genome.fa.s13.2.7.7.80.10.50.1000.178.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  178  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)
51327195--51327453	90	2.9	90	86	4	344	28	17	27	25	1.98
51327195--51327453	135	1.9	135	86	3	369	28	17	27	25	1.98
51330283--51330322	21	1.9	21	94	0	71	15	27	12	45	1.82
51336039--51336071	11	2.8	12	90	9	50	15	15	9	60	1.58
51338349--51338472	36	3.5	36	69	8	101	23	18	21	36	1.95
51343686--51343980	143	2.1	141	87	2	412	23	18	18	39	1.92
51350039--51350069	12	2.6	12	89	0	53	70	0	29	0	0.87
51351017--51351079	31	2.0	31	81	6	74	53	17	1	26	1.52
51361057--51361103	22	2.1	22	92	0	76	14	19	48	17	1.81
51362298--51362361	19	3.3	19	89	8	101	39	9	14	37	1.78
51362299--51362374	21	3.7	21	92	3	120	40	10	11	36	1.76
51363356--51363422	27	2.6	25	77	17	73	40	1	7	50	1.39
51365534--51365579	25	1.9	24	91	8	76	26	8	2	63	1.35
51366866--51366916	21	2.4	21	83	0	66	27	25	31	15	1.96
51379677--51379715	18	2.1	19	85	4	53	66	5	0	28	1.12
51381254--51381289	19	1.9	18	88	5	54	50	0	0	50	1.00
51381261--51381312	13	4.1	13	75	20	56	48	0	1	50	1.12
51381271--51381320	25	2.0	26	96	4	93	44	0	2	54	1.11
51385825--51385890	30	2.1	30	86	8	87	56	12	6	25	1.59
51386740--51386786	20	2.6	18	75	15	51	53	2	0	44	1.12
51388902--51388932	13	2.3	14	94	5	55	32	0	0	67	0.91
51393713--51393745	2	16.5	2	93	0	57	51	45	0	3	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51394912--51394965	25	2.2	25	86	6	74	27	0	5	66	1.13
51399088--51399246	21	7.6	21	86	2	194	43	16	23	16	1.87
51399130--51399262	21	6.3	21	84	5	99	44	16	24	15	1.86
51399962--51400056	21	4.5	22	76	7	81	16	20	15	47	1.83
51399968--51400087	42	2.9	42	85	0	141	17	20	15	46	1.84
51399989--51400090	21	4.9	21	75	0	87	17	21	14	46	1.84
51399987--51400090	42	2.5	42	88	0	145	18	21	15	45	1.86
51404587--51404663	23	3.6	22	69	22	56	48	1	0	50	1.09
51406477--51406565	28	3.1	27	78	10	88	62	1	5	30	1.25
51406468--51406608	10	14.7	10	65	16	57	63	0	6	29	1.24
51406449--51406604	19	8.3	19	66	9	77	64	0	6	28	1.23
51406790--51406864	9	7.7	9	72	14	51	30	1	1	66	1.08
51409256--51409282	2	13.5	2	100	0	54	48	0	0	51	1.00
51415200--51415240	3	13.7	3	100	0	82	31	0	0	68	0.90
51418014--51418182	84	2.0	84	96	0	311	20	27	13	39	1.90
51418727--51418754	2	14.0	2	100	0	56	50	0	0	50	1.00
51420350--51420397	22	2.4	22	80	13	59	43	6	2	47	1.40
51424551--51424602	22	2.4	22	90	0	77	23	28	15	32	1.95
51424563--51424605	22	2.0	22	100	0	86	23	25	13	37	1.92
51427725--51427774	2	25.0	2	100	0	100	50	0	0	50	1.00
51435565--51435628	19	3.4	19	82	6	85	43	0	0	56	0.99
51435556--51435627	15	5.4	14	73	24	66	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51447066--51447115	15	3.4	15	75	8	50	62	0	10	28	1.27
51447771--51447796	12	2.2	12	100	0	52	61	0	0	38	0.96
51460412--51460488	22	3.5	22	82	10	102	24	28	1	45	1.61
51460412--51460486	33	2.2	33	84	13	100	24	29	1	45	1.61
51460412--51460488	11	6.9	11	74	21	72	24	28	1	45	1.61
51460448--51460547	51	2.0	51	88	4	148	27	25	3	45	1.68
51461688--51461712	7	3.6	7	100	0	50	28	0	16	56	1.41
51462357--51462391	18	1.9	18	88	0	52	20	28	8	42	1.81
51462940--51463003	26	2.3	28	78	10	78	43	29	1	25	1.64
51462947--51462999	26	2.0	27	88	3	81	41	32	1	24	1.66
51462967--51463093	21	6.0	21	81	1	155	47	26	1	24	1.61
51462970--51463087	43	2.8	41	86	6	164	46	27	1	24	1.62
51462967--51463090	64	2.0	63	85	1	167	45	27	1	25	1.62
51466266--51466657	125	3.1	125	90	2	619	29	23	16	30	1.96
51466266--51466707	125	3.5	123	86	4	575	29	23	16	30	1.96
