genome.fa.s10.2.7.7.80.10.50.1000.186.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: Chr10 ID=Chr10-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62175169

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   

This is table  186  of  202  ( 24201 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)
57133376--57133449	38	1.9	38	100	0	148	25	2	21	50	1.62
57140604--57140639	18	2.0	18	88	0	54	72	2	13	11	1.23
57141344--57141377	18	2.0	17	88	11	52	58	0	5	35	1.22
57141602--57141643	21	2.0	21	86	4	59	50	4	2	42	1.36
57142415--57142561	68	2.2	68	83	4	190	29	20	19	30	1.97
57143190--57143232	22	1.9	22	85	4	59	46	0	16	37	1.47
57145590--57145664	25	3.1	25	84	5	93	44	16	20	20	1.87
57150397--57150469	25	2.9	25	72	0	65	31	15	27	26	1.95
57150496--57150661	25	6.6	25	70	9	99	34	19	25	20	1.96
57150578--57150667	26	3.5	25	74	4	74	33	22	25	18	1.97
57152653--57152871	110	2.0	109	92	5	363	48	11	17	22	1.79
57173797--57173833	2	18.5	2	88	0	56	43	2	2	51	1.30
57176636--57176682	21	2.3	21	81	3	60	51	2	0	46	1.13
57177207--57177251	23	2.0	23	95	0	81	46	4	13	35	1.63
57180201--57180225	13	1.9	13	100	0	50	88	0	12	0	0.53
57182722--57182764	19	2.3	19	84	8	52	32	4	2	60	1.30
57185613--57185645	13	2.4	14	90	5	50	42	0	0	57	0.98
57186067--57186131	31	2.1	31	85	2	85	36	15	13	33	1.87
57186566--57186672	56	1.9	55	90	1	169	41	12	7	39	1.71
57187494--57187530	15	2.5	15	100	0	74	37	24	13	24	1.91
57202208--57202240	16	2.1	16	100	0	66	30	0	6	63	1.18
57202714--57202744	15	2.1	15	100	0	62	32	54	0	12	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57205400--57205447	24	2.0	25	84	12	64	33	25	14	27	1.94
57209284--57209410	63	2.0	63	84	3	166	22	29	25	22	1.99
57209979--57210021	2	22.5	2	83	9	54	53	0	0	46	1.00
57212118--57212157	21	2.0	21	90	5	64	52	0	0	47	1.00
57214177--57214249	27	2.7	26	81	12	69	61	1	2	34	1.19
57214164--57214251	9	9.8	9	69	14	56	63	2	2	31	1.19
57214307--57214354	20	2.5	20	86	3	62	58	0	6	35	1.23
57214294--57214357	20	3.4	19	75	12	60	60	1	4	32	1.26
57218705--57218740	17	2.1	17	100	0	72	69	5	0	25	1.10
57218701--57218781	26	3.0	27	78	7	85	64	3	0	32	1.11
57218707--57218827	9	13.3	9	70	22	60	65	4	2	28	1.24
57219202--57219251	8	6.1	8	81	4	64	64	0	0	36	0.94
57219209--57219258	25	2.0	25	100	0	100	64	0	0	36	0.94
57219955--57219997	2	21.5	2	100	0	86	48	0	0	51	1.00
57222117--57222222	3	35.0	3	79	9	108	33	5	0	59	1.27
57222883--57223104	109	2.0	110	87	2	322	31	17	18	33	1.94
57229456--57229495	2	20.0	2	100	0	80	50	0	0	50	1.00
57229638--57229672	2	17.5	2	100	0	70	51	0	0	48	1.00
57235596--57235635	17	2.5	17	84	11	50	0	15	2	82	0.77
57236949--57237008	29	2.0	31	90	6	97	38	0	41	20	1.52
57237507--57237643	63	2.2	64	81	2	170	24	27	25	21	1.99
57243643--57243681	2	19.5	2	100	0	78	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)
57244790--57244832	2	21.5	2	100	0	86	51	0	0	48	1.00
57252380--57252456	13	5.9	13	90	0	118	25	7	25	40	1.83
57253264--57253310	22	2.1	24	84	11	64	57	4	10	27	1.51
57260973--57261009	17	2.2	18	85	9	51	56	2	0	40	1.13
57262139--57262175	13	2.8	14	84	12	51	16	27	0	56	1.40
57268710--57268743	3	11.3	3	87	12	52	29	0	35	35	1.58
57271297--57271337	2	20.5	2	100	0	82	51	0	48	0	1.00
57275178--57275618	147	3.0	147	85	1	580	34	14	26	25	1.94
57281097--57281161	16	4.1	16	71	9	62	29	24	6	40	1.79
57288840--57288897	18	3.4	17	74	6	55	63	1	0	34	1.04
57291639--57291688	25	2.0	25	100	0	100	36	8	8	48	1.62
57292667--57292705	2	19.5	2	89	10	62	46	0	2	51	1.14
57292673--57292709	12	3.1	12	92	7	58	43	0	5	51	1.24
57293225--57293259	10	3.7	9	88	11	52	60	0	0	40	0.97
