genome.fa.s8.2.7.7.80.10.50.1000.97.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: Chr08 ID=Chr08-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  57128820

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   

This is table  97  of  190  ( 22705 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)
29145867--29146073	29	7.2	29	79	4	96	23	14	23	39	1.91
29155820--29155892	27	2.7	27	78	2	76	32	36	15	15	1.88
29160437--29160498	28	2.2	28	82	0	79	32	11	11	45	1.76
29161963--29161992	15	1.9	16	93	6	53	73	0	0	26	0.84
29168153--29168186	16	2.0	18	88	11	54	41	0	2	55	1.15
29169174--29169200	12	2.2	12	100	0	54	44	0	7	48	1.31
29169520--29169593	21	3.5	21	92	3	114	29	35	9	25	1.88
29170306--29170566	45	5.8	45	87	0	326	38	17	17	26	1.92
29170307--29170566	135	1.9	135	86	0	367	38	16	17	26	1.92
29170306--29170597	45	6.5	45	84	3	277	39	17	17	25	1.92
29170265--29170597	90	3.7	89	79	4	317	40	16	17	25	1.90
29170265--29170589	135	2.4	134	78	3	364	40	17	17	25	1.90
29170581--29170743	46	3.6	46	86	4	213	44	15	22	17	1.86
29180356--29180404	20	2.7	18	77	22	57	51	4	0	44	1.20
29185052--29185085	18	1.9	17	88	5	50	35	11	8	44	1.72
29189490--29189783	159	1.8	159	97	0	561	23	16	17	43	1.88
29191660--29191701	21	2.0	21	100	0	84	38	14	14	33	1.86
29195193--29195258	24	2.8	24	83	4	71	37	10	10	40	1.74
29196394--29196443	24	2.1	24	100	0	100	50	0	12	38	1.40
29200582--29200676	45	2.1	45	84	3	129	26	18	24	30	1.98
29200719--29200762	23	1.9	22	82	17	54	38	0	25	36	1.56
29205541--29205611	37	1.9	37	88	5	108	38	18	16	26	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29208228--29208407	81	2.2	81	84	4	231	14	12	26	46	1.80
29208228--29208388	40	4.0	40	88	1	214	14	13	25	45	1.82
29212608--29212943	50	6.7	50	91	1	530	25	22	33	19	1.97
29220001--29220185	50	3.7	50	88	1	282	25	21	30	22	1.98
29226025--29226081	20	2.9	19	81	2	69	56	3	3	36	1.34
29226011--29226123	19	6.1	18	73	11	77	54	3	1	39	1.28
29226049--29226123	11	6.7	11	69	24	50	57	1	1	40	1.16
29226821--29226849	11	2.7	11	94	5	51	27	3	0	68	1.05
29227424--29227563	31	4.5	31	88	0	208	28	10	17	43	1.81
29237172--29237317	31	4.7	31	81	5	136	30	8	16	45	1.76
29237184--29237317	62	2.2	62	86	4	182	29	6	17	46	1.73
29247251--29247320	31	2.3	31	92	0	113	28	15	12	42	1.84
29250161--29250218	29	2.0	29	83	6	73	51	12	5	31	1.61
29258940--29258997	27	2.2	25	93	6	98	44	6	13	34	1.71
29268919--29268961	21	2.0	22	82	8	54	32	2	20	44	1.65
29268919--29268966	21	2.2	22	81	7	53	35	4	18	41	1.70
29276082--29276131	12	4.2	12	80	9	50	18	22	4	56	1.58
29276397--29276492	49	2.0	49	80	0	111	23	26	23	26	2.00
29285341--29285533	50	3.8	50	90	0	296	20	30	23	25	1.98
29293250--29293295	22	2.1	22	87	0	65	39	47	4	8	1.54
29293262--29293322	11	5.5	11	76	0	59	34	49	4	11	1.61
29295574--29295605	15	2.1	16	94	5	57	34	0	15	50	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29296551--29296600	11	4.6	10	82	7	55	40	50	4	6	1.46
29296552--29296600	22	2.2	22	92	0	80	38	51	4	6	1.46
29301947--29302019	35	2.1	35	100	0	146	38	5	2	53	1.39
29302751--29302987	49	4.8	49	83	3	296	26	15	24	33	1.95
29302751--29302987	99	2.4	99	91	2	368	26	15	24	33	1.95
29306616--29306651	17	2.0	19	89	10	58	16	22	0	61	1.35
29306615--29306654	18	2.3	16	84	16	53	17	20	0	62	1.33
29320037--29320080	13	3.1	14	78	15	54	54	0	0	45	0.99
29320043--29320079	16	2.3	16	86	13	58	59	0	0	40	0.97
29320037--29320092	29	2.0	27	83	16	69	53	1	1	42	1.21
29322193--29322232	11	3.5	11	83	16	55	22	0	0	77	0.77
29322886--29322919	15	2.3	15	100	0	68	41	11	23	23	1.87
29324422--29324464	21	2.0	21	86	0	59	18	18	9	53	1.70
29326448--29326632	101	1.8	102	90	3	302	25	17	25	30	1.97
