genome.fa.s13.2.7.7.80.10.50.1000.137.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: Chr13 ID=Chr13-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  58321163

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   

This is table  137  of  199  ( 23770 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)
41625445--41625514	31	2.3	31	92	0	113	51	1	7	40	1.38
41625322--41625634	158	2.0	156	93	1	536	52	3	4	39	1.39
41625457--41625523	31	2.2	31	86	0	89	52	2	7	37	1.45
41629270--41629309	21	2.0	21	85	14	57	47	20	15	17	1.83
41630745--41631082	102	3.3	101	88	2	448	29	15	26	29	1.96
41630745--41631082	51	6.7	50	80	6	358	29	15	26	29	1.96
41635751--41635945	51	3.8	51	77	7	198	24	12	28	34	1.92
41644042--41644091	26	1.9	26	100	0	100	58	2	16	24	1.49
41651245--41651287	2	21.5	2	100	0	86	48	0	0	51	1.00
41651467--41651555	9	10.2	8	84	10	81	61	1	4	32	1.23
41651489--41651555	3	22.0	3	91	8	109	65	0	1	32	1.02
41653094--41653133	2	20.0	2	100	0	80	50	0	0	50	1.00
41656268--41656329	31	2.0	31	100	0	124	25	16	6	51	1.68
41657483--41657515	7	4.7	7	92	0	57	12	0	3	84	0.72
41659052--41659300	50	4.8	50	84	3	309	20	28	22	27	1.99
41659051--41659300	100	2.4	104	87	5	346	21	28	22	27	1.99
41659626--41659683	30	1.9	30	89	0	89	31	24	3	41	1.71
41661872--41661947	10	7.3	10	72	22	59	17	1	3	77	0.99
41661886--41661947	6	10.5	6	80	13	67	16	1	3	79	0.95
41661881--41661947	22	2.9	22	85	14	75	16	1	2	79	0.94
41661872--41661921	6	9.6	5	85	14	50	18	0	2	80	0.82
41667327--41667355	15	2.0	15	93	6	51	41	0	3	55	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41669549--41669590	2	21.0	2	100	0	84	50	0	0	50	1.00
41670087--41670127	4	10.2	4	91	0	55	43	24	4	26	1.74
41676904--41677002	28	3.5	29	89	6	141	35	12	1	51	1.46
41677041--41677097	27	2.2	26	93	3	96	26	31	26	15	1.96
41677272--41677522	37	6.8	37	99	0	484	39	11	0	49	1.40
41678188--41678244	27	2.2	26	96	3	105	17	26	31	24	1.97
41678265--41678308	20	2.3	19	84	4	52	6	2	11	79	1.01
41678301--41678398	28	3.5	28	91	2	153	50	1	12	36	1.47
41682321--41682582	135	2.0	132	88	2	389	29	21	17	30	1.97
41687605--41687630	3	8.7	3	100	0	52	0	34	0	65	0.93
41690741--41690765	13	1.9	13	100	0	50	80	8	4	8	1.03
41691419--41691472	29	1.9	28	85	7	74	24	12	20	42	1.87
41695230--41695316	40	2.2	39	78	10	95	35	1	20	42	1.60
41695271--41695373	29	3.3	34	87	12	127	30	0	25	44	1.54
41695287--41695373	29	3.0	29	100	0	174	27	0	27	44	1.54
41695253--41695331	40	2.0	41	89	2	124	26	0	29	44	1.55
41697707--41697740	15	2.3	15	90	5	52	67	5	0	26	1.13
41697927--41697977	22	2.3	21	83	9	66	33	0	33	33	1.58
41697930--41698029	52	1.9	52	91	0	164	37	0	29	34	1.58
41697982--41698050	22	3.1	22	87	0	102	40	1	24	33	1.64
41698259--41698317	29	2.1	27	84	6	73	45	18	11	23	1.83
41698651--41698721	19	3.8	18	77	7	61	38	5	0	56	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41698784--41698902	55	2.2	54	84	6	150	35	5	0	57	1.28
41698830--41698899	9	7.5	10	74	22	64	37	1	1	60	1.15
41708004--41708464	230	2.0	230	96	0	841	34	19	16	29	1.94
41708724--41708757	5	6.8	5	100	0	68	79	20	0	0	0.73
41708886--41708914	7	4.1	7	100	0	58	31	27	13	27	1.94
41717837--41717902	10	6.9	9	75	14	53	62	0	4	33	1.16
41717838--41717902	20	3.4	19	75	14	62	61	0	4	33	1.16
41720438--41720463	13	2.0	13	100	0	52	38	0	7	53	1.30
41722369--41722577	92	2.3	91	86	3	276	46	3	3	45	1.39
41723117--41723150	14	2.5	13	86	9	50	44	2	8	44	1.50
41727003--41727027	13	1.9	13	100	0	50	16	0	0	84	0.63
41732314--41732375	29	2.1	30	84	6	81	54	9	16	19	1.68
41734019--41734545	44	11.6	45	71	16	304	27	20	19	32	1.97
41734019--41734596	182	3.1	181	84	3	721	27	20	19	32	1.97
