	16	83	16	54	31	26	0	42	1.56
29791235--29791310	20	3.4	20	68	25	62	55	9	10	25	1.63
29791221--29791316	48	2.0	48	100	0	192	52	8	12	27	1.67
29797061--29797124	31	2.1	31	82	5	76	28	4	4	62	1.35
29799978--29800039	21	3.0	21	74	9	63	19	20	16	43	1.88
29810510--29810552	22	2.0	22	86	4	61	37	0	9	53	1.33
29811977--29812019	19	2.3	19	100	0	86	37	0	23	39	1.55
29816322--29816426	25	4.7	23	73	20	91	44	9	11	34	1.73
29820920--29820950	2	15.5	2	100	0	62	51	0	0	48	1.00
29825853--29825887	18	1.9	18	94	0	61	54	5	11	28	1.59
29826006--29826050	18	2.6	17	89	6	65	48	2	0	48	1.13
29826006--29826035	2	15.0	2	92	0	51	53	0	0	46	1.00
29827117--29827233	36	3.3	36	72	9	114	22	23	23	29	1.99
29827098--29827197	36	2.9	34	70	11	94	23	26	23	28	1.99
29827098--29827350	70	3.6	70	84	0	335	25	22	22	29	1.99
29830177--29830298	43	2.9	42	82	4	147	23	17	27	31	1.97
29832049--29832185	42	3.3	42	86	2	186	28	16	24	29	1.97
29832035--29832235	84	2.4	84	78	9	212	30	15	23	29	1.96
29832035--29832243	42	5.0	43	78	8	184	30	15	23	30	1.96
29839259--29839325	33	2.0	33	97	0	125	20	38	16	23	1.92
29843154--29843199	20	2.2	21	88	7	67	30	2	8	58	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29851168--29851304	40	3.5	40	79	8	145	28	19	21	29	1.98
29851171--29851319	40	3.8	39	80	9	140	30	20	21	27	1.98
29851169--29851611	193	2.3	195	79	7	492	31	18	21	28	1.97
29851469--29851680	114	1.9	115	89	3	338	29	18	24	27	1.98
29851698--29851758	7	8.6	7	74	3	59	26	1	22	49	1.59
29855495--29855665	43	4.0	43	76	7	150	30	16	22	29	1.96
29857704--29857754	3	16.7	3	95	4	93	66	0	1	31	1.03
29858648--29858722	36	2.1	36	82	0	87	38	1	16	44	1.56
29858818--29858949	70	1.9	70	85	0	183	25	22	21	30	1.99
29860972--29861016	19	2.4	18	85	3	54	37	2	35	24	1.68
29861831--29861855	3	8.3	3	100	0	50	68	0	0	32	0.90
29874011--29874065	26	2.0	27	86	10	76	45	3	10	40	1.57
29874123--29874172	24	2.2	22	89	7	73	48	2	6	44	1.39
29875822--29876341	252	2.1	252	88	1	790	27	24	17	29	1.98
29895381--29895415	16	2.2	16	89	0	52	42	22	17	17	1.88
29897036--29897074	20	2.0	20	85	10	53	66	2	2	28	1.18
29897105--29897201	30	3.1	30	77	13	104	46	3	11	39	1.55
29921332--29921387	29	1.9	29	85	0	76	39	0	1	58	1.08
29922371--29922418	16	3.1	15	76	8	51	62	0	2	35	1.07
29922371--29922442	31	2.3	31	81	11	85	61	0	1	37	1.05
29927713--29927746	16	2.1	17	88	5	52	58	0	0	41	0.98
29927722--29927810	39	2.3	38	83	9	117	40	1	3	55	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29934305--29934365	25	2.4	25	78	10	70	18	29	21	31	1.96
29946092--29946141	3	16.7	3	79	8	57	30	30	6	34	1.81
29954107--29954161	25	2.2	25	86	0	74	21	29	16	32	1.95
29959101--29959148	23	2.1	23	88	3	71	41	0	25	33	1.55
29971797--29971873	31	2.5	31	91	4	120	19	40	22	18	1.92
29978465--29978515	20	2.5	20	87	9	77	39	17	19	23	1.92
29984143--29984208	28	2.2	29	89	7	98	48	3	3	45	1.33
29984198--29984293	29	3.2	29	68	8	75	47	9	3	39	1.51
29986043--29986152	47	2.4	47	82	1	141	46	21	12	19	1.83
29988352--29988725	188	2.0	188	94	0	658	33	16	11	38	1.85
29992055--29992459	36	11.0	37	81	4	410	34	20	14	30	1.93
29992055--29992476	73	5.7	72	81	4	443	34	20	14	30	1.93
29992055--29992420	146	2.5	145	86	2	518	34	20	14	30	1.93
30003374--30003574	56	3.6	56	82	0	240	35	15	13	34	1.87
30003374--30003574	84	2.4	85	83	3	255	35	15	13	34	1.87
30003396--30003546	28	5.4	28	85	3	178	37	13	13	35	1.84
30003415--30003575	28	5.8	28	85	7	175	34	16	14	34	1.89