51466824--51466865	16	2.6	16	88	0	66	52	26	0	21	1.47
51466821--51466883	23	2.7	23	71	11	56	50	30	0	19	1.47
51469547--51469608	31	2.0	31	87	6	90	51	4	8	35	1.53
51471445--51471558	40	2.8	41	86	6	142	35	26	13	24	1.92
51472449--51472554	53	2.0	53	96	0	194	35	16	8	38	1.80
51472450--51472532	26	3.2	26	62	21	64	34	19	7	38	1.79
51485615--51485671	10	5.4	10	74	12	51	38	0	1	59	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51487736--51487783	14	3.2	15	82	14	55	35	6	14	43	1.71
51487767--51487812	19	2.3	20	96	3	85	23	10	17	47	1.79
51487888--51487930	18	2.4	18	96	0	77	46	2	0	51	1.13
51495745--51495783	18	2.1	19	86	13	55	53	2	38	5	1.37
51498495--51498562	34	2.0	34	97	0	127	17	25	17	39	1.91
51500333--51500413	40	2.0	40	95	0	144	24	12	4	58	1.54
51500339--51500402	21	3.2	20	67	24	53	23	12	4	59	1.52
51500347--51500410	20	3.2	20	70	16	69	23	9	6	60	1.50
51510394--51510436	22	2.0	22	81	9	52	58	13	11	16	1.64
51520138--51520175	16	2.4	16	82	8	51	44	0	10	44	1.38
51534342--51534410	24	2.7	27	78	10	65	30	24	1	43	1.63
51534554--51534622	3	23.0	3	87	0	102	60	2	0	36	1.11
51534882--51534910	15	1.9	15	100	0	58	0	17	6	75	1.01
51534937--51534983	3	15.7	3	95	0	85	63	0	2	34	1.06
51535118--51535163	14	3.3	14	93	0	83	56	2	0	41	1.11
51540131--51540214	2	42.0	2	100	0	168	50	0	0	50	1.00
51543968--51544007	2	20.0	2	87	10	55	45	0	5	50	1.23
51546818--51546851	11	3.1	11	100	0	68	26	29	17	26	1.98
51551970--51551994	12	2.1	12	100	0	50	8	0	32	60	1.26
51558870--51558895	3	8.7	3	100	0	52	0	65	0	34	0.93
51567822--51568208	192	2.0	192	100	0	774	37	16	6	38	1.76
51576661--51576722	12	5.6	12	77	14	53	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51576690--51576724	6	5.8	6	100	0	70	48	0	0	51	1.00
51584117--51584153	9	4.1	9	89	0	56	48	13	8	29	1.71
51591409--51591508	42	2.4	42	94	0	173	38	10	26	26	1.87
51593589--51593818	40	5.8	40	83	0	253	26	23	21	29	1.99
51593590--51593818	80	2.9	80	87	0	305	26	23	20	29	1.99
51593589--51593805	120	1.8	120	83	2	292	26	23	21	29	1.99
51601314--51601382	31	2.3	31	75	7	72	42	0	1	56	1.08
51617409--51617458	15	3.3	15	72	5	55	28	16	6	50	1.68
51617407--51617459	16	3.4	16	75	15	65	28	15	5	50	1.66
51617398--51617460	31	2.0	31	100	0	126	28	15	6	49	1.69
51642568--51642617	26	1.9	26	84	8	66	58	10	2	30	1.42
51666391--51666564	93	1.9	92	84	5	235	29	9	16	44	1.80
51666669--51666723	27	2.0	27	89	7	83	61	7	1	29	1.33
51667752--51667838	39	2.3	36	84	11	104	34	3	9	52	1.50
51667626--51667838	76	2.7	77	74	10	200	35	4	10	50	1.56
51669035--51669094	21	2.8	21	87	5	84	40	11	16	31	1.85
51674371--51675083	151	4.7	153	80	9	746	29	10	7	52	1.64
51675405--51675509	4	26.2	4	76	22	82	0	24	0	74	0.88
51675409--51675501	34	2.7	34	96	0	168	1	24	0	74	0.89
51675405--51675511	14	7.0	14	77	20	99	0	25	0	73	0.89
51675414--51675522	14	7.7	13	77	17	78	0	28	0	70	0.93
51677798--51677830	2	16.5	2	100	0	66	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51678183--51678221	19	2.0	20	85	5	53	43	5	7	43	1.55
51684761--51685166	219	1.9	219	93	0	704	17	28	19	35	1.94
51685873--51685901	12	2.5	12	94	5	51	37	0	0	62	0.96
51686538--51686724	55	3.4	55	75	7	171	25	5	20	48	1.72
51689339--51689414	37	2.1	37	87	0	107	32	23	14	28	1.94
51704656--51704769	36	3.2	35	80	10	99	39	17	8	34	1.81
51705891--51706166	78	3.5	78	95	2	484	43	14	3	39	1.63
51705788--51706166	156	2.5	153	86	5	487	42	15	3	37	1.65
51711532--51711562	2	15.5	2	100	0	62	51	0	0	48	1.00
51719452--51719532	38	2.1	38	100	0	162	37	16	19	27	1.93

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