genome.fa.s13.2.7.7.80.10.50.1000.127.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  127  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)
38461028--38461301	40	6.9	40	85	0	352	34	19	27	19	1.96
38461191--38461281	20	4.6	19	68	8	56	38	18	26	16	1.92
38461873--38461931	24	2.5	24	88	0	82	42	5	38	13	1.66
38466776--38466818	16	2.7	16	81	0	50	41	16	25	16	1.88
38488159--38488293	71	1.9	71	90	0	216	31	28	14	25	1.95
38491936--38491970	9	3.9	9	88	0	52	34	14	0	51	1.42
38497249--38497312	34	1.9	34	87	6	96	78	4	9	7	1.09
38499435--38499718	50	5.7	48	67	12	144	30	23	21	24	1.99
38499424--38499783	100	3.6	100	86	2	479	31	22	21	24	1.98
38499473--38499732	50	5.2	50	73	2	252	31	23	20	24	1.98
38499495--38499782	50	5.7	50	71	1	200	32	22	20	24	1.98
38499758--38499807	25	2.0	25	84	0	64	40	20	14	26	1.90
38499708--38499858	75	2.0	75	90	2	241	34	20	20	24	1.96
38499820--38500106	50	5.8	49	75	4	261	34	22	18	24	1.96
38499608--38499958	175	2.0	175	88	2	517	32	21	20	25	1.98
38499783--38500090	100	3.1	100	90	2	485	35	22	17	24	1.95
38499507--38500057	275	2.0	276	88	1	818	33	22	19	24	1.97
38500082--38500131	25	2.0	25	84	0	64	36	20	18	26	1.95
38499883--38500314	224	1.9	225	84	2	582	34	21	18	24	1.96
38500107--38500314	100	2.1	100	84	1	265	35	21	19	24	1.96
38501019--38501053	16	2.3	15	90	5	52	0	14	5	80	0.89
38501684--38501718	9	3.9	9	88	0	52	34	14	0	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38509579--38509773	27	7.3	27	74	5	119	38	18	18	24	1.93
38509602--38509775	54	3.2	53	78	5	179	38	17	20	23	1.93
38509606--38509746	53	2.6	54	83	5	171	39	17	19	23	1.92
38509602--38509809	27	7.7	27	75	7	104	38	18	20	22	1.93
38509713--38509829	27	4.4	26	74	15	89	35	20	22	21	1.96
38509846--38509942	24	4.0	24	81	6	108	22	5	24	47	1.71
38510128--38510266	32	4.4	32	80	4	138	22	20	17	39	1.92
38510128--38510252	64	2.0	64	85	3	171	23	20	17	38	1.93
38510376--38510464	37	2.4	37	100	0	178	8	13	38	39	1.76
38515984--38516042	20	3.0	20	76	11	50	50	13	6	28	1.67
38518727--38518751	3	8.3	3	100	0	50	0	32	0	68	0.90
38520313--38520374	30	2.1	30	84	6	81	50	11	6	32	1.64
38527256--38527302	19	2.5	19	73	10	51	23	8	2	65	1.31
38544338--38544381	19	2.3	19	88	0	61	56	27	2	13	1.49
38547007--38547406	91	4.4	91	90	6	619	49	10	9	29	1.69
38547019--38547389	187	2.0	187	95	2	665	49	10	10	29	1.71
38547595--38547640	22	2.2	20	82	14	58	30	8	2	58	1.40
38547602--38547652	22	2.3	22	100	0	102	27	7	3	60	1.42
38547718--38547769	17	3.1	17	91	0	86	38	9	1	50	1.46
38548156--38548217	19	3.2	19	76	13	72	50	14	16	19	1.79
38560960--38560984	13	1.9	13	100	0	50	0	12	0	88	0.53
38570321--38570723	89	4.5	89	85	1	486	27	22	24	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38570523--38570666	44	3.3	43	68	18	107	27	26	26	19	1.99
38570753--38570960	99	2.1	100	88	0	301	31	21	22	25	1.98
38570745--38570918	50	3.5	50	76	1	188	31	20	24	23	1.98
38570745--38570960	50	4.3	50	74	5	170	31	20	23	25	1.98
38571060--38571180	45	2.7	44	83	3	136	27	20	27	24	1.99
38571592--38571619	6	4.7	6	100	0	56	85	0	0	14	0.59
38573255--38573313	26	2.3	26	90	0	91	27	25	20	27	1.99
38575461--38575503	19	2.3	19	91	0	68	65	2	2	30	1.18
38583670--38583712	20	2.2	20	87	8	61	48	0	0	51	1.00
38585592--38585634	2	21.5	2	100	0	86	48	0	0	51	1.00
38592782--38592864	25	4.0	20	75	20	73	57	2	0	39	1.12
38592813--38592862	25	2.0	25	96	0	91	54	2	0	44	1.11
38599043--38599118	29	2.6	29	85	0	107	27	3	13	55	1.55
38599187--38599212	13	2.0	13	100	0	52	53	15	7	23	1.67
38602837--38602956	40	2.9	41	80	11	106	20	30	28	21	1.98