30003421--30003595	28	6.2	28	83	11	164	34	16	14	33	1.90
30003421--30003595	56	3.1	55	78	9	183	34	16	14	33	1.90
30004910--30004964	27	2.0	27	100	0	110	38	18	10	32	1.85
30006231--30006447	108	2.0	108	97	0	407	28	26	17	28	1.97
30009575--30009629	21	2.6	21	78	15	60	32	5	9	52	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30010052--30010094	18	2.4	18	80	0	50	41	6	18	32	1.77
30010567--30010628	30	2.1	30	100	0	124	46	17	9	25	1.79
30011125--30011182	31	1.9	30	82	3	71	32	8	13	44	1.75
30019757--30019788	16	2.0	16	93	0	55	31	6	9	53	1.58
30024041--30024084	2	22.0	2	95	0	79	50	2	0	47	1.13
30032274--30032325	27	1.9	27	84	7	70	7	21	0	71	1.11
30038152--30038192	21	2.0	21	85	0	55	21	21	17	39	1.93
30040621--30040684	14	4.6	14	78	9	60	32	15	0	51	1.44
30040606--30040672	7	9.6	7	76	14	59	28	13	0	58	1.36
30051546--30051592	19	2.4	19	86	10	60	53	6	2	38	1.39
30054915--30054947	15	2.1	16	88	5	50	33	0	0	66	0.92
30055879--30055915	18	2.1	18	94	0	65	18	27	10	43	1.83
30055881--30055924	18	2.4	18	88	0	61	18	27	9	45	1.79
30059438--30059815	127	3.0	126	85	2	535	28	18	16	36	1.93
30059884--30060015	34	4.0	34	75	7	130	39	15	0	45	1.46
30060039--30060097	20	3.0	20	64	26	52	44	25	0	30	1.55
30065940--30065978	14	2.7	15	80	4	53	38	0	7	53	1.30
30067922--30067951	12	2.5	12	94	0	51	23	43	26	6	1.78
30076752--30076780	2	14.5	2	100	0	58	51	0	0	48	1.00
30079053--30079097	16	2.6	18	86	10	58	37	2	4	55	1.32
30082890--30082933	19	2.3	19	92	4	70	50	4	13	31	1.62
30082917--30082954	14	2.7	15	88	8	53	39	5	7	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30086030--30086074	19	2.3	19	88	3	72	22	13	31	33	1.92
30090272--30090443	29	5.8	28	74	18	127	19	16	6	57	1.60
30090272--30090443	59	2.9	59	89	1	238	19	16	6	57	1.60
30090300--30090480	59	3.1	56	84	8	172	20	15	4	59	1.55
30092412--30092632	121	1.8	121	82	0	280	36	10	7	45	1.67
30095966--30096113	71	2.1	70	86	3	199	39	11	4	43	1.62
30103879--30103909	16	1.9	16	93	0	53	54	3	0	41	1.16
30104563--30104587	5	5.0	5	100	0	50	60	40	0	0	0.97
30107816--30107880	30	2.2	30	78	10	71	26	3	10	60	1.45
30108579--30108613	18	1.9	18	88	0	52	65	5	0	28	1.15
30108650--30108714	29	2.2	29	97	0	121	30	27	3	38	1.72
30109146--30109189	20	2.3	19	84	7	54	22	0	4	72	1.02
30110900--30110938	20	2.0	20	90	10	62	51	0	0	48	1.00
30111571--30111613	18	2.4	18	80	7	52	46	2	0	51	1.13
30114083--30114128	23	2.0	23	82	0	56	30	10	32	26	1.90
30114539--30114607	6	11.5	6	76	6	68	47	4	33	14	1.64
30117098--30117163	29	2.3	29	89	0	96	37	27	9	25	1.86
30124257--30124651	175	2.3	174	87	3	553	45	7	14	31	1.74
30135857--30135899	21	2.0	21	90	0	68	23	11	11	53	1.69
30140260--30140301	16	2.5	17	84	7	59	50	0	9	40	1.35
30147673--30147699	2	13.5	2	100	0	54	48	0	0	51	1.00
30149467--30149508	19	2.2	19	87	8	59	71	2	0	26	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30151598--30151650	19	2.8	19	76	23	51	50	15	0	33	1.44
30161384--30162137	88	8.6	88	88	1	1118	24	24	23	27	2.00
30163396--30163495	51	2.0	50	88	3	148	12	24	20	44	1.85
30171082--30171119	20	2.0	20	84	5	51	28	5	10	55	1.56
30173645--30173689	22	2.0	22	91	0	72	11	15	6	66	1.42
30174147--30174299	22	7.0	22	90	0	225	26	26	14	32	1.94
30174698--30174739	14	2.9	14	82	13	50	73	0	11	14	1.09
30174700--30174740	21	2.0	21	90	9	66	75	0	9	14	1.04
30176003--30176456	50	9.1	50	69	3	304	29	20	24	25	1.99
30175984--30176456	100	4.7	100	91	0	748	28	20	24	26	1.99

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