genome.fa.s12.2.7.7.80.10.50.1000.42.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  42  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)
11382677--11382845	91	1.9	87	89	4	257	32	18	18	30	1.95
11383303--11383547	91	2.9	88	81	13	273	30	17	20	31	1.95
11382190--11384128	626	3.1	625	87	5	2592	28	16	20	34	1.94
11383544--11383712	91	1.9	87	87	4	248	32	17	17	32	1.93
11382768--11384128	241	5.8	230	83	8	1241	28	16	20	34	1.95
11384307--11384349	20	2.2	20	95	0	77	37	23	6	32	1.82
11384326--11384441	30	3.9	29	82	3	151	37	21	3	37	1.71
11384328--11384439	59	1.9	59	88	0	170	38	22	3	35	1.72
11384625--11384674	21	2.4	22	83	12	61	78	4	18	0	0.91
11385404--11385463	3	20.0	3	84	6	77	73	0	26	0	0.84
11385405--11385463	18	3.4	18	90	9	97	74	0	25	0	0.82
11385770--11385831	32	1.9	33	93	3	108	19	9	8	62	1.50
11385828--11385861	10	3.5	10	84	8	52	29	2	0	67	1.05
11386089--11386127	17	2.3	17	90	0	60	38	5	10	46	1.60
11386146--11386204	19	3.1	18	76	13	55	35	15	6	42	1.73
11386360--11386752	18	21.5	18	71	17	169	31	12	11	45	1.77
11386524--11386719	17	11.3	16	72	13	122	28	12	10	48	1.74
11386523--11386718	52	3.8	52	81	6	202	28	12	10	48	1.74
11386697--11386752	21	2.8	20	86	5	76	41	8	8	41	1.68
11387441--11388377	44	21.6	43	67	13	348	26	21	20	31	1.98
11387579--11388163	129	4.5	129	88	2	784	25	21	21	31	1.98
11387797--11388248	85	5.3	85	77	7	434	27	21	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11387926--11388377	213	2.1	214	91	1	728	27	20	21	30	1.98
11388149--11388385	129	1.8	129	91	0	393	28	18	21	31	1.97
11388822--11389016	108	1.8	107	85	3	275	45	9	17	27	1.79
11389339--11389384	17	2.6	18	93	6	76	4	17	0	78	0.91
11389339--11389385	6	7.8	6	81	13	53	4	17	0	78	0.90
11389820--11389867	21	2.3	21	89	3	71	10	4	8	77	1.12
11398756--11398783	2	14.0	2	100	0	56	50	0	0	50	1.00
11401672--11401930	132	2.0	132	95	0	464	30	20	25	23	1.99
11401671--11401991	132	2.4	132	85	3	360	30	20	25	23	1.99
11401999--11402120	45	2.7	45	87	8	187	26	20	27	25	1.99
11401920--11402125	84	2.4	87	79	11	210	28	20	24	26	1.99
11402767--11402791	13	1.9	13	100	0	50	48	20	8	24	1.76
11402977--11403107	41	3.2	41	83	4	131	29	23	19	27	1.98
11404736--11404784	25	2.0	25	88	8	73	51	2	0	46	1.12
11410525--11410549	13	1.9	13	100	0	50	48	20	8	24	1.76
11410735--11410865	41	3.2	41	85	4	131	29	22	19	29	1.98
11412480--11412919	44	10.0	43	78	10	387	27	20	24	26	1.99
11412480--11412919	89	5.0	88	76	11	420	27	20	24	26	1.99
11412391--11412868	217	2.2	219	92	2	777	27	21	23	27	1.99
11413085--11413159	19	3.8	19	86	6	114	38	12	16	33	1.85
11413810--11413852	2	21.5	2	82	0	50	41	2	4	51	1.35
11413810--11413852	18	2.4	18	92	0	68	41	2	4	51	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11413858--11413902	21	2.1	21	91	4	72	28	8	11	51	1.68
11413943--11413991	25	2.0	25	95	0	89	30	8	4	57	1.47
11414660--11414856	98	2.0	98	95	0	358	27	10	25	36	1.88
11418408--11418519	45	2.7	42	80	8	131	34	6	27	31	1.82
11418645--11418686	15	2.7	16	82	14	52	52	2	0	45	1.13
11418654--11418695	15	2.9	15	82	10	52	52	0	0	47	1.00
11418648--11418891	120	2.0	120	97	0	461	50	6	2	41	1.40
11418741--11418823	43	1.9	43	82	7	105	53	2	2	42	1.27
11418683--11418866	59	3.1	59	68	22	175	48	7	2	41	1.42
11418693--11418880	61	3.1	61	70	14	199	48	7	2	40	1.45
11418892--11419010	22	5.4	22	88	0	166	26	26	14	32	1.94
11429540--11429586	22	2.2	22	85	11	62	36	25	8	29	1.86
11434735--11434766	5	6.4	5	92	0	55	0	21	0	78	0.76
11435393--11435430	18	2.2	17	86	13	51	63	2	5	28	1.30
11438145--11438178	17	2.0	17	88	0	50	41	20	5	32	1.76
