genome.fa.s12.2.7.7.80.10.50.1000.77.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  77  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)
23104217--23104275	19	2.9	20	87	7	75	61	5	3	30	1.34
23108555--23108793	119	2.0	120	91	0	390	33	1	23	41	1.63
23114146--23114215	25	2.8	25	86	0	95	34	15	31	18	1.92
23118593--23118639	13	3.4	14	79	8	51	61	27	4	6	1.39
23128792--23128843	20	2.6	20	87	0	77	50	0	25	25	1.50
23137330--23137429	40	2.5	40	75	0	101	23	21	20	36	1.96
23137262--23137429	80	2.1	80	83	2	203	25	20	19	35	1.95
23137385--23137460	40	1.9	40	86	0	107	15	18	25	40	1.90
23144120--23144165	18	2.6	18	92	0	83	32	23	0	43	1.54
23151793--23151862	18	3.9	18	73	3	61	34	4	31	30	1.77
23157322--23157392	36	2.0	35	86	8	99	40	16	18	23	1.90
23159381--23159406	11	2.4	11	100	0	52	26	46	7	19	1.77
23165356--23165394	18	2.2	17	86	13	53	33	0	20	46	1.51
23165620--23165695	23	3.3	23	92	0	134	22	21	25	31	1.98
23172357--23172394	18	2.1	18	100	0	76	42	0	26	31	1.56
23172746--23172784	18	2.2	17	86	13	53	33	0	20	46	1.51
23173010--23173085	23	3.3	23	96	0	143	21	21	26	31	1.98
23180555--23180900	27	12.9	27	85	3	407	43	21	16	18	1.88
23181363--23181436	34	2.2	35	82	4	89	29	21	20	28	1.98
23182642--23182666	11	2.3	11	100	0	50	28	44	8	20	1.79
23187996--23188067	36	2.0	36	91	0	117	47	16	18	18	1.83
23196427--23196462	19	1.9	18	94	5	63	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23196612--23196645	16	2.1	16	88	0	50	52	5	0	41	1.25
23198821--23198863	22	1.9	23	85	4	61	46	2	6	44	1.43
23199059--23199170	57	2.0	56	92	1	188	48	10	5	35	1.61
23199597--23199676	32	2.6	31	84	5	108	41	0	2	56	1.13
23199597--23199676	31	2.6	32	82	9	103	41	0	2	56	1.13
23199619--23199683	16	4.1	16	77	15	71	44	0	1	53	1.09
23199752--23199848	22	4.8	20	73	18	76	39	0	2	58	1.10
23199816--23199851	16	2.2	16	95	0	63	33	0	0	66	0.92
23199910--23199955	11	4.2	10	84	15	56	13	2	8	76	1.11
23199906--23199954	22	2.1	23	88	7	73	14	2	8	75	1.12
23200211--23200253	18	2.4	18	88	0	68	51	0	6	41	1.29
23204988--23205036	24	2.0	25	96	4	91	53	4	6	36	1.45
23207853--23208123	145	1.9	146	90	2	438	38	23	7	29	1.83
23208301--23208379	21	3.7	22	83	6	85	59	2	0	37	1.11
23208426--23208505	21	3.8	21	86	1	106	55	0	0	45	0.99
23208284--23208484	111	1.8	112	82	7	266	54	1	2	41	1.25
23208437--23208513	21	3.5	22	86	8	113	57	0	0	42	0.99
23208435--23208528	21	4.3	20	76	20	82	56	1	1	41	1.13
23208435--23208559	44	2.8	43	82	13	130	56	3	0	39	1.21
23208431--23208550	21	5.6	20	76	14	71	57	1	0	40	1.14
23208545--23208582	13	3.1	13	85	11	53	73	10	0	15	1.09
23215141--23215174	18	1.9	18	88	5	52	20	8	11	58	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23219031--23219061	16	1.9	16	93	0	53	16	0	6	77	0.97
23220698--23220756	25	2.6	22	73	17	57	49	0	0	50	1.00
23220781--23220817	16	2.3	17	81	13	51	59	0	2	37	1.12
23220959--23221020	29	2.1	30	85	14	85	27	12	6	53	1.63
23220970--23221027	30	2.0	29	83	10	73	27	15	6	50	1.70
23223623--23223695	19	3.5	21	74	9	69	2	30	15	52	1.57
23226234--23226290	6	9.0	6	88	7	78	35	0	47	17	1.48
23226237--23226290	13	4.2	13	86	9	74	33	0	50	16	1.46
23226234--23226290	19	2.9	19	92	2	87	35	0	47	17	1.48
23226387--23226584	30	6.7	30	86	9	291	51	0	10	38	1.40
23226387--23226584	61	3.4	61	86	9	302	51	0	10	38	1.40
23226491--23226541	24	2.2	23	93	6	93	43	0	11	45	1.40
23226433--23226591	85	1.9	85	94	2	284	49	0	11	38	1.39
23238264--23238302	20	1.9	21	89	5	62	43	2	7	46	1.46
23247569--23247602	17	1.9	18	94	5	61	44	0	0	55	0.99
23252705--23252779	27	2.7	29	81	8	75	38	1	1	58	1.15
