genome.fa.s13.2.7.7.80.10.50.1000.136.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  136  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)
41212189--41212336	79	1.9	79	82	2	190	18	31	18	31	1.95
41212136--41212330	39	4.9	40	77	1	115	21	29	16	32	1.95
41214017--41214054	16	2.4	16	86	8	51	26	5	0	68	1.11
41214159--41214202	19	2.3	19	96	4	79	38	0	6	54	1.27
41215216--41215375	81	2.0	82	84	1	214	40	10	7	41	1.68
41215995--41216039	22	2.0	22	86	0	63	28	8	26	35	1.87
41216024--41216077	23	2.3	23	90	0	81	20	3	25	50	1.65
41220245--41220289	22	2.0	22	91	0	72	28	6	28	35	1.83
41220417--41220490	6	12.3	6	100	0	148	50	16	0	33	1.45
41220490--41220552	32	2.0	32	96	0	117	38	9	17	34	1.82
41229286--41229318	17	1.9	17	93	0	57	39	6	27	27	1.80
41230275--41230304	8	3.8	8	100	0	60	10	0	0	90	0.47
41231540--41231571	6	5.3	6	100	0	64	15	0	0	84	0.63
41243569--41243613	19	2.4	18	81	3	54	51	0	42	6	1.28
41245976--41246037	2	31.0	2	90	0	97	48	3	1	46	1.28
41254134--41254197	13	4.9	13	92	0	110	23	10	26	39	1.88
41254134--41254197	26	2.5	26	100	0	128	23	10	26	39	1.88
41258014--41258141	19	6.7	19	69	15	68	38	1	2	57	1.21
41262354--41262529	74	2.4	73	88	7	259	54	11	6	27	1.60
41264815--41265290	97	4.9	101	80	9	483	56	14	0	28	1.43
41265800--41265850	17	3.1	17	83	10	61	58	0	0	41	0.98
41275357--41275385	15	1.9	15	100	0	58	34	20	13	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41276833--41276938	51	2.1	51	100	0	212	38	9	33	18	1.83
41285576--41285613	15	2.6	15	83	4	51	71	2	7	18	1.23
41289605--41289629	8	3.1	8	100	0	50	12	24	0	64	1.27
41289674--41289717	23	1.9	22	82	17	54	36	25	0	38	1.56
41289763--41289855	45	2.1	45	89	0	141	32	21	19	26	1.97
41289861--41290043	51	3.6	50	78	3	188	31	25	18	24	1.97
41289859--41290045	101	1.8	101	86	3	268	31	26	17	24	1.97
41302865--41302906	20	2.0	22	86	9	61	26	2	2	69	1.13
41302865--41302931	29	2.4	28	85	7	93	25	4	2	67	1.24
41306244--41306327	27	3.6	22	76	20	73	21	5	4	67	1.31
41308503--41308617	49	2.3	49	89	2	169	28	28	20	22	1.98
41312714--41313277	151	3.7	150	85	7	689	42	11	4	42	1.61
41313616--41313651	3	12.0	3	100	0	72	66	0	0	33	0.92
41317316--41317356	20	2.0	20	85	0	55	68	2	9	19	1.29
41334792--41334826	14	2.4	15	90	9	63	40	0	5	54	1.24
41338654--41338784	45	2.9	45	79	2	147	40	12	20	26	1.88
41353449--41353502	24	2.3	23	82	17	67	62	1	1	33	1.16
41354318--41354347	3	10.0	3	100	0	60	33	0	0	66	0.92
41366962--41367000	20	2.0	20	85	5	53	38	2	2	56	1.27
41368742--41368775	2	17.0	2	93	0	59	47	0	2	50	1.16
41369856--41369901	20	2.3	21	85	7	60	34	0	6	58	1.24
41370121--41370159	2	19.5	2	100	0	78	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41370796--41370898	51	2.0	51	94	0	179	33	20	12	33	1.90
41371506--41371554	15	3.4	14	80	8	53	20	4	2	73	1.10
41371468--41371554	22	4.0	21	74	22	65	20	4	4	70	1.24
41375538--41375586	12	3.8	12	77	17	53	59	0	4	36	1.17
41376933--41376966	13	2.8	12	91	8	52	20	0	0	79	0.73
41377236--41377365	41	3.1	41	68	18	113	30	20	20	29	1.98
41377236--41377406	85	2.0	85	85	2	227	28	21	18	30	1.97
41377343--41377677	44	7.5	44	69	13	184	28	21	18	31	1.97
41377469--41377701	129	1.8	129	98	0	448	27	22	18	31	1.97
41377519--41377703	44	4.3	44	72	12	157	28	23	18	29	1.98
41391481--41391514	13	2.8	12	91	8	52	20	0	0	79	0.73
41403542--41403569	2	14.0	2	100	0	56	50	0	50	0	1.00
41412709--41412753	22	2.0	22	83	12	56	33	6	8	51	1.59
41422863--41422924	26	2.3	26	94	2	106	38	19	29	12	1.89
