genome.fa.s7.2.7.7.80.10.50.1000.18.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: Chr07 ID=Chr07-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  60982465

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204   

This is table  18  of  204  ( 24458 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)
6762450--6762682	41	5.7	41	88	0	340	22	27	21	28	1.99
6763601--6763634	2	17.0	2	100	0	68	50	0	0	50	1.00
6777243--6777271	11	2.6	11	100	0	58	34	0	6	58	1.25
6778053--6778103	14	3.5	14	77	15	50	39	3	0	56	1.18
6789330--6789374	24	2.0	23	83	12	58	60	11	8	20	1.57
6793195--6793232	20	1.9	20	89	10	60	65	0	10	23	1.23
6800360--6800458	28	3.8	28	70	15	93	34	5	13	47	1.64
6813446--6813471	12	2.2	12	100	0	52	7	7	53	30	1.57
6814945--6814975	5	6.2	5	96	0	53	35	41	19	3	1.67
6820540--6820622	33	2.7	29	77	13	85	24	15	8	51	1.71
6820544--6820610	33	2.0	33	88	0	98	25	11	8	53	1.66
6823849--6823891	17	2.5	17	82	17	54	44	0	4	51	1.22
6836202--6836251	23	2.2	22	96	3	91	42	4	34	20	1.70
6842396--6842439	22	2.0	22	100	0	88	54	13	18	13	1.71
6844071--6844139	31	2.3	30	82	7	77	53	13	4	28	1.58
6844641--6844682	19	2.2	20	82	4	50	57	0	14	28	1.38
6845633--6845667	14	2.5	14	90	0	52	54	0	0	45	0.99
6848229--6848272	21	2.1	21	83	8	54	25	6	2	65	1.28
6855276--6855321	3	15.3	3	100	0	92	32	0	0	67	0.91
6856270--6856305	2	19.0	2	88	11	58	52	0	0	47	1.00
6857578--6857609	2	16.0	2	100	0	64	50	0	0	50	1.00
6858555--6858674	5	22.6	5	98	1	177	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6858557--6858677	3	45.0	3	78	21	144	37	0	0	62	0.95
6859606--6859730	41	3.2	39	77	7	128	23	19	24	33	1.97
6860874--6860922	3	15.7	3	79	8	53	28	4	0	67	1.09
6860870--6860922	10	5.3	10	80	14	65	28	3	0	67	1.07
6861389--6861423	12	2.9	12	91	0	52	48	11	0	40	1.39
6864034--6864107	38	1.9	38	94	0	130	35	24	12	28	1.91
6866007--6866048	18	2.4	17	84	7	57	30	0	2	66	1.04
6869102--6869799	284	2.5	284	94	1	1192	29	10	17	43	1.82
6874871--6874902	11	2.8	12	90	9	50	40	0	3	56	1.15
6882765--6882804	3	13.3	3	100	0	80	35	0	0	65	0.93
6886659--6886885	42	5.5	42	87	3	275	27	22	19	29	1.98
6887055--6887086	2	16.5	2	93	6	57	53	0	0	46	1.00
6887260--6887289	2	15.0	2	92	0	51	50	3	0	46	1.18
6891178--6891230	24	2.2	25	93	3	90	37	18	24	18	1.94
6891185--6891238	24	2.2	25	83	6	65	40	22	22	14	1.90
6891885--6891909	13	1.9	13	100	0	50	40	16	0	44	1.47
6896934--6896966	16	2.1	16	94	0	57	6	15	15	63	1.49
6899488--6899546	24	2.4	25	81	13	70	44	0	1	54	1.10
6899670--6899774	44	2.5	40	76	15	113	31	29	4	34	1.78
6899668--6899777	45	2.6	44	81	8	131	31	29	5	33	1.80
6899756--6899825	16	4.4	16	96	0	104	32	35	0	31	1.58
6908742--6908826	42	2.0	42	90	4	136	29	38	3	28	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6914610--6914647	3	12.7	3	100	0	76	34	0	0	65	0.93
6919669--6919703	17	2.1	17	88	0	52	40	5	0	54	1.24
6921290--6921324	18	1.9	18	94	0	61	11	22	37	28	1.89
6927478--6927562	42	2.0	42	88	0	125	28	40	3	28	1.73
6927568--6927825	126	2.0	126	90	2	403	27	26	18	27	1.98
6937103--6937151	12	3.9	12	78	19	55	20	0	0	79	0.73
6937122--6937148	4	6.8	4	100	0	54	22	0	0	77	0.76
6940824--6940872	18	2.6	19	78	18	57	20	2	4	73	1.10
6947670--6947713	18	2.4	19	88	3	63	36	0	4	59	1.18
6948333--6948517	92	2.0	92	100	0	370	35	15	12	36	1.86
6955166--6955485	163	2.0	163	93	0	550	43	14	11	30	1.81
6964942--6965078	42	3.5	41	72	17	146	34	27	16	21	1.95
6964837--6965116	75	3.8	75	86	6	421	32	28	18	20	1.97
6966611--6966748	73	1.9	73	87	0	204	52	18	11	18	1.74
6974754--6974940	91	2.1	91	95	2	340	50	8	6	34	1.59
