genome.fa.s7.2.7.7.80.10.50.1000.37.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  37  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)
12959586--12959620	5	7.0	5	100	0	70	40	0	20	40	1.52
12960780--12960810	14	2.2	14	94	0	53	67	0	0	32	0.91
12960860--12960898	19	1.9	19	85	10	51	69	10	0	20	1.17
12960820--12961137	89	3.6	87	75	7	266	57	13	4	24	1.54
12960820--12961061	88	2.7	88	74	5	220	57	13	4	24	1.55
12961619--12961862	109	2.2	109	81	2	312	38	18	16	27	1.92
12961619--12961922	110	2.8	108	76	6	290	36	19	17	26	1.94
12963883--12963930	21	2.2	20	85	10	60	18	2	6	72	1.15
12963883--12963945	23	2.8	21	80	11	63	22	3	6	68	1.27
12972493--12972521	15	1.9	15	100	0	58	27	0	31	41	1.56
12972700--12972745	23	2.1	22	84	8	58	36	0	2	60	1.09
12972937--12972965	14	2.0	15	93	6	51	55	0	3	41	1.17
12984062--12984105	23	1.9	23	90	0	70	61	4	2	31	1.28
12984066--12984111	11	4.1	11	81	15	58	63	2	2	32	1.19
12988818--12988842	2	12.5	2	100	0	50	48	0	0	52	1.00
12990249--12990280	6	5.3	6	92	0	55	3	34	15	46	1.62
12995960--12996069	45	2.6	43	80	9	129	33	5	29	31	1.80
12996325--12996366	15	2.9	15	82	10	52	52	0	0	47	1.00
12996198--12996595	120	3.3	120	97	0	742	50	6	1	41	1.36
12996435--12996486	15	3.6	15	80	12	56	53	1	0	44	1.11
12996555--12996595	15	2.8	15	82	10	50	53	2	0	43	1.13
12999512--12999539	14	2.0	14	100	0	56	64	0	28	7	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12999515--12999559	19	2.5	18	82	17	58	66	0	26	6	1.16
13000143--13000209	29	2.3	28	76	14	73	35	10	13	40	1.79
13001236--13001295	30	2.0	30	93	0	102	56	13	3	26	1.52
13005186--13005262	39	2.1	36	81	16	86	40	1	2	55	1.22
13012248--13012285	20	1.9	20	88	0	58	50	2	2	44	1.30
13012757--13012832	40	1.9	40	83	0	98	34	22	3	39	1.73
13018255--13018307	26	2.0	26	82	13	65	47	1	5	45	1.37
13020081--13020195	57	2.0	58	81	8	137	36	20	15	27	1.93
13021828--13021867	17	2.4	16	84	15	55	45	2	0	52	1.14
13023937--13023973	15	2.5	15	95	0	65	54	5	5	35	1.47
13023939--13023982	23	1.9	23	82	17	56	56	6	4	31	1.46
13026102--13026158	19	2.9	19	78	5	60	42	17	24	15	1.88
13026653--13026700	17	2.8	16	75	12	51	43	16	0	39	1.48
13044018--13044060	19	2.4	19	88	7	63	9	13	4	72	1.26
13048297--13048323	2	13.5	2	100	0	54	51	0	0	48	1.00
13049506--13049619	11	10.4	11	67	20	69	37	1	0	60	1.07
13049498--13049597	29	3.0	36	81	16	142	37	2	0	61	1.08
13049477--13049587	17	6.7	17	68	20	74	38	0	0	60	1.03
13049579--13049634	22	2.5	21	83	11	67	37	1	1	58	1.19
13050521--13050873	180	2.0	180	94	0	616	43	9	13	32	1.76
13064541--13064589	21	2.4	21	86	3	64	38	0	2	59	1.09
13064785--13064836	26	2.0	27	88	11	81	67	1	30	0	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13066013--13066055	22	2.0	22	86	9	61	9	4	39	46	1.57
13081592--13081626	3	11.7	3	93	0	61	0	31	2	65	1.07
13085275--13085308	17	2.0	17	100	0	68	29	11	0	58	1.33
13087042--13087086	18	2.5	19	73	23	51	51	0	6	42	1.28
13087148--13087194	17	2.8	17	79	20	62	55	6	2	36	1.37
13087622--13087681	29	2.0	29	84	9	77	51	1	26	20	1.56
13087724--13087760	9	4.1	9	92	0	56	32	5	10	51	1.60
13093605--13093642	3	12.7	3	100	0	76	0	34	0	65	0.93
13095856--13095894	18	2.2	19	86	9	55	56	17	0	25	1.41
13098699--13098761	32	2.0	32	93	0	108	33	11	22	33	1.89
13100354--13100397	22	2.0	22	95	0	79	31	20	13	34	1.92
13114414--13114448	13	2.7	13	90	0	52	74	2	11	11	1.18
13123845--13123874	3	10.0	3	100	0	60	0	33	0	66	0.92
13130795--13130819	12	2.1	12	100	0	50	52	8	0	40	1.31
13131141--13131185	21	2.1	22	87	4	65	42	15	13	28	1.85
13131141--13131444	47	6.5	47	90	3	461	40	15	11	32	1.83