29326448--29326632	51	3.6	51	81	3	180	25	17	25	30	1.97
29326553--29326634	26	3.2	26	63	27	66	24	14	28	32	1.94
29326636--29326730	45	2.1	45	84	3	129	28	18	21	31	1.97
29334043--29334079	2	18.5	2	100	0	74	0	48	0	51	1.00
29336696--29336809	41	2.8	41	86	1	158	21	28	15	34	1.94
29336697--29336763	21	3.2	21	65	12	57	22	29	14	32	1.94
29350276--29350308	15	2.2	15	89	10	50	0	3	9	87	0.63
29353179--29353212	16	2.2	15	89	5	50	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29356840--29356879	21	1.9	21	89	0	62	22	25	22	30	1.99
29369847--29369887	20	2.0	20	100	0	82	39	4	14	41	1.67
29383701--29383762	31	2.1	30	82	17	76	45	8	17	29	1.77
29385296--29385325	16	1.9	16	93	6	53	50	20	0	30	1.49
29387288--29387462	50	3.4	50	84	4	206	26	23	28	21	1.99
29392713--29392750	18	2.1	18	95	0	67	28	13	31	26	1.93
29393267--29393330	31	2.1	31	100	0	128	31	0	31	37	1.58
29406997--29407049	25	2.1	25	85	0	70	28	20	22	28	1.99
29407004--29407072	25	2.8	24	77	20	70	27	18	26	27	1.98
29415783--29415840	31	1.9	30	82	10	73	34	15	6	43	1.74
29416028--29416091	25	2.5	25	84	2	74	31	17	23	28	1.97
29429486--29429517	12	2.6	13	85	14	50	56	6	0	37	1.25
29433097--29433149	27	2.0	27	85	7	72	47	16	18	16	1.83
29439226--29439359	50	2.6	51	81	3	146	22	17	29	30	1.97
29439226--29439367	51	2.8	49	80	3	158	23	18	28	29	1.98
29454167--29454206	19	2.1	19	85	0	53	15	0	12	72	1.12
29454725--29455123	207	1.9	207	95	0	726	35	15	18	30	1.92
29466383--29466502	40	3.0	40	98	0	231	39	7	10	42	1.68
29476838--29476968	41	3.2	40	78	5	109	26	15	25	32	1.95
29481199--29481225	14	1.9	14	100	0	54	22	7	25	44	1.79
29484067--29484097	15	2.1	15	93	0	53	22	32	19	25	1.97
29486954--29486987	16	2.2	16	89	5	52	50	0	44	5	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29489278--29489317	20	2.0	20	100	0	80	75	15	5	5	1.15
29489502--29489540	12	3.4	12	86	13	64	30	10	0	58	1.31
29489497--29489540	22	2.0	22	100	0	88	27	9	0	63	1.24
29489497--29489533	10	3.5	10	86	13	56	21	8	0	70	1.13
29496913--29496992	22	3.6	22	75	0	79	40	45	2	12	1.56
29496908--29496992	11	7.7	11	71	15	59	41	44	2	11	1.54
29504683--29504778	35	2.8	35	79	1	104	39	13	17	29	1.88
29507328--29507385	29	2.0	29	89	0	89	32	12	15	39	1.84
29508129--29508247	35	3.4	35	81	4	125	40	15	15	28	1.88
29511399--29511435	15	2.6	15	87	8	51	64	21	13	0	1.27
29512840--29512873	12	2.9	12	91	4	52	23	5	8	61	1.47
29513114--29513314	106	1.9	106	90	0	321	30	19	17	31	1.96
29514942--29515046	27	3.9	27	81	8	117	40	19	19	20	1.91
29515037--29515126	27	3.4	25	83	11	110	33	18	23	24	1.97
29515107--29515159	27	2.0	27	82	10	65	26	16	18	37	1.93
29515148--29515229	24	3.5	23	78	5	83	21	7	23	47	1.75
29515293--29515357	27	2.4	27	80	14	73	20	24	21	33	1.97
29515311--29515363	27	2.0	27	81	7	63	22	26	20	30	1.98
29515401--29515536	32	4.2	32	76	5	125	18	19	24	37	1.94
29515432--29515573	64	2.2	64	78	5	151	19	19	21	38	1.93
29515595--29515659	22	3.0	21	77	4	58	20	20	16	43	1.89
29526615--29526648	17	1.9	18	88	5	52	17	35	0	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29526562--29526722	70	2.2	72	85	9	213	24	34	1	39	1.64
29535167--29535282	61	1.9	58	83	8	144	40	5	3	50	1.41
29539323--29539352	11	2.7	11	94	0	51	30	0	0	70	0.88
29548499--29548585	43	2.0	43	100	0	174	34	18	13	33	1.90
29569872--29569920	17	2.8	17	84	9	71	44	0	0	55	0.99
29569872--29569922	12	4.2	12	75	9	59	45	0	0	54	0.99
29569894--29570011	61	2.0	58	88	5	173	43	2	4	50	1.35
29569819--29569965	67	2.2	65	78	12	161	42	1	4	52	1.29
29569898--29570033	58	2.3	60	83	8	163	44	2	5	47	1.40
29581873--29581929	30	1.9	30	85	0	78	21	24	29	24	1.99

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