7001020--7001055	15	2.4	15	90	9	56	5	13	5	75	1.17
7001878--7002436	265	2.1	265	91	0	895	28	24	18	28	1.98
7001926--7002440	133	3.9	132	85	4	732	29	24	17	28	1.97
7004355--7004596	132	1.8	132	92	1	396	28	23	19	28	1.98
7004535--7004714	88	2.0	89	84	3	238	24	27	21	26	1.99
7006017--7006060	15	2.9	15	83	12	63	13	15	0	70	1.17
7011589--7011624	15	2.4	15	90	9	56	5	13	5	75	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7012246--7012365	63	1.9	63	94	0	213	35	15	12	36	1.85
7012745--7012850	53	2.0	53	98	1	205	50	16	7	24	1.71
7017323--7017428	53	2.0	53	94	1	187	51	16	5	25	1.66
7018771--7018810	16	2.5	16	87	0	62	27	30	7	35	1.84
7021925--7021955	8	4.0	8	91	8	55	74	0	0	25	0.82
7021925--7021955	15	2.1	15	100	0	62	74	0	0	25	0.82
7023265--7023295	7	4.4	7	100	0	62	16	0	0	83	0.64
7023753--7023796	22	2.0	22	100	0	88	45	31	4	18	1.69
7024006--7024066	19	3.1	19	76	11	61	73	4	16	4	1.18
7024940--7025073	24	5.5	24	71	20	107	29	5	6	58	1.46
7025045--7025088	22	2.0	23	86	4	63	29	9	0	61	1.27
7025218--7025265	17	2.8	18	81	9	64	25	6	4	64	1.35
7025698--7025752	24	2.3	24	84	6	67	63	1	0	34	1.05
7026192--7026240	17	2.8	18	75	6	55	34	2	6	57	1.35
7026727--7027014	125	2.3	125	90	1	443	31	18	20	29	1.96
7027026--7027051	12	2.2	12	100	0	52	53	7	26	11	1.63
7030113--7030233	49	2.5	49	97	0	224	44	8	3	43	1.50
7030353--7030419	21	3.3	20	81	8	73	5	13	46	34	1.68
7039719--7039833	61	1.9	61	81	3	142	40	6	15	37	1.72
7040561--7040726	83	2.0	83	97	0	314	31	17	19	31	1.95
7054945--7054972	6	4.7	6	100	0	56	53	0	28	17	1.44
7070140--7070207	5	13.4	5	74	20	61	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7070135--7070208	31	2.4	30	76	8	78	43	0	1	55	1.08
7074818--7074842	7	3.6	7	100	0	50	76	0	0	24	0.80
7075635--7075671	18	2.0	20	84	10	51	51	5	2	40	1.39
7076433--7076493	3	20.3	3	100	0	122	67	0	0	32	0.91
7094775--7094944	26	6.8	25	75	13	92	32	22	25	19	1.97
7094855--7094945	26	3.6	25	80	7	103	30	25	25	18	1.98
7097293--7097432	46	3.0	46	94	0	244	30	27	7	35	1.85
7111434--7111465	3	10.3	3	93	6	55	31	0	0	68	0.90
7111436--7111462	13	2.1	13	100	0	54	29	0	0	70	0.88
7111434--7111465	16	2.0	16	100	0	64	31	0	0	68	0.90
7114783--7114808	5	5.2	5	100	0	52	42	19	19	19	1.90
7115851--7115887	9	4.1	9	92	0	65	29	10	13	45	1.77
7118117--7118157	21	1.9	22	90	5	66	53	2	0	43	1.13
7118126--7118160	18	1.9	18	88	11	54	51	2	0	45	1.16
7118461--7118488	2	14.0	2	100	0	56	50	0	0	50	1.00
7118596--7118639	16	2.8	16	100	0	88	31	25	20	22	1.98
7126208--7126258	25	2.0	25	100	0	102	41	15	19	23	1.90
7128139--7128169	15	2.1	15	100	0	62	54	0	6	38	1.26
7128341--7128387	19	2.2	20	82	14	51	57	6	0	36	1.24
7141041--7141094	18	2.9	19	78	8	67	40	3	1	53	1.29
7141035--7141088	19	2.9	18	83	5	63	38	1	1	57	1.20
7142151--7142201	23	2.2	23	96	0	93	41	19	9	29	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7145144--7145175	14	2.3	14	100	0	64	34	46	6	12	1.67
7149625--7149851	91	2.6	86	80	6	208	38	14	8	38	1.76
7149687--7149851	83	1.9	84	86	7	233	38	15	9	36	1.80
7149953--7150041	28	3.2	28	78	12	78	69	1	2	26	1.07
7150206--7150259	9	5.7	9	82	8	63	25	3	0	70	1.04
7150201--7150324	19	6.6	18	68	9	68	33	5	0	59	1.26
7150291--7150332	19	2.2	19	91	0	66	38	2	0	59	1.10
7150268--7150354	10	8.8	10	71	12	63	34	4	1	59	1.25
7150372--7150429	28	2.0	30	93	6	102	34	0	1	63	1.04
7156988--7157022	18	1.9	18	100	0	70	77	5	0	17	0.96

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   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   200   201   202   203   204