genome.fa.s3.2.7.7.80.10.50.1000.97.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  97  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)
30517575--30517606	12	2.7	12	95	0	55	28	3	56	12	1.51
30518463--30518547	42	2.0	42	100	0	170	40	11	27	21	1.88
30525790--30525850	24	2.8	21	76	13	68	27	26	14	31	1.95
30525804--30525850	24	2.0	24	95	0	85	29	25	14	29	1.95
30525843--30525875	17	1.9	17	93	0	57	30	15	18	36	1.91
30527233--30527308	27	2.8	26	74	7	71	21	15	38	25	1.92
30528256--30528360	49	2.1	49	82	0	120	25	17	25	31	1.97
30529029--30529064	5	7.0	5	87	6	54	38	5	16	38	1.72
30547262--30547310	25	2.0	25	84	8	64	75	18	4	2	1.06
30561645--30561678	2	17.0	2	87	0	50	47	2	0	50	1.16
30566971--30567023	25	2.1	25	82	6	63	50	1	1	45	1.23
30567096--30567133	16	2.4	16	90	0	58	39	2	31	26	1.70
30567159--30567204	24	1.9	24	86	8	67	36	2	30	30	1.70
30567315--30567403	37	2.4	38	83	3	101	44	5	0	49	1.25
30570049--30570244	50	3.8	50	80	4	176	28	19	28	23	1.99
30573456--30573503	25	1.9	25	91	0	78	43	16	18	20	1.88
30577104--30577171	30	2.3	30	82	12	79	55	5	5	32	1.48
30580248--30580305	30	1.9	30	83	13	75	46	8	15	29	1.75
30582226--30582263	16	2.4	16	90	0	58	31	0	34	34	1.58
30582242--30582351	45	2.6	43	80	9	129	33	5	29	31	1.80
30582500--30582558	20	2.8	21	69	25	61	47	5	1	45	1.34
30584236--30584274	20	2.0	20	100	0	78	30	25	17	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30590484--30590540	20	2.8	20	75	17	55	28	1	0	70	0.98
30594911--30594986	30	2.5	29	77	12	82	64	1	1	32	1.10
30605100--30605142	18	2.4	18	84	0	59	62	9	13	13	1.53
30605362--30605407	22	2.0	24	83	8	60	26	28	0	45	1.54
30606585--30606618	8	4.2	8	100	0	68	11	11	11	64	1.50
30609647--30609672	2	13.0	2	100	0	52	0	0	50	50	1.00
30610367--30610428	30	2.1	30	100	0	124	16	11	19	53	1.72
30612372--30612465	46	2.0	46	100	0	188	45	18	4	31	1.68
30616799--30616829	15	2.1	15	100	0	62	41	12	6	38	1.69
30617154--30617181	14	2.0	14	100	0	56	14	14	35	35	1.86
30622661--30622922	131	2.0	131	81	7	309	37	24	8	29	1.84
30628867--30628979	44	2.6	44	74	14	117	25	18	27	28	1.98
30632504--30632585	30	2.7	30	81	3	85	29	9	20	40	1.85
30641987--30642028	3	13.7	3	95	5	75	66	0	0	33	0.92
30642101--30642171	31	2.1	34	85	10	94	18	28	16	36	1.93
30644975--30645014	20	2.0	20	85	9	55	67	2	0	30	1.04
30645206--30645246	19	2.0	20	86	9	57	58	0	2	39	1.11
30651013--30651037	13	1.9	13	100	0	50	32	28	32	8	1.86
30651838--30652305	235	2.0	235	94	0	828	42	14	10	32	1.80
30654387--30654414	12	2.3	12	100	0	56	42	25	7	25	1.80
30658347--30658457	35	3.1	35	85	1	150	40	28	12	18	1.87
30660805--30660850	19	2.3	19	81	7	56	19	8	23	47	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30664430--30664474	23	2.0	23	81	0	54	22	0	15	62	1.33
30664765--30664815	23	2.3	22	83	6	66	29	3	9	56	1.49
30665758--30665816	28	2.1	28	100	0	118	16	18	20	44	1.87
30666537--30667464	404	2.3	403	95	0	1685	25	21	21	30	1.98
30670786--30670818	14	2.3	15	89	5	50	30	12	30	27	1.92
30672204--30672246	22	2.0	22	100	0	86	37	13	25	23	1.92
30672371--30672491	44	2.7	43	88	5	172	27	19	26	27	1.99
30672855--30673193	44	7.8	44	76	9	259	30	19	20	28	1.97
30673074--30673318	129	1.9	129	79	5	280	29	21	21	26	1.99
30672855--30673317	217	2.1	217	85	2	590	30	20	21	27	1.98
30672855--30673371	217	2.4	217	82	2	520	30	19	21	28	1.97
30673616--30673690	19	3.9	19	80	10	73	37	8	16	38	1.78
30673628--30673703	21	3.7	21	94	3	129	38	9	14	38	1.78
30673640--30673726	21	4.0	24	88	8	93	37	8	16	37	1.78
30673910--30673954	23	2.0	23	81	0	54	22	0	15	62	1.33