23252827--23252887	24	2.4	25	83	5	70	31	1	1	65	1.12
23252920--23252962	17	2.6	17	81	3	52	30	2	2	65	1.18
23252913--23252975	16	3.8	16	74	16	56	34	1	1	61	1.15
23253133--23253201	31	2.3	30	77	15	72	42	5	10	42	1.62
23257083--23257108	8	3.2	8	100	0	52	53	0	0	46	1.00
23258572--23258620	21	2.3	22	82	10	66	36	4	0	59	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23258587--23258635	21	2.5	20	81	15	57	40	6	4	48	1.47
23258907--23258963	30	1.9	30	100	0	114	38	5	21	35	1.76
23261986--23262017	15	2.1	15	100	0	64	12	6	12	68	1.37
23263372--23263622	68	3.7	68	82	0	295	34	18	20	27	1.96
23263369--23263614	136	1.8	136	85	1	350	35	18	19	26	1.95
23271650--23271834	68	2.7	68	84	4	230	34	17	19	28	1.94
23278248--23278293	18	2.7	18	83	6	51	10	8	10	69	1.37
23281368--23281430	31	2.1	29	82	5	72	39	12	3	44	1.59
23287224--23287268	23	2.0	23	100	0	90	17	8	17	55	1.67
23294046--23294088	2	21.5	2	100	0	86	51	0	0	48	1.00
23296591--23296645	2	28.0	2	92	3	76	45	0	5	49	1.25
23296577--23296621	19	2.5	19	89	7	67	40	2	13	44	1.56
23296881--23296980	41	2.4	41	91	0	173	31	19	26	24	1.98
23296883--23297065	98	1.9	98	96	0	339	30	19	26	24	1.98
23297258--23297347	37	2.6	34	83	11	114	27	12	27	32	1.92
23297278--23297356	37	2.1	37	90	0	122	30	10	25	34	1.89
23300355--23300387	13	2.5	13	100	0	66	30	33	6	30	1.82
23302347--23302454	26	3.9	27	71	12	103	42	0	1	54	1.17
23302377--23302425	24	2.1	22	85	14	64	38	2	4	55	1.31
23302585--23302842	21	12.2	21	87	2	329	46	27	0	25	1.58
23302930--23303097	37	4.4	38	63	17	98	41	9	7	41	1.66
23302850--23303120	114	2.4	114	97	1	508	40	9	8	41	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23306126--23306657	125	4.3	125	91	0	827	30	22	17	28	1.97
23306126--23306657	249	2.1	249	90	1	843	30	22	17	28	1.97
23307453--23307484	16	1.9	17	93	6	57	84	0	15	0	0.63
23310963--23311019	2	28.5	2	100	0	114	50	0	49	0	1.00
23312710--23312743	2	17.5	2	93	6	61	50	0	0	50	1.00
23318667--23318717	19	2.6	19	81	9	59	31	0	5	62	1.19
23318675--23318718	10	4.5	10	81	13	56	29	0	6	63	1.20
23325965--23326026	26	2.4	26	91	0	97	38	12	12	35	1.82
23333365--23333415	13	3.9	13	97	0	93	25	7	27	39	1.83
23351679--23351715	18	2.0	19	89	5	58	45	2	5	45	1.40
23366261--23366305	22	2.0	22	87	8	65	35	20	31	13	1.91
23367753--23367807	27	2.0	27	92	0	92	40	18	20	21	1.92
23368023--23368167	28	5.2	28	90	4	240	22	23	24	29	1.99
23373129--23373178	26	1.9	26	100	0	100	62	12	8	18	1.53
23377106--23377138	16	2.0	17	94	5	59	24	0	0	75	0.80
23377218--23377268	26	2.0	26	100	0	102	47	3	11	37	1.59
23381078--23381131	16	3.4	16	92	0	90	35	1	35	27	1.68
23381110--23381223	39	2.7	45	72	19	109	34	4	27	34	1.77
23381354--23381396	15	2.9	15	83	13	54	53	0	0	46	1.00
23381345--23381386	15	2.7	16	82	14	52	52	2	0	45	1.13
23381365--23381400	18	2.0	18	89	10	56	58	0	0	41	0.98
23381354--23381396	13	3.1	14	86	6	52	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23381348--23381765	59	7.0	61	67	16	241	50	4	2	42	1.37
23381465--23381516	15	3.6	15	80	12	56	53	1	0	44	1.11
23381604--23381640	16	2.2	17	86	13	51	54	0	2	43	1.14
23381351--23381761	120	3.4	120	94	1	680	49	4	2	43	1.37
23381802--23381862	28	2.2	28	85	5	81	50	3	0	45	1.17
23381777--23381983	91	2.3	91	87	1	290	46	5	3	44	1.44
23393731--23393997	144	1.9	144	88	1	410	31	24	21	21	1.98
23393766--23393997	69	3.3	69	68	13	191	31	25	21	21	1.98
23398751--23398776	12	2.2	12	100	0	52	23	7	15	53	1.67
23401494--23401561	33	2.2	31	89	7	102	30	7	10	51	1.63

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