41734019--41734596	94	6.3	92	77	9	520	27	20	19	32	1.97
41746083--41746112	4	7.5	4	100	0	60	76	0	0	23	0.78
41747351--41747411	32	1.9	31	83	9	79	1	14	11	72	1.20
41756317--41756347	16	2.0	16	93	6	55	29	6	0	64	1.18
41756661--41757165	109	4.6	109	93	1	841	30	14	19	35	1.92
41761004--41761034	16	1.9	16	93	0	53	83	6	0	9	0.79
41760997--41761038	9	5.0	9	83	13	54	80	7	0	11	0.88
41761052--41761090	6	6.3	6	83	16	53	79	0	20	0	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41762079--41762116	15	2.5	15	80	16	51	73	0	26	0	0.83
41763418--41764184	46	16.6	46	92	2	1223	26	17	27	29	1.97
41764191--41764495	50	6.3	50	76	7	272	34	21	18	25	1.96
41764191--41764495	95	3.2	96	81	10	354	34	21	18	25	1.96
41764181--41764460	145	1.9	145	88	0	416	33	21	19	25	1.97
41764191--41764495	145	2.1	145	84	1	387	34	21	18	25	1.96
41766215--41766245	16	2.0	16	93	6	55	29	6	0	64	1.18
41766559--41767063	109	4.6	109	94	0	848	30	15	19	34	1.93
41770409--41770829	132	3.2	132	85	2	549	26	23	19	30	1.98
41770820--41771448	45	14.0	45	77	6	571	29	24	17	28	1.97
41773673--41773717	23	2.0	23	95	0	81	4	15	2	77	1.02
41779911--41779969	26	2.2	27	87	6	84	33	0	0	66	0.92
41779920--41779978	26	2.2	27	78	6	66	32	1	0	66	1.02
41783470--41783515	9	5.1	9	91	0	65	15	41	8	34	1.78
41784824--41784954	13	10.2	13	76	9	117	51	6	4	38	1.48
41784824--41784953	27	5.0	27	73	12	112	50	6	4	38	1.48
41784824--41784954	40	3.4	40	82	10	166	51	6	4	38	1.48
41787414--41787438	13	1.9	13	100	0	50	32	8	8	52	1.60
41800731--41800787	24	2.4	24	96	0	105	29	12	28	29	1.93
41801058--41801432	44	8.7	41	71	12	148	31	18	22	27	1.97
41801045--41801351	130	2.4	131	90	2	460	31	19	21	27	1.97
41801318--41801425	44	2.5	44	95	0	189	30	15	21	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41804492--41804815	44	7.3	44	68	10	167	32	18	22	26	1.97
41804458--41804630	90	2.0	88	88	5	260	28	20	24	26	1.99
41804590--41804925	178	1.9	177	87	1	494	30	19	22	28	1.98
41804684--41805456	44	17.6	44	66	10	199	29	19	23	27	1.98
41804725--41805413	219	3.1	218	84	3	816	28	19	23	27	1.99
41805211--41805329	45	2.7	44	83	6	141	26	20	24	29	1.99
41804833--41805463	219	2.9	217	86	2	836	29	19	24	26	1.99
41805469--41805738	95	2.8	95	78	5	265	30	22	20	25	1.98
41805469--41805752	50	5.8	50	71	8	188	31	22	20	25	1.98
41807093--41807150	6	9.2	6	76	10	53	15	6	3	74	1.17
41807176--41807257	3	27.3	3	94	0	137	32	3	0	63	1.12
41807789--41808136	123	2.8	123	93	0	599	30	16	21	31	1.95
41811448--41811547	50	2.0	50	90	0	155	26	1	27	46	1.60
41811492--41811581	31	2.9	32	88	5	139	24	1	27	46	1.60
41811565--41811598	17	1.9	18	94	5	61	29	2	17	50	1.61
41811581--41811654	29	2.6	29	93	0	121	25	5	27	41	1.77
41811631--41811796	18	9.3	18	80	15	202	28	0	22	48	1.51
41811612--41811996	47	8.3	46	76	17	331	28	0	24	47	1.54
41811650--41811883	29	7.8	29	87	9	219	26	0	25	47	1.52
41811860--41811946	18	5.3	18	69	18	73	29	0	22	47	1.52
41811523--41811854	47	7.1	47	67	23	163	26	1	25	46	1.60
41811953--41812000	17	2.7	18	87	6	62	27	2	18	52	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41811996--41812059	25	2.5	26	84	2	94	35	12	1	50	1.50
41812468--41812502	18	1.9	18	88	0	52	31	8	34	25	1.86
41813154--41813178	7	3.6	7	100	0	50	60	12	0	28	1.32
41816126--41816160	13	2.8	13	91	4	54	31	11	0	57	1.34
41817155--41817246	13	6.9	13	83	4	103	36	5	4	53	1.44
41817161--41817246	40	2.2	40	95	0	154	36	4	4	54	1.42
41817155--41817272	13	9.3	13	77	13	86	37	6	4	51	1.48
41818677--41818743	19	3.5	19	87	2	80	28	5	8	56	1.53
41818911--41818962	26	1.9	27	88	7	79	40	0	9	50	1.35
41819635--41819670	19	1.9	19	88	5	56	50	0	8	41	1.33

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