genome.fa.s9.2.7.7.80.10.50.1000.97.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: Chr09 ID=Chr09-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  70713020

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   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226   

This is table  97  of  226  ( 27023 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)
33411973--33412160	51	3.7	51	79	8	222	28	13	26	31	1.94
33411973--33412161	101	1.9	102	85	3	265	28	13	26	31	1.94
33421691--33421766	23	3.3	23	96	0	143	31	26	21	21	1.98
33421853--33421881	8	3.6	8	100	0	58	34	27	13	24	1.93
33427295--33427370	23	3.3	23	96	0	143	31	26	21	21	1.98
33427457--33427485	8	3.6	8	100	0	58	34	27	13	24	1.93
33427590--33427628	18	2.2	17	86	13	53	46	20	0	33	1.51
33440734--33440789	25	2.2	25	83	0	67	35	16	12	35	1.86
33440742--33440794	25	2.1	25	92	0	88	32	16	13	37	1.88
33441567--33441738	73	2.4	72	90	2	265	24	25	27	23	2.00
33441638--33441953	114	2.8	114	91	0	515	25	22	26	25	2.00
33441871--33442040	74	2.3	73	84	3	225	26	22	27	23	1.99
33441745--33442132	188	2.1	187	85	3	530	26	20	26	26	1.99
33441567--33442130	302	1.9	300	87	2	837	25	22	26	25	2.00
33442449--33442478	14	2.1	14	100	0	60	26	0	33	40	1.57
33442563--33442604	14	2.9	15	82	6	52	16	0	47	35	1.47
33442593--33442627	14	2.5	14	90	9	54	22	0	45	31	1.53
33443419--33443743	109	3.0	108	86	3	451	48	10	12	28	1.74
33446147--33446247	13	7.6	13	67	12	53	42	9	4	42	1.59
33446161--33446194	14	2.5	14	90	4	52	47	11	0	41	1.40
33446171--33446255	27	3.2	26	70	17	84	44	10	4	40	1.60
33446288--33446330	19	2.3	18	81	14	52	51	4	0	44	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33446344--33446371	13	2.2	13	100	0	56	42	7	7	42	1.59
33448468--33448515	25	1.9	25	100	0	96	35	16	18	29	1.93
33449114--33449156	21	2.1	20	91	4	68	48	39	0	11	1.40
33449198--33449256	7	8.6	7	79	3	57	20	0	32	47	1.50
33449204--33449258	14	4.0	14	80	2	67	21	0	34	43	1.53
33449758--33449793	3	12.0	3	100	0	72	66	0	0	33	0.92
33449842--33450038	98	2.0	97	96	1	358	37	9	20	32	1.85
33451907--33451938	2	16.0	2	100	0	64	50	50	0	0	1.00
33453848--33454114	41	6.6	41	85	1	367	19	28	16	34	1.94
33454029--33454093	20	3.2	20	63	16	53	13	30	20	35	1.91
33454050--33454114	21	3.2	21	68	14	64	18	32	20	29	1.96
33465925--33465977	3	17.7	3	76	0	52	60	5	1	32	1.31
33479443--33479495	3	17.7	3	76	0	52	60	5	1	32	1.31
33482998--33483039	19	2.2	19	83	8	50	19	2	9	69	1.28
33489297--33489372	29	2.5	31	78	8	93	32	9	7	50	1.63
33490689--33491001	153	2.0	155	90	2	495	43	4	5	46	1.46
33490935--33490976	15	2.7	16	82	14	52	52	2	0	45	1.13
33490944--33490985	15	2.9	15	82	10	52	52	0	0	47	1.00
33490933--33491230	120	2.5	121	92	3	494	48	5	3	42	1.40
33491054--33491105	15	3.6	15	80	12	56	53	1	0	44	1.11
33491271--33491318	26	1.9	25	84	16	64	52	2	0	45	1.12
33491226--33491454	92	2.5	92	82	8	227	47	4	3	44	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33494677--33494953	48	5.8	48	92	1	477	37	8	6	47	1.60
33494681--33494953	95	2.9	95	98	0	528	37	8	6	46	1.61
33496960--33496997	15	2.5	15	100	0	76	44	21	26	7	1.79
33509352--33509431	15	5.4	15	72	12	60	60	0	6	33	1.22
33509352--33509409	23	2.6	23	79	20	61	62	0	3	34	1.12
33509940--33509983	22	2.0	23	86	4	63	63	2	2	31	1.19
33527256--33527307	24	2.2	24	89	0	77	50	9	3	36	1.54
33529777--33529852	39	1.9	39	100	0	152	36	15	5	42	1.70
33529784--33529847	18	3.2	20	66	26	55	31	17	4	46	1.68
33531448--33531535	38	2.3	38	94	0	149	35	14	20	29	1.93
33538331--33538398	20	3.4	20	70	0	55	33	17	32	16	1.92
33553115--33553187	7	10.4	7	76	5	67	32	15	0	52	1.43
33553113--33553188	28	2.7	27	82	8	89	32	15	0	51	1.44
33553115--33553187	21	3.5	21	78	0	74	32	15	0	52	1.43
33558988--33559063	25	3.0	25	82	0	80	32	19	27	19	1.96
