genome.fa.s12.2.7.7.80.10.50.1000.113.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  113  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)
32953871--32954242	49	7.7	49	80	9	419	53	13	0	32	1.44
32953953--32954376	49	9.4	41	72	18	207	54	12	0	32	1.42
32954139--32954376	22	11.1	21	68	20	91	55	12	0	31	1.41
32954301--32954378	20	3.8	20	78	8	77	53	11	0	34	1.37
32954544--32954584	3	14.3	3	85	10	59	0	36	0	63	0.95
32954548--32954581	11	3.1	11	91	8	52	0	38	0	61	0.96
32954540--32954585	14	3.6	14	83	16	64	0	36	0	63	0.95
32954540--32954584	17	2.7	17	93	3	74	0	35	0	64	0.94
32954540--32954596	17	3.6	16	79	15	64	0	36	0	63	0.95
32954547--32954596	14	3.6	13	86	10	64	0	38	0	62	0.96
32956230--32956307	40	2.0	39	92	7	131	17	10	5	66	1.39
32956223--32956294	22	3.5	22	68	14	71	16	8	5	69	1.33
32956247--32956304	25	2.5	22	76	17	55	18	10	3	67	1.35
32958914--32958975	32	2.0	31	84	9	81	33	3	1	61	1.22
32973026--32973058	15	2.1	16	94	5	59	33	6	0	60	1.21
32973459--32973497	18	2.2	18	85	0	51	17	2	10	69	1.28
32973553--32973595	18	2.3	19	84	4	52	16	2	13	67	1.33
32979651--32979698	24	2.0	24	87	0	69	22	18	8	50	1.74
32982139--32982207	30	2.3	31	87	2	95	36	15	10	37	1.82
32986326--32986367	18	2.3	18	80	8	50	26	0	9	64	1.24
32987248--32987313	28	2.4	28	80	10	82	37	3	0	59	1.13
32998019--32998301	50	5.9	47	77	10	279	27	20	31	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32998023--32998301	97	2.9	97	90	2	425	27	20	31	21	1.98
32999116--32999220	29	3.6	29	77	7	113	33	18	5	42	1.73
32999116--32999238	59	2.1	59	87	3	176	33	17	5	43	1.73
32999586--32999666	21	4.1	19	77	15	76	80	0	19	0	0.72
32999584--32999662	7	11.9	7	81	11	60	79	0	20	0	0.73
32999584--32999669	29	3.0	27	83	11	102	80	0	19	0	0.72
32999594--32999668	22	3.5	21	79	16	82	82	0	17	0	0.67
32999589--32999670	28	2.9	28	87	8	105	81	0	18	0	0.69
32999929--32999971	12	3.3	13	87	9	61	81	0	18	0	0.69
32999939--32999994	11	5.6	10	81	14	71	83	0	16	0	0.64
32999929--32999979	11	4.2	12	82	12	61	80	0	19	0	0.71
32999929--32999994	24	2.6	25	80	9	71	81	0	18	0	0.68
32999955--32999994	19	2.2	17	91	8	62	85	0	15	0	0.61
33000196--33000460	133	2.0	131	82	5	320	40	15	13	31	1.85
33000421--33000449	9	3.2	9	100	0	58	72	0	0	27	0.85
33000470--33000628	18	8.9	16	69	21	70	32	11	8	47	1.70
33000476--33000518	21	2.1	21	86	4	61	46	9	9	34	1.68
33000496--33000978	17	27.3	17	72	11	285	31	11	9	47	1.72
33000576--33000785	72	2.9	72	78	12	227	33	10	8	47	1.68
33000668--33000977	35	8.8	35	73	10	188	30	10	11	47	1.73
33000949--33001015	35	1.9	35	84	6	91	40	7	7	44	1.61
33003790--33003932	68	2.1	69	81	7	166	57	2	2	38	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33003882--33003910	14	2.1	14	93	6	51	62	0	0	37	0.96
33008528--33008564	3	12.3	3	100	0	74	67	0	0	32	0.91
33009261--33009326	28	2.2	30	81	7	73	45	10	12	31	1.76
33009969--33010002	3	11.3	3	93	0	59	0	29	2	67	1.05
33010103--33010138	19	1.9	18	88	5	54	61	0	2	36	1.11
33010591--33010733	68	2.1	70	82	10	170	58	1	2	37	1.22
33011310--33011359	3	16.7	3	100	0	100	66	0	0	34	0.92
33011746--33011793	11	4.4	11	75	0	51	33	2	0	64	1.05
33011759--33011809	22	2.3	22	86	10	68	31	0	3	64	1.11
33013677--33013741	30	2.2	31	76	21	75	47	1	1	49	1.20
33013692--33013805	25	4.6	25	79	14	105	42	0	3	53	1.24
33013696--33013805	35	3.1	35	84	7	109	40	0	3	54	1.24
33013728--33013805	5	15.6	5	94	0	129	38	0	3	57	1.17
33014759--33014859	37	2.6	37	73	6	94	22	19	29	27	1.98
33015480--33015566	32	2.7	32	87	7	115	32	4	0	63	1.15
33021098--33021222	23	5.4	23	97	0	232	31	28	20	19	1.97