38608517--38608922	113	3.6	114	78	5	437	34	16	21	27	1.95
38608484--38608849	114	3.2	114	77	4	416	33	16	21	28	1.95
38608461--38608940	227	2.1	227	89	1	721	34	16	21	27	1.95
38611721--38611795	9	8.8	9	82	11	79	44	18	2	34	1.64
38611730--38611802	32	2.2	33	85	9	96	46	17	2	32	1.63
38621533--38621582	21	2.4	21	86	0	73	36	18	44	2	1.61
38621941--38622176	42	5.6	42	90	1	346	22	17	22	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38621941--38622176	85	2.8	84	89	1	355	22	17	22	36	1.94
38621941--38622176	127	1.9	127	92	1	402	22	17	22	36	1.94
38629533--38629587	22	2.5	22	79	8	58	23	7	12	56	1.61
38632487--38632540	19	2.7	20	80	11	65	62	0	9	27	1.25
38632774--38632818	20	2.2	22	88	11	69	28	2	6	62	1.33
38632774--38632818	19	2.2	21	88	7	67	28	2	6	62	1.33
38632844--38632913	8	7.9	9	70	20	58	31	0	2	65	1.07
38633824--38633890	24	2.9	24	78	8	59	61	1	2	34	1.20
38633846--38633909	34	1.9	33	83	3	83	62	1	0	35	1.05
38646259--38646305	12	3.8	12	83	5	58	46	8	14	29	1.74
38647196--38647273	34	2.2	35	82	15	99	1	10	6	82	0.91
38647208--38647271	17	3.4	18	79	12	67	1	9	4	84	0.83
38647196--38647271	36	2.1	37	85	7	102	1	9	6	82	0.88
38647657--38647715	28	2.1	28	87	0	82	79	0	6	13	0.92
38647657--38647708	5	10.8	5	81	4	54	78	0	7	13	0.94
38652663--38652807	12	11.6	12	71	15	80	46	9	14	28	1.76
38652663--38652722	25	2.4	25	86	5	77	46	10	15	28	1.77
38652663--38652722	13	4.8	13	87	6	79	46	10	15	28	1.77
38652707--38652751	23	2.0	22	83	12	56	51	11	13	24	1.73
38654437--38654461	10	2.5	10	100	0	50	60	28	0	12	1.32
38663457--38663533	23	3.2	23	75	13	91	29	22	23	24	1.99
38663459--38663533	27	3.0	25	79	12	100	30	22	22	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38665341--38665462	23	5.3	23	85	0	181	22	20	26	31	1.98
38665341--38665462	46	2.7	46	93	0	208	22	20	26	31	1.98
38674770--38674798	15	1.9	15	100	0	58	55	0	0	44	0.99
38683891--38683965	34	2.2	34	80	0	87	29	25	20	25	1.99
38683910--38683964	17	3.2	17	77	10	58	27	29	21	21	1.99
38697788--38697825	18	2.1	19	85	9	53	23	5	0	71	1.07
38699772--38699857	43	2.0	43	95	0	154	43	19	11	25	1.85
38700907--38700960	27	2.1	26	83	13	67	57	0	3	38	1.17
38701046--38701144	38	2.6	39	70	15	98	45	10	4	40	1.57
38704550--38704584	16	2.1	17	89	5	54	37	0	51	11	1.38
38708567--38708605	17	2.3	17	95	0	69	43	15	0	41	1.46
38709438--38709561	30	4.1	30	91	1	194	26	23	6	43	1.78
38709448--38709555	15	7.2	15	66	12	69	26	21	7	44	1.78
38714137--38714260	30	4.1	30	93	1	203	25	24	6	43	1.78
38714147--38714254	15	7.2	15	67	12	78	25	22	7	44	1.79
38714527--38714566	21	1.9	21	89	0	62	17	7	2	72	1.19
38715185--38715238	24	2.2	24	96	0	99	27	29	12	29	1.94
38716184--38716245	6	10.7	6	81	11	67	1	17	0	80	0.79
38716180--38716235	14	3.9	14	79	6	60	1	19	0	78	0.84
38716180--38716239	21	2.9	22	85	7	72	1	20	0	78	0.84
38716323--38716355	14	2.3	15	89	5	50	24	30	15	30	1.95
38720703--38720847	74	2.0	74	91	2	238	35	17	19	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38721206--38721300	42	2.3	41	79	13	104	57	3	7	31	1.42
38721427--38721473	18	2.6	18	82	0	58	61	4	6	27	1.39
38723271--38723305	17	2.1	17	89	5	54	40	0	8	51	1.33
38732320--38732361	15	2.7	16	78	17	52	69	0	7	23	1.13
38737783--38737851	31	2.2	31	85	10	88	53	8	8	28	1.61
38739383--38739449	34	1.9	35	87	3	100	31	8	14	44	1.76
38741773--38741809	18	2.1	18	89	0	56	32	29	0	37	1.58
38755840--38756163	86	3.8	85	76	9	259	41	14	12	32	1.83
38759729--38759808	22	3.5	23	75	17	78	38	20	23	17	1.93
38759731--38759819	47	2.0	47	84	10	123	37	19	23	20	1.94

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