30674003--30674053	14	3.3	15	69	15	50	19	7	7	64	1.44
30674013--30674065	17	3.3	17	69	15	58	18	9	7	64	1.47
30674008--30674072	31	2.1	31	100	0	130	18	9	6	66	1.41
30674771--30674818	25	2.0	24	84	12	62	22	10	8	58	1.58
30675921--30675976	26	2.2	25	81	9	67	64	5	0	30	1.16
30676820--30676900	9	8.7	9	76	13	67	64	2	1	32	1.15
30676816--30676863	19	2.7	18	84	9	62	72	2	0	25	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30676837--30676892	19	2.9	19	73	7	60	58	1	1	37	1.19
30677095--30677184	29	3.1	28	83	10	94	28	6	1	63	1.27
30677153--30677199	19	2.4	20	89	3	69	25	4	4	65	1.29
30677211--30677265	19	2.8	19	76	13	58	30	0	5	63	1.17
30681028--30681183	39	3.9	39	88	7	224	34	1	0	63	1.06
30681078--30681220	11	13.9	11	73	17	69	39	0	0	60	1.02
30681027--30681220	82	2.4	81	84	7	243	37	1	0	61	1.06
30685158--30685241	37	2.3	37	87	4	125	35	14	13	36	1.85
30688076--30688114	19	2.1	19	85	0	51	51	2	0	46	1.14
30688122--30688164	12	3.4	12	77	22	52	51	0	0	48	1.00
30688102--30688164	26	2.2	27	86	13	83	55	0	0	44	0.99
30688949--30688982	15	2.4	14	90	5	50	73	2	0	23	0.97
30693040--30693164	46	2.7	46	80	3	135	24	24	18	32	1.97
30693116--30693347	93	2.5	93	81	6	247	28	22	16	31	1.96
30711124--30711162	20	1.9	20	84	5	51	23	2	7	66	1.30
30712628--30712676	2	24.5	2	100	0	98	48	0	0	51	1.00
30712668--30712793	47	2.7	47	82	0	162	38	5	15	40	1.71
30712848--30713106	47	5.0	50	66	19	129	38	7	16	37	1.76
30712666--30713155	163	3.0	160	90	2	763	37	6	18	37	1.78
30713227--30713380	41	3.8	41	93	0	245	17	23	31	27	1.97
30720510--30720536	2	13.5	2	100	0	54	48	0	0	51	1.00
30728712--30729016	84	3.6	83	79	7	226	41	15	21	21	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30729058--30729394	81	4.2	81	94	0	584	35	20	21	22	1.96
30737500--30737868	103	3.6	103	92	0	623	31	28	20	18	1.97
30737709--30737864	33	4.6	33	68	23	108	34	28	20	16	1.94
30745057--30745428	106	3.6	103	85	2	530	31	29	19	19	1.97
30751754--30751826	24	3.0	24	80	11	78	21	15	31	31	1.94
30751877--30752051	28	6.2	28	78	2	163	32	19	24	24	1.97
30751862--30752051	56	3.4	56	80	1	211	31	18	25	24	1.98
30768902--30768951	18	2.5	20	87	9	68	72	4	20	4	1.18
30770710--30770781	33	2.1	34	92	2	119	38	6	13	40	1.72
30778405--30778435	16	1.9	16	93	0	53	32	6	25	35	1.82
30779186--30779230	23	2.0	23	82	8	56	40	31	6	22	1.80
30780891--30780986	41	2.3	41	83	3	113	27	31	22	18	1.97
30780891--30781003	41	2.8	41	82	2	102	26	30	25	16	1.97
30781096--30781448	113	3.1	113	90	0	544	27	21	23	27	1.99
30781485--30781569	40	2.1	40	82	6	100	21	21	21	36	1.95
30782586--30782623	16	2.4	16	90	0	58	31	0	34	34	1.58
30783784--30783818	18	2.0	18	88	5	54	20	2	5	71	1.19
30789358--30789393	16	2.2	16	95	0	63	27	0	33	38	1.57
30789609--30789650	15	2.7	16	82	14	52	52	2	0	45	1.13
30789618--30789659	15	2.9	15	82	10	52	52	0	0	47	1.00
30789825--30789885	28	2.2	28	85	5	81	50	3	0	45	1.17
30792745--30792797	24	2.2	24	87	12	74	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30798350--30798486	10	14.6	9	70	15	73	62	2	5	29	1.28
30798416--30798459	19	2.3	19	92	0	70	65	0	4	29	1.12
30798416--30798487	28	2.5	30	80	14	82	65	1	5	27	1.23
30798432--30798476	19	2.4	19	85	7	56	62	2	4	31	1.27
30798655--30798838	9	20.0	9	68	19	87	33	3	1	61	1.22
30798660--30798726	19	3.4	21	75	19	72	29	7	2	59	1.40
30798679--30798838	26	5.9	26	69	19	105	34	2	1	61	1.17
30798657--30798784	38	3.5	37	80	16	126	32	4	2	60	1.30
30798719--30798774	17	3.2	16	74	20	51	33	1	1	62	1.16
30798659--30798839	27	6.6	27	70	16	113	32	3	1	62	1.21

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