33559082--33559307	25	9.2	24	70	15	97	37	21	23	17	1.94
33561956--33562020	30	2.1	31	85	2	87	58	12	7	21	1.59
33562368--33562595	10	23.4	9	68	18	93	63	3	2	31	1.23
33562368--33562588	20	11.4	19	69	11	108	63	3	2	30	1.24
33562397--33562595	10	20.0	10	71	10	106	62	3	2	31	1.23
33562407--33562605	68	2.9	66	73	14	154	62	3	2	31	1.23
33562571--33562643	25	2.8	25	73	8	67	60	1	0	38	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33562953--33563116	10	17.3	10	65	13	62	29	1	6	62	1.30
33563001--33563164	10	17.6	9	71	13	93	31	2	6	60	1.34
33563001--33563054	19	2.8	20	81	10	60	31	0	7	61	1.24
33562952--33563119	28	5.9	28	71	15	114	30	1	5	61	1.30
33563001--33563164	29	5.9	27	74	15	120	31	2	6	60	1.34
33563103--33563153	26	2.0	25	88	11	77	27	5	7	58	1.49
33563316--33563501	29	6.7	27	73	21	152	33	1	4	61	1.23
33563316--33563517	10	21.8	9	73	16	139	32	0	4	62	1.22
33563314--33563517	19	10.9	18	69	18	116	32	0	4	62	1.22
33563789--33563833	23	1.9	24	86	4	65	68	2	2	26	1.12
33563940--33563974	15	2.2	16	90	5	54	31	0	0	68	0.90
33563882--33563975	20	5.2	17	69	21	66	34	2	2	61	1.20
33568575--33568601	13	2.1	13	100	0	54	29	48	0	22	1.51
33569256--33569280	3	8.3	3	100	0	50	0	32	0	68	0.90
33569828--33569872	24	1.9	24	86	4	65	73	2	2	22	1.05
33576577--33576620	20	2.2	20	88	8	63	18	18	4	59	1.55
33578832--33579053	122	1.8	122	84	1	302	31	23	14	29	1.95
33579326--33579363	10	4.0	10	90	10	62	21	28	0	50	1.49
33582471--33582926	95	4.8	95	82	4	474	31	18	12	36	1.89
33582480--33582963	190	2.6	189	82	1	567	31	18	12	36	1.89
33597355--33597388	17	1.9	18	94	5	61	2	23	23	50	1.63
33597604--33597720	44	2.7	44	83	0	144	34	21	16	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33597643--33597946	92	3.4	88	80	8	240	33	17	16	32	1.93
33597692--33598001	92	3.3	92	84	4	367	32	17	16	33	1.92
33597920--33598177	137	1.9	137	91	1	428	30	22	16	31	1.96
33597598--33598178	51	12.7	45	66	15	183	32	19	16	31	1.94
33598286--33598606	44	6.8	44	66	16	151	27	22	20	29	1.98
33597920--33598463	143	3.9	143	82	6	526	28	21	18	30	1.97
33598294--33598561	98	2.7	98	87	2	351	27	21	20	30	1.98
33598161--33598615	241	1.9	241	86	0	660	27	22	20	29	1.98
33602205--33602257	27	2.0	27	88	3	81	26	33	22	16	1.96
33602183--33602544	105	3.5	104	92	1	566	30	30	19	19	1.96
33602873--33602937	30	2.2	29	81	8	76	30	27	6	35	1.81
33602880--33602937	30	1.9	30	85	0	80	31	24	6	37	1.82
33608036--33608146	41	2.7	41	83	1	125	29	20	19	29	1.97
33608397--33608454	12	4.6	12	77	12	62	44	10	3	41	1.55
33615909--33615971	25	2.4	27	79	10	78	68	4	6	20	1.31
33617791--33617832	6	7.2	6	79	15	52	40	0	0	59	0.97
33617791--33617844	18	3.2	17	79	7	58	40	0	0	59	0.98
33618270--33618346	15	5.3	14	73	22	61	5	20	0	74	1.01
33618820--33618855	15	2.3	16	85	9	56	61	0	0	38	0.96
33618875--33618944	15	4.6	15	72	19	56	50	1	1	47	1.19
33619183--33619237	27	2.1	26	90	10	85	52	3	3	40	1.36
33624252--33624296	21	2.1	21	83	0	54	2	42	20	35	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
33629215--33629269	25	2.2	25	93	0	92	45	3	27	23	1.69
33631725--33631757	17	1.9	17	100	0	66	12	30	12	45	1.78
33637634--33637708	22	3.5	21	75	15	64	65	4	1	29	1.19
33639296--33639568	44	6.2	44	90	2	388	27	25	20	26	1.99
33643409--33643462	26	2.1	26	100	0	108	18	11	29	40	1.85
33646550--33646609	3	20.7	3	75	13	54	66	3	1	28	1.17
33646540--33646609	21	3.2	21	80	15	72	65	4	1	28	1.20
33646546--33646609	28	2.2	31	81	13	75	67	3	1	28	1.15
33647231--33647266	17	2.1	18	94	5	65	69	5	16	8	1.33
33653430--33653491	19	3.3	18	73	22	56	61	0	1	37	1.06

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   203   204   205   206   207   208   
          209   210   211   212   213   214   215   216   217   218   219   220   221   222   223   224   
          225   226