genome.fa.s3.2.7.7.80.10.50.1000.102.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  102  of  150  ( 17918 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)
31896920--31897069	47	3.2	47	68	21	143	52	4	0	42	1.25
31896924--31897106	93	2.0	94	96	1	341	51	4	1	42	1.30
31896926--31897053	17	7.0	17	67	20	71	53	3	0	41	1.24
31897079--31897134	28	2.0	28	100	0	112	53	10	0	35	1.36
31896906--31897265	121	3.0	118	77	15	432	52	5	0	41	1.29
31898659--31898762	49	2.1	49	92	0	172	50	9	7	32	1.64
31901108--31901146	16	2.5	16	95	4	71	71	0	0	28	0.86
31902655--31902798	78	1.8	78	86	0	207	25	14	25	34	1.94
31904102--31904162	22	2.8	22	92	0	95	34	14	26	24	1.94
31907383--31907410	13	2.2	13	100	0	56	78	7	0	14	0.95
31930782--31930848	34	1.9	35	93	3	118	46	11	8	32	1.72
31932365--31932421	29	2.0	29	92	0	96	12	40	12	35	1.80
31935034--31935094	19	3.1	19	81	9	70	47	1	0	50	1.10
31935321--31935384	13	4.9	13	81	7	85	39	21	6	32	1.79
31936976--31937109	54	2.5	52	80	7	146	27	24	26	20	1.99
31947110--31947318	54	3.9	54	86	0	256	30	27	21	21	1.98
31950164--31950348	51	3.7	50	75	7	178	30	27	17	25	1.97
31950162--31950346	101	1.8	101	87	5	275	30	26	17	25	1.97
31956462--31956663	90	2.3	89	82	5	230	36	23	11	28	1.90
31956679--31956786	45	2.4	46	84	7	132	60	0	1	37	1.14
31956727--31956773	19	2.5	20	80	13	55	55	0	0	44	0.99
31956748--31956819	36	2.0	36	86	2	99	59	2	2	34	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31956998--31957085	29	3.1	28	73	15	81	34	5	2	57	1.34
31957015--31957125	19	5.9	18	70	16	66	36	3	0	59	1.21
31956977--31957123	57	2.6	56	80	10	163	32	5	2	59	1.31
31960749--31960778	4	7.2	4	92	7	51	53	0	0	46	1.00
31960749--31960790	12	3.2	13	90	6	59	52	2	0	45	1.13
31961955--31962042	42	2.1	42	89	0	131	17	21	35	26	1.95
31963359--31963407	20	2.5	20	83	6	64	24	26	34	14	1.94
31963399--31963561	60	2.7	59	79	3	173	36	17	31	15	1.91
31964653--31964690	20	1.9	20	89	10	60	47	31	5	15	1.68
31965784--31965851	34	2.0	34	88	5	102	25	22	22	30	1.99
31965818--31965874	25	2.3	25	87	6	80	24	22	24	28	2.00
31969840--31969888	3	16.3	3	95	0	89	32	2	0	65	1.04
31972196--31972224	14	2.0	15	93	6	51	75	10	6	6	1.17
31985543--31985674	70	1.9	70	85	3	185	30	30	17	21	1.96
31998252--31998302	17	3.0	17	76	21	61	43	0	0	56	0.99
31998263--31998302	19	2.1	19	85	0	53	45	0	0	55	0.99
32006183--32006227	18	2.4	18	85	3	63	40	20	0	40	1.52
32007083--32007157	23	3.3	23	94	0	132	22	17	21	38	1.93
32007142--32007193	21	2.4	21	87	6	68	15	23	26	34	1.94
32007083--32007174	46	2.0	46	86	0	130	21	18	21	38	1.94
32007159--32007202	21	2.1	21	91	0	70	18	27	22	31	1.97
32016750--32016782	8	4.0	8	96	4	57	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32020579--32020603	13	1.9	13	100	0	50	20	8	32	40	1.81
32020558--32020612	20	2.8	20	74	0	65	20	9	38	32	1.84
32022214--32022248	17	1.9	19	88	11	56	45	0	5	48	1.26
32022374--32022409	2	18.0	2	100	0	72	50	0	0	50	1.00
32026441--32026470	9	3.3	9	100	0	60	70	0	0	30	0.88
32026508--32026572	26	2.4	25	80	16	69	58	3	1	36	1.23
32026662--32026728	9	7.9	8	83	6	62	31	1	1	65	1.10
32028774--32028883	29	3.8	29	79	4	132	47	10	18	24	1.79
32028767--32028883	58	2.0	58	88	0	171	48	10	17	23	1.77
32029292--32029360	33	2.1	32	81	7	77	40	4	11	43	1.61
32031607--32031696	41	2.2	41	90	4	137	31	20	18	30	1.96
32037847--32037879	12	2.6	13	85	9	50	24	36	30	9	1.86
32038399--32038489	21	4.4	21	72	16	75	20	4	1	73	1.07
32038405--32038523	53	2.2	52	78	12	127	21	5	2	70	1.19
32044627--32044789	50	3.3	48	74	5	137	25	20	23	30	1.98
32044601--32044789	100	1.9	100	88	2	290	25	20	21	32	1.97