13131141--13131441	142	2.1	141	93	3	518	40	14	11	32	1.83
13131797--13131831	15	2.3	15	90	9	54	51	22	0	25	1.48
13132489--13132612	43	2.9	43	81	11	137	31	31	19	17	1.95
13137367--13137542	9	19.0	9	64	20	51	34	1	5	59	1.27
13158045--13158089	22	2.0	24	86	8	67	60	4	4	31	1.37
13158032--13158097	22	2.7	25	72	18	66	57	3	6	33	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13158070--13158114	18	2.4	18	81	3	54	62	0	4	33	1.15
13158827--13158862	15	2.4	15	90	9	56	5	13	5	75	1.17
13160709--13160845	25	5.5	25	76	6	127	32	17	27	23	1.97
13160692--13160845	50	3.1	51	79	9	149	32	18	25	23	1.97
13161346--13161474	25	5.2	25	85	0	150	33	17	28	20	1.95
13161314--13161474	50	3.2	50	75	7	150	32	18	27	21	1.97
13166996--13167061	10	6.6	10	72	22	50	28	3	4	63	1.29
13168537--13168565	4	7.2	4	100	0	58	24	75	0	0	0.80
13174417--13174514	48	2.0	48	100	0	196	50	10	20	19	1.76
13175475--13175514	16	2.5	16	91	0	62	47	2	7	42	1.45
13175587--13175629	9	5.0	9	88	11	72	32	0	11	55	1.36
13175584--13175629	16	2.8	16	86	6	65	34	0	10	54	1.36
13177168--13177217	23	2.2	23	85	7	66	54	2	2	42	1.23
13179705--13179742	18	2.1	18	95	0	67	65	15	13	5	1.43
13183667--13183697	15	2.1	14	94	5	53	45	0	0	54	0.99
13183688--13183739	16	3.1	16	72	8	50	69	1	0	28	0.99
13186432--13186473	22	2.0	22	90	4	68	28	0	4	66	1.12
13186431--13186480	21	2.3	21	82	6	64	28	0	4	68	1.08
13186442--13186503	29	2.1	29	84	0	79	29	4	4	61	1.37
13188263--13188314	20	2.5	22	81	12	65	63	3	3	28	1.30
13188450--13188549	10	10.2	10	70	16	57	35	3	0	62	1.11
13188456--13188502	19	2.4	20	89	3	69	31	4	0	63	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13188430--13188561	19	6.9	18	69	17	63	32	3	0	63	1.12
13194471--13194514	23	1.9	23	81	9	54	52	4	11	31	1.57
13194780--13194839	31	1.9	31	83	6	77	56	6	1	35	1.35
13194738--13194847	10	11.1	10	67	20	54	58	3	0	37	1.22
13195501--13195556	21	2.8	19	73	10	58	33	0	3	62	1.12
13195484--13195634	9	15.4	9	68	22	67	34	1	2	60	1.22
13223402--13223491	42	2.2	42	95	2	164	27	16	14	41	1.87
13252690--13252718	7	4.1	7	100	0	58	86	0	0	13	0.58
13254379--13254502	24	5.0	25	65	18	71	50	1	6	41	1.37
13255430--13255479	18	2.8	18	96	0	91	14	52	8	26	1.68
13255430--13255488	18	3.5	16	88	6	66	13	54	8	23	1.66
13255768--13256040	135	2.0	135	98	0	528	27	29	19	23	1.98
13257293--13257332	20	2.0	21	90	5	64	60	2	0	37	1.11
13259723--13259754	2	16.0	2	100	0	64	50	50	0	0	1.00
13259823--13259991	48	3.5	48	89	0	221	22	30	21	25	1.98
13265305--13265356	24	2.2	24	89	0	77	55	9	1	32	1.43
13267260--13267311	24	2.2	24	89	0	77	55	9	1	32	1.43
13271047--13271323	87	3.2	87	96	0	509	20	42	10	26	1.84
13276487--13276546	23	2.6	23	97	0	111	38	16	25	20	1.93
13283788--13283831	2	24.0	2	78	17	51	43	0	56	0	0.99
13283791--13283831	18	2.3	18	95	0	73	41	0	58	0	0.98
13288054--13288263	10	20.8	10	77	7	147	40	1	57	0	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13288084--13288263	4	47.0	4	79	8	160	42	0	56	1	1.11
13289594--13289645	24	2.2	24	89	0	77	53	5	5	34	1.49
13290608--13290700	36	2.6	35	81	6	107	15	9	30	45	1.78
13291589--13291618	12	2.5	12	94	0	51	30	36	23	10	1.87
13293411--13293468	24	2.4	24	88	0	80	48	5	6	39	1.52
13294692--13294736	23	2.0	22	91	4	72	22	13	11	53	1.71
13294642--13294766	12	9.8	12	69	17	65	25	13	8	52	1.69
13295951--13295989	20	2.0	20	84	0	51	46	0	10	43	1.37
13297612--13297663	24	2.2	24	85	0	68	53	9	3	32	1.51
13304526--13304586	30	2.0	30	100	0	122	47	16	22	13	1.81

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