genome.fa.s12.2.7.7.80.10.50.1000.56.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: Chr12 ID=Chr12-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  35429946

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   

This is table  56  of  120  ( 14336 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)
15758506--15758638	43	3.1	43	77	5	110	28	15	27	28	1.96
15766159--15766247	23	4.0	22	72	17	69	19	7	21	51	1.71
15766266--15766354	23	4.0	22	73	17	78	17	7	22	51	1.71
15766153--15766382	107	2.1	107	99	0	451	25	6	23	44	1.77
15767891--15768184	91	3.4	91	87	8	416	46	3	3	47	1.35
15767906--15768057	47	3.3	47	72	15	172	45	2	3	48	1.32
15768014--15768171	78	2.0	78	92	0	262	45	2	3	48	1.31
15768551--15768585	18	2.0	17	88	5	52	45	0	0	54	0.99
15783071--15783104	15	2.3	15	89	0	50	32	29	0	38	1.58
15784206--15784271	30	2.2	31	81	8	73	62	10	1	25	1.37
15785470--15785515	21	2.1	21	84	8	56	30	17	10	41	1.84
15800753--15801106	49	7.3	49	90	1	534	31	10	12	45	1.77
15801371--15801443	33	2.2	33	85	0	92	26	8	46	19	1.77
15801591--15801637	24	2.0	24	86	0	67	8	21	44	25	1.80
15802254--15802287	14	2.4	14	100	0	68	44	5	14	35	1.70
15803081--15803133	26	2.0	26	92	0	88	33	7	18	39	1.79
15803411--15803436	12	2.2	12	100	0	52	46	30	0	23	1.53
15804136--15804183	2	24.0	2	100	0	96	50	0	0	50	1.00
15804502--15804570	17	4.4	16	71	14	54	36	0	1	62	1.04
15811036--15811233	50	3.8	50	80	4	198	22	27	20	29	1.98
15818613--15818758	50	2.9	50	81	0	175	21	30	20	27	1.98
15822394--15822436	2	21.5	2	100	0	86	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15822927--15823392	233	2.0	233	98	0	905	41	8	14	35	1.76
15824769--15824793	11	2.3	11	100	0	50	32	0	20	48	1.50
15831830--15831867	2	19.0	2	100	0	76	50	0	0	50	1.00
15833392--15833440	26	1.9	25	91	4	80	36	22	12	28	1.90
15835021--15835069	24	2.0	24	100	0	98	30	16	16	36	1.91
15841495--15841524	15	1.9	16	93	6	53	63	0	0	36	0.95
15843228--15843303	40	1.9	40	97	0	143	31	10	22	35	1.88
15851511--15851563	17	3.1	17	83	0	70	26	16	30	26	1.97
15851560--15851597	17	2.2	17	95	0	67	42	13	18	26	1.87
15853348--15853385	18	2.1	18	95	0	67	60	5	18	15	1.53
15853348--15853401	24	2.2	24	77	9	56	62	3	16	16	1.46
15853548--15853609	26	2.4	26	83	0	70	41	9	12	35	1.76
15853896--15853954	21	2.8	20	80	14	57	54	3	1	40	1.27
15853936--15854013	11	7.4	11	80	17	94	57	0	2	39	1.12
15853946--15854002	28	2.0	29	93	3	98	57	0	1	40	1.09
15853921--15854063	42	3.4	43	86	8	188	59	0	2	37	1.14
15857149--15857214	20	3.3	20	75	8	62	15	30	16	37	1.90
15860415--15860460	22	2.1	22	84	8	58	23	6	21	47	1.74
15864640--15864818	90	2.0	90	94	2	315	30	7	17	44	1.77
15868431--15868476	19	2.2	20	85	11	58	60	0	0	39	0.97
15869498--15869550	19	2.7	20	79	8	63	39	3	1	54	1.29
15870908--15870939	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15871411--15871455	17	2.8	16	83	6	56	42	8	2	46	1.47
15871466--15871490	2	12.5	2	100	0	50	48	0	0	52	1.00
15890208--15890249	15	2.9	15	82	10	52	52	0	0	47	1.00
15890234--15890421	61	3.1	60	68	19	174	50	7	1	40	1.40
15890199--15890493	59	4.9	57	67	23	169	50	5	2	42	1.37
15890199--15890493	120	2.5	120	94	2	504	50	5	2	42	1.37
15890476--15890825	47	7.7	46	67	19	196	46	3	4	46	1.37
15890456--15890840	91	4.2	89	85	6	395	47	2	3	46	1.35
15890536--15890591	26	2.2	25	81	12	60	53	1	0	44	1.11
15890510--15890849	91	3.7	91	95	0	590	46	2	4	46	1.37
15893681--15893766	43	2.0	43	97	0	163	48	5	34	10	1.61
15894897--15895008	28	4.0	29	73	13	92	31	15	13	40	1.85
15894958--15895002	14	3.2	14	84	6	56	28	17	13	40	1.88
15894907--15895015	56	1.9	56	88	3	166	30	16	13	39	1.87