57295469--57295511	20	2.3	18	88	8	59	67	0	4	27	1.10
57295672--57295703	16	1.9	17	93	6	57	43	0	0	56	0.99
57295677--57295725	22	2.2	22	85	0	62	51	2	2	44	1.24
57295821--57295848	9	3.1	9	100	0	56	32	0	10	57	1.33
57296578--57296623	24	1.9	24	86	8	67	63	0	0	36	0.95
57297853--57297918	31	2.2	31	80	2	80	45	6	12	36	1.66
57300257--57301002	302	2.5	301	90	3	1152	30	15	20	33	1.93
57303139--57303163	13	1.9	13	100	0	50	20	8	40	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57303828--57303860	15	2.3	15	89	5	50	54	0	18	27	1.44
57304571--57304596	13	2.0	13	100	0	52	23	15	23	38	1.92
57305298--57305369	22	3.2	22	66	11	65	43	4	8	44	1.53
57307954--57307985	15	2.1	15	94	0	55	37	18	31	12	1.88
57308839--57308879	20	2.0	20	95	0	73	34	9	12	43	1.75
57309049--57309092	16	2.6	16	89	7	61	59	6	0	34	1.24
57309050--57309101	9	6.0	9	91	8	72	61	3	0	34	1.14
57309050--57309103	25	2.2	25	93	0	90	59	3	0	37	1.15
57309188--57309237	21	2.3	21	82	3	55	44	2	2	52	1.24
57309471--57309541	37	2.0	34	83	10	88	52	0	2	45	1.15
57312678--57312738	28	2.2	28	82	5	70	19	3	9	67	1.34
57317544--57317608	32	2.0	33	96	3	123	56	12	12	18	1.66
57319340--57319377	19	2.0	20	89	5	60	50	2	5	42	1.39
57320105--57320146	21	2.0	21	85	4	57	59	0	0	40	0.97
57321196--57321353	54	2.9	53	75	21	155	29	1	5	64	1.22
57321196--57321261	27	2.3	29	82	10	73	31	0	3	65	1.08
57321191--57321353	56	3.1	53	76	18	160	29	1	4	64	1.22
57322918--57322979	26	2.3	26	86	8	81	61	1	1	35	1.16
57322933--57322984	10	5.6	10	80	13	58	67	0	0	32	0.91
57331684--57331742	29	2.0	30	90	3	93	28	6	15	49	1.70
57331694--57331751	30	2.0	29	86	10	82	32	8	10	48	1.68
57339852--57339898	24	2.0	24	82	0	58	65	14	12	6	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57347421--57347471	2	26.0	2	96	4	95	50	0	0	49	1.00
57348024--57348117	48	2.0	48	80	4	109	21	22	18	38	1.93
57350387--57350415	12	2.3	13	94	5	51	44	13	13	27	1.82
57358048--57358097	23	2.2	22	85	3	64	58	4	0	38	1.17
57358059--57358102	23	1.9	23	90	9	72	54	2	0	43	1.12
57373594--57373632	14	2.7	14	84	4	51	46	10	10	33	1.72
57373659--57373693	17	2.1	17	100	0	70	34	0	11	54	1.37
57374943--57374992	26	2.0	24	85	14	66	52	6	8	34	1.55
57375117--57375149	13	2.5	14	90	9	52	63	12	15	9	1.51
57380241--57380281	5	8.2	5	87	12	50	63	0	0	36	0.95
57382719--57382837	60	2.0	60	100	0	238	31	23	13	31	1.93
57383296--57383337	12	3.5	12	81	9	50	7	11	14	66	1.43
57383654--57383695	19	2.2	19	95	0	75	47	16	11	23	1.80
57397612--57397663	24	2.2	24	82	0	59	42	21	17	19	1.89
57397714--57397780	26	2.6	25	79	11	73	35	22	25	16	1.94
57401475--57401508	15	2.1	16	89	10	52	38	0	2	58	1.13
57401904--57401940	19	1.9	19	88	0	56	29	2	8	59	1.40
57404403--57404439	19	1.9	19	88	0	56	51	0	10	37	1.37
57407879--57408792	44	20.6	43	76	7	417	30	24	13	31	1.94
57407919--57408213	45	6.6	45	73	4	249	27	25	17	29	1.97
57407880--57408819	89	10.6	89	84	2	808	30	24	14	30	1.94
57407880--57408819	310	3.0	309	84	3	1084	30	24	14	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57410106--57410151	15	3.2	15	78	12	51	13	15	2	69	1.28
57411413--57411525	33	3.6	31	81	14	144	16	22	28	32	1.96
57411411--57411525	60	1.9	60	92	3	196	16	21	29	32	1.95
57411446--57411671	102	2.2	102	91	0	371	20	20	26	31	1.97
57413749--57413788	18	2.2	18	86	0	53	67	7	15	10	1.41
57415062--57415087	5	5.2	5	100	0	52	42	19	19	19	1.90
57415541--57415571	9	3.4	9	90	0	53	38	22	12	25	1.90
57416277--57416322	19	2.4	19	85	7	58	47	8	19	23	1.77
57416769--57416803	16	2.2	16	94	0	61	42	25	17	14	1.86
57418308--57418354	2	24.0	2	95	4	87	51	0	0	48	1.00

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