11441253--11441327	13	5.8	13	78	9	82	33	18	0	48	1.49
11441995--11442062	32	2.1	32	100	0	136	41	13	8	36	1.75
11446764--11446856	45	2.1	44	88	9	136	37	24	3	34	1.72
11446838--11446892	16	3.4	16	92	0	92	29	25	7	38	1.83
11447770--11447841	24	3.0	24	72	8	65	45	13	15	25	1.83
11450250--11450373	57	2.2	57	92	0	203	27	20	14	37	1.91
11456926--11456968	18	2.4	18	80	7	52	53	0	16	30	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11458103--11458146	14	3.2	13	81	12	52	13	11	43	31	1.80
11465888--11465979	3	31.3	3	89	4	143	67	0	32	0	0.91
11465996--11466067	33	2.2	34	80	7	87	70	0	26	2	1.00
11466000--11466064	24	2.7	23	69	9	58	70	0	26	3	1.01
11466239--11466463	40	5.7	41	69	18	100	35	6	8	49	1.60
11466288--11466429	76	1.9	76	86	2	205	30	6	11	51	1.62
11466447--11466512	3	22.0	3	100	0	132	33	0	0	66	0.92
11466309--11466458	75	2.0	76	80	6	171	33	8	8	50	1.63
11471883--11471911	15	1.9	15	100	0	58	27	0	0	72	0.85
11471842--11472377	159	3.4	158	88	4	782	27	8	8	55	1.59
11472379--11472437	28	2.1	27	82	17	68	23	8	3	64	1.37
11472528--11472661	30	4.7	30	81	14	176	59	8	6	25	1.50
11472528--11472582	14	3.8	14	77	17	67	67	7	3	21	1.31
11472524--11472624	52	1.9	52	93	0	175	62	7	4	24	1.43
11472605--11472654	14	3.4	14	71	28	50	60	10	4	26	1.47
11472864--11472972	3	36.0	3	72	12	71	0	36	1	60	1.14
11472932--11472973	19	2.0	22	86	13	63	2	30	0	66	1.04
11481210--11481268	24	2.4	25	80	11	77	49	22	1	27	1.59
11481376--11481411	18	2.0	18	100	0	72	16	11	22	50	1.77
11483775--11483840	28	2.4	28	86	0	96	25	15	28	30	1.96
11487045--11487147	40	2.6	39	81	6	118	34	16	29	19	1.94
11487056--11487155	40	2.5	40	86	0	137	34	18	29	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11498234--11498269	16	2.2	16	95	0	63	36	5	33	25	1.79
11498249--11498345	44	2.2	44	87	5	133	29	5	29	35	1.79
11498502--11498536	18	2.0	17	88	5	52	54	0	0	45	0.99
11498482--11498960	120	4.0	120	95	0	823	50	4	1	43	1.29
11498788--11498951	38	4.0	42	65	24	100	51	4	1	43	1.29
11498742--11498895	18	8.9	18	64	21	69	53	2	0	42	1.19
11502403--11502597	98	2.0	98	91	2	320	37	24	10	27	1.88
11503631--11503678	22	2.2	22	96	0	87	12	47	33	6	1.66
11504648--11505274	44	14.2	44	65	10	269	25	25	19	29	1.99
11504652--11505344	132	5.2	132	94	0	1138	25	25	19	29	1.98
11510028--11510070	23	1.9	22	86	13	61	41	0	18	39	1.51
11516765--11516959	98	2.0	98	92	2	329	36	24	10	28	1.89
11517788--11517814	12	2.2	12	100	0	54	11	33	25	29	1.91
11520468--11520515	14	3.4	14	79	2	51	10	29	2	58	1.43
11526276--11526300	2	12.5	2	100	0	50	52	0	0	48	1.00
11527223--11527281	20	3.0	20	92	0	91	47	22	25	5	1.71
11532047--11532103	3	18.3	3	75	13	53	59	5	1	33	1.30
11532048--11532108	14	4.2	14	83	10	70	59	6	3	31	1.39
11534741--11534794	28	2.0	28	85	3	74	46	5	1	46	1.37
11536927--11536995	35	2.0	35	94	0	120	28	17	10	43	1.81
11545651--11545676	5	5.2	5	100	0	52	38	19	19	23	1.93
11545625--11545676	26	2.0	26	81	7	61	34	15	26	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11547415--11547474	29	2.1	29	100	0	120	23	16	13	46	1.82
11549097--11549192	48	2.0	48	84	9	126	40	2	1	56	1.18
11549197--11549225	6	4.8	6	100	0	58	68	13	0	17	1.20
11549303--11549411	49	2.2	49	91	3	175	39	22	4	33	1.74
11554887--11554979	45	2.1	44	81	4	105	44	8	19	27	1.80
11556508--11556543	15	2.5	14	86	4	54	80	2	2	13	0.93
11567745--11567792	24	2.0	24	91	0	78	31	18	14	35	1.91
11569322--11569359	15	2.5	15	87	8	51	50	5	2	42	1.39
11588010--11589033	509	2.0	508	97	0	1913	32	20	8	38	1.84
11597210--11597348	54	2.5	53	81	10	136	27	18	23	30	1.98

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