15895002--15895026	11	2.3	11	100	0	50	24	12	16	48	1.79
15900018--15900048	12	2.6	12	94	0	53	32	38	0	29	1.57
15900751--15900801	5	10.4	5	95	4	95	58	0	0	41	0.98
15900753--15900829	15	5.3	15	81	9	88	53	2	0	44	1.14
15901946--15902069	40	3.2	40	74	8	128	30	12	23	33	1.91
15901946--15902084	40	3.5	40	74	6	122	30	13	24	31	1.94
15902448--15902483	18	1.9	19	88	5	56	55	5	0	38	1.23
15902503--15902560	11	5.5	10	82	11	62	65	5	1	27	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15906751--15906796	22	2.1	22	84	8	58	56	17	10	15	1.67
15912525--15912623	49	2.0	49	94	0	171	45	5	30	19	1.71
15918126--15918246	37	3.3	36	77	4	107	28	20	19	31	1.97
15919755--15919848	36	2.6	36	88	3	145	27	20	18	34	1.95
15921332--15921450	55	2.2	55	100	0	238	31	27	17	23	1.97
15921758--15921837	14	5.7	14	68	11	56	28	21	15	35	1.93
15921745--15921804	28	2.1	28	84	6	77	33	18	13	35	1.89
15921796--15921884	28	3.2	28	70	9	83	26	20	14	38	1.91
15921763--15921884	56	2.2	56	84	7	158	27	21	14	36	1.92
15921855--15921904	26	1.9	26	83	0	64	26	20	14	40	1.90
15928095--15928136	12	3.5	12	86	0	66	2	33	26	38	1.69
15929880--15929921	18	2.3	18	88	8	59	30	21	23	23	1.99
15929925--15929995	35	2.0	35	86	0	97	36	28	15	19	1.92
15934416--15934466	17	2.9	17	88	2	66	33	27	23	15	1.95
15939278--15939377	49	2.0	49	81	7	114	31	14	12	43	1.81
15941197--15941265	35	1.9	35	85	8	95	55	4	2	37	1.35
15941196--15941284	35	2.4	37	78	14	94	52	3	2	41	1.30
15945754--15945802	22	2.3	21	86	6	64	22	28	0	48	1.50
15948252--15948552	43	7.1	43	83	2	340	25	31	18	24	1.98
15948252--15948530	85	3.3	85	84	2	337	25	30	18	25	1.98
15948252--15948529	128	2.2	128	86	1	371	25	30	18	25	1.98
15949758--15949790	5	6.6	5	100	0	66	81	0	0	18	0.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15958877--15959120	69	3.6	69	83	4	314	37	20	19	22	1.95
15962460--15962512	22	2.4	22	84	9	63	49	11	18	20	1.78
15964529--15964611	20	4.2	20	73	14	82	37	15	31	15	1.89
15964581--15964622	20	2.1	20	86	0	57	42	16	26	14	1.86
15964526--15964652	59	2.2	59	81	2	148	39	18	28	14	1.89
15967348--15967731	128	3.0	128	99	0	750	33	7	15	44	1.74
15976064--15976094	15	2.1	15	93	0	53	35	6	22	35	1.80
15976190--15976236	21	2.4	19	80	13	51	63	4	6	25	1.36
15977359--15977445	10	8.9	10	74	18	76	57	2	2	37	1.24
15977359--15977389	11	2.9	11	95	4	55	61	0	0	38	0.96
15977359--15977461	20	5.2	19	74	15	77	55	2	1	39	1.26
15977365--15977445	29	2.9	28	76	12	85	59	2	2	35	1.24
15977359--15977447	9	9.2	9	75	15	72	56	2	2	39	1.24
15977363--15977447	28	2.9	29	77	10	93	57	2	2	37	1.24
15977409--15977469	20	3.1	19	77	15	61	52	3	1	42	1.27
15977876--15977915	19	2.1	19	85	0	53	40	0	0	60	0.97
15978007--15978050	21	2.1	21	87	8	63	22	4	6	65	1.35
15978105--15978150	22	2.1	22	84	15	60	36	0	4	58	1.18
15982171--15982238	30	2.3	30	89	0	100	33	41	16	8	1.79
15982290--15982332	18	2.4	18	88	0	59	23	25	9	41	1.84
15986147--15986255	34	3.3	33	82	7	141	44	13	0	41	1.44
15989109--15989171	30	2.1	30	90	0	99	31	20	17	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15989826--15989863	16	2.4	17	86	8	53	18	21	0	60	1.36
15995694--15995728	9	3.7	9	88	11	52	0	14	0	85	0.59
15999931--16000714	36	21.7	36	76	12	644	37	15	22	24	1.93
15999924--16000706	73	10.8	72	79	8	684	37	15	22	24	1.93
16000193--16000384	102	1.9	102	82	4	244	40	13	21	23	1.89
16000149--16000408	137	1.9	137	84	3	344	40	16	20	23	1.91
16000861--16000932	36	2.0	36	83	0	90	41	12	22	23	1.88
16001867--16001900	15	2.3	15	90	5	52	11	2	11	73	1.20
16001933--16002004	34	2.1	34	89	5	110	44	12	26	16	1.83
16005324--16005538	29	7.4	29	79	6	229	34	12	27	24	1.92

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