33024327--33024443	60	2.0	60	85	0	162	23	17	15	43	1.87
33028279--33028560	41	6.8	41	83	4	327	24	26	19	29	1.98
33029262--33029539	78	3.6	78	95	0	486	43	13	3	39	1.61
33031991--33032042	24	2.2	24	85	0	68	19	21	21	38	1.94
33032007--33032070	24	2.6	26	85	9	89	17	25	20	37	1.93
33034891--33034924	17	2.0	17	88	0	50	58	5	0	35	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33035821--33035863	3	14.3	3	100	0	86	67	0	0	32	0.91
33039008--33039036	8	3.6	8	100	0	58	24	0	0	75	0.80
33044554--33044585	10	3.2	10	95	0	55	21	25	21	31	1.98
33049484--33049520	3	12.3	3	100	0	74	32	32	0	35	1.58
33053654--33053681	13	2.2	13	100	0	56	28	7	32	32	1.84
33055828--33055883	21	2.7	21	85	0	76	26	5	35	32	1.79
33056082--33056159	33	2.4	34	84	4	97	55	1	0	43	1.08
33061541--33061567	14	1.9	14	100	0	54	66	11	0	22	1.22
33073372--33073447	9	8.4	9	85	0	107	25	11	23	39	1.89
33078090--33078155	31	2.1	31	94	0	114	42	12	12	33	1.79
33084763--33084920	79	2.0	79	97	0	298	36	11	24	28	1.90
33092123--33092159	19	2.0	19	89	5	58	27	18	0	54	1.44
33092955--33093020	31	2.1	31	94	0	114	42	12	12	33	1.79
33102466--33102546	39	2.1	39	83	4	101	17	29	20	32	1.96
33104724--33104768	10	4.6	10	86	5	65	55	0	0	44	0.99
33106642--33106710	29	2.3	30	85	5	95	44	13	11	30	1.78
33114047--33114138	30	3.1	30	84	3	116	34	21	2	41	1.66
33114453--33114527	3	23.3	3	82	15	80	65	0	34	0	0.93
33114453--33114524	7	11.0	7	82	12	57	65	0	34	0	0.93
33114453--33114530	10	8.0	10	82	12	92	65	0	34	0	0.93
33114453--33114526	14	5.6	14	80	13	79	66	0	33	0	0.92
33115292--33115386	19	5.2	18	71	9	68	42	10	10	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33115304--33115603	17	16.6	18	69	18	155	33	14	9	43	1.77
33115292--33115386	37	2.6	36	84	12	131	42	10	10	36	1.74
33115447--33115603	36	4.3	36	70	10	102	31	16	9	42	1.80
33115395--33115604	74	2.9	72	78	10	196	31	15	9	43	1.79
33115499--33115618	38	3.2	38	76	7	138	30	16	10	41	1.83
33115631--33115711	37	2.2	39	78	13	89	44	7	8	39	1.63
33115654--33115689	17	2.2	17	90	5	56	36	5	11	47	1.63
33115628--33115714	21	4.4	20	73	16	65	48	6	8	36	1.60
33115717--33115802	35	2.5	35	81	5	95	37	8	10	44	1.69
33115717--33115808	34	2.6	34	81	14	107	39	8	9	42	1.69
33115742--33115811	19	3.9	18	69	16	56	40	7	10	42	1.66
33120921--33120953	17	1.9	17	88	11	50	42	3	3	51	1.32
33121150--33121210	13	4.7	13	83	0	86	31	1	26	40	1.66
33125554--33125579	4	6.5	4	100	0	52	50	0	0	50	1.00
33126620--33126654	17	2.1	17	100	0	70	11	22	17	48	1.79
33133411--33133449	15	2.7	14	84	15	53	58	5	0	35	1.20
33133438--33133475	20	1.9	20	84	10	51	57	0	0	42	0.98
33135472--33135500	6	4.8	6	100	0	58	17	0	17	65	1.27
33135456--33135513	18	3.0	20	82	12	66	24	1	12	62	1.39
33136903--33136951	24	2.1	23	81	11	55	59	6	2	32	1.34
33137508--33137532	6	4.2	6	100	0	50	48	0	0	52	1.00
33137431--33137572	74	1.9	72	95	2	257	41	0	3	54	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33139406--33139440	17	2.1	17	100	0	70	40	17	11	31	1.85
33141537--33141823	152	1.9	147	87	8	369	25	14	15	43	1.85
33143347--33143377	14	2.2	14	100	0	62	19	6	29	45	1.75
33144161--33144186	6	4.3	6	100	0	52	50	0	0	50	1.00
33149114--33149148	18	2.0	17	88	5	52	45	0	0	54	0.99
33149399--33149450	16	3.2	16	88	0	77	34	32	0	32	1.58
33156409--33156443	3	12.0	3	93	6	63	31	0	0	68	0.90
33159443--33159474	16	2.0	16	100	0	64	12	56	31	0	1.37
33163663--33163699	16	2.3	17	86	9	51	54	18	8	18	1.68
33164566--33164635	31	2.3	31	80	5	88	41	7	12	38	1.71

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