32044720--32044869	80	1.9	80	92	0	255	26	20	25	28	1.99
32044620--32044969	180	1.9	180	90	0	547	25	20	24	30	1.98
32044800--32045043	50	4.9	50	72	7	217	23	18	24	32	1.97
32044800--32045050	100	2.5	100	97	0	466	24	19	23	32	1.98
32045332--32046165	88	9.5	88	88	1	998	22	24	25	28	1.99
32045332--32046165	263	3.2	263	85	2	1052	22	24	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32045757--32045896	44	3.2	44	66	8	113	22	22	27	27	1.99
32045933--32046069	43	3.2	43	64	17	111	24	22	24	28	1.99
32047108--32047152	22	2.0	22	100	0	90	33	13	22	31	1.92
32047373--32047408	6	5.7	6	87	12	54	13	13	0	72	1.13
32047363--32047411	7	7.3	7	82	17	68	16	16	0	67	1.24
32047372--32047408	13	2.8	13	100	0	74	13	13	0	72	1.11
32047363--32047411	20	2.5	19	90	6	71	16	16	0	67	1.24
32048108--32048151	13	3.2	13	81	9	52	4	18	0	77	0.94
32053468--32053595	64	2.0	64	100	0	256	40	21	15	21	1.91
32055075--32055099	13	1.9	13	100	0	50	64	8	0	28	1.22
32056147--32056251	29	3.6	29	87	5	133	46	8	24	20	1.78
32063681--32063779	23	4.3	23	83	5	137	31	25	21	22	1.98
32078872--32078901	12	2.5	12	94	0	51	23	40	30	6	1.80
32082498--32082594	24	4.0	25	86	4	119	35	16	28	19	1.94
32086497--32086532	18	2.0	18	88	0	54	36	2	0	61	1.11
32087288--32087351	25	2.6	25	78	14	69	57	1	1	39	1.17
32087856--32087904	23	2.1	24	84	3	64	67	10	8	14	1.42
32091846--32091945	26	3.9	25	74	2	83	22	20	24	34	1.97
32099466--32099566	26	3.9	26	81	8	100	20	20	22	35	1.96
32099466--32099566	52	2.0	51	82	5	123	20	20	22	35	1.96
32104015--32104072	26	2.2	26	100	0	116	34	20	27	17	1.95
32104816--32104857	20	2.1	20	86	0	57	11	33	35	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32112279--32112359	28	2.9	28	78	10	85	28	20	18	32	1.97
32122529--32122675	41	3.6	41	84	6	167	21	28	14	35	1.93
32122545--32122676	40	3.3	41	86	6	153	22	28	14	34	1.93
32138604--32138647	22	2.0	21	86	4	61	40	6	11	40	1.68
32139578--32139628	20	2.5	20	80	0	57	47	1	5	45	1.38
32140418--32140972	114	4.9	112	89	2	815	24	23	26	25	2.00
32141223--32141253	15	2.1	15	93	0	53	19	0	45	35	1.51
32141264--32141312	23	2.1	23	85	7	64	24	2	40	32	1.67
32141498--32141575	21	3.7	21	75	10	70	24	0	35	39	1.56
32144294--32144357	19	3.3	19	69	4	65	67	7	1	23	1.26
32144963--32144991	3	9.7	3	100	0	58	0	31	0	68	0.89
32148409--32148636	43	5.3	43	82	2	253	22	17	30	29	1.96
32149156--32149475	41	7.8	40	90	2	424	20	21	29	28	1.98
32149157--32149475	82	3.9	82	89	0	478	20	21	29	28	1.98
32149161--32149475	123	2.6	122	87	2	486	20	21	28	28	1.98
32150647--32150703	27	2.1	27	100	0	114	57	3	17	21	1.54
32152087--32152180	46	2.0	46	100	0	188	22	17	19	41	1.90
32154541--32154704	43	3.8	43	85	3	206	25	15	31	27	1.96
32154687--32154729	22	2.0	22	90	0	68	41	25	20	11	1.86
32169608--32169771	44	3.6	43	81	14	193	32	15	21	29	1.95
32169749--32169792	7	6.3	7	81	0	52	36	6	31	25	1.82
32169749--32169792	21	2.1	21	91	0	70	36	6	31	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32169615--32169779	51	3.4	51	80	11	209	33	14	23	28	1.94
32169715--32169837	64	1.9	65	94	1	221	33	11	26	28	1.91
32185389--32185422	17	2.1	16	88	5	50	8	0	17	73	1.08
32193125--32193746	46	13.6	46	79	9	558	30	16	21	31	1.95
32195796--32195956	79	2.0	79	95	0	286	31	20	24	24	1.98
32223421--32223476	29	1.9	29	88	0	85	39	5	17	37	1.73
32224434--32224460	14	1.9	14	100	0	54	59	3	0	37	1.15
32225619--32225663	20	2.2	21	92	4	74	64	4	11	20	1.42
32227219--32227247	13	2.3	13	94	5	51	51	3	10	34	1.53
32232888--32232964	29	2.7	27	74	16	68	9	7	14	68	1.37

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