41428367--41428399	16	2.1	17	88	11	52	33	15	0	51	1.43
41434984--41435118	41	3.3	41	93	0	225	28	25	18	28	1.98
41435243--41435315	36	2.0	36	100	0	146	32	19	12	35	1.89
41435253--41435323	36	2.2	31	82	14	81	35	16	11	36	1.85
41435825--41435862	2	19.5	2	86	5	51	52	2	0	44	1.14
41436163--41436192	2	15.0	2	100	0	60	50	0	0	50	1.00
41438589--41438724	47	2.9	47	86	1	191	24	23	19	33	1.97
41438693--41438861	91	1.9	91	82	5	216	27	21	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41444173--41444197	2	12.5	2	100	0	50	52	0	48	0	1.00
41444604--41444654	17	2.8	17	83	16	59	35	0	5	58	1.22
41446257--41446331	30	2.6	28	76	17	73	40	2	0	57	1.13
41448762--41448795	2	17.0	2	100	0	68	50	0	0	50	1.00
41448900--41448933	2	17.0	2	100	0	68	50	0	0	50	1.00
41449826--41449851	13	2.0	13	100	0	52	30	15	7	46	1.74
41459765--41459828	28	2.3	28	89	2	94	31	23	23	21	1.99
41459933--41459982	26	2.0	24	81	11	57	38	16	26	20	1.92
41460174--41460280	27	3.9	27	83	3	133	21	17	19	41	1.91
41460273--41460334	27	2.3	27	97	0	115	16	14	24	45	1.84
41464628--41464819	41	4.7	41	80	5	185	34	23	22	19	1.96
41464628--41464812	82	2.3	82	83	5	232	34	23	22	20	1.97
41475216--41475280	3	21.7	3	100	0	130	67	32	0	0	0.91
41493116--41493239	50	2.7	44	83	13	185	36	2	20	40	1.66
41493802--41493862	3	20.3	3	100	0	122	34	0	0	65	0.93
41497509--41497605	21	4.6	21	66	5	61	44	17	23	14	1.86
41497494--41497605	42	2.7	41	79	5	125	42	17	25	14	1.87
41497507--41497605	42	2.4	42	82	3	128	43	17	24	15	1.87
41499124--41499178	26	2.1	26	100	0	110	49	10	7	32	1.65
41503029--41503076	3	16.0	3	100	0	96	66	33	0	0	0.92
41510857--41510888	16	1.9	17	93	6	57	37	21	0	40	1.54
41511057--41511205	43	3.5	42	82	10	180	28	28	20	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41511049--41511206	84	1.9	84	85	7	223	29	28	20	22	1.98
41532648--41532766	50	2.6	45	83	13	177	36	2	21	39	1.67
41532935--41532982	10	4.6	10	82	10	60	50	6	2	41	1.39
41532945--41532990	22	2.0	23	95	4	85	54	4	2	39	1.32
41533878--41533965	43	2.0	43	100	0	176	29	15	23	30	1.96
41545478--41545594	41	2.8	43	82	8	134	30	25	19	23	1.98
41552464--41552495	16	1.9	17	93	6	57	37	21	0	40	1.54
41552656--41552855	43	4.7	43	85	8	207	29	28	20	22	1.99
41552656--41552855	84	2.3	86	83	8	241	29	28	20	22	1.99
41567459--41567577	50	2.6	45	83	13	177	36	2	21	39	1.67
41567746--41567793	10	4.6	10	82	10	60	50	6	2	41	1.39
41567756--41567802	22	2.1	23	96	4	87	53	4	2	40	1.32
41567745--41567810	32	2.1	32	88	5	98	53	4	3	39	1.37
41568171--41568195	3	8.3	3	100	0	50	36	0	0	64	0.94
41568694--41568781	43	2.0	43	100	0	176	29	15	23	30	1.96
41573830--41573935	21	5.0	21	68	0	77	43	16	24	15	1.87
41573788--41573944	42	3.8	41	79	3	143	45	15	23	15	1.85
41578662--41578717	3	18.7	3	96	0	85	62	32	5	0	1.18
41586544--41586583	3	13.3	3	100	0	80	65	0	0	35	0.93
41596080--41596111	16	1.9	17	93	6	57	37	21	0	40	1.54
41596272--41596442	43	4.0	43	78	11	174	31	26	18	23	1.97
41596272--41596429	84	1.9	84	84	5	212	30	27	18	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41614023--41614128	21	5.0	21	68	0	68	44	16	23	15	1.86
41613981--41614137	42	3.8	41	79	3	152	45	15	22	15	1.84
41615371--41615429	28	2.1	28	100	0	118	30	23	6	38	1.81
41616061--41616092	3	10.7	3	100	0	64	68	31	0	0	0.90
41620118--41620188	35	2.0	36	88	2	108	38	4	28	29	1.76
41620139--41620188	16	2.8	18	73	14	50	38	2	28	32	1.68
41623658--41623794	47	2.9	46	85	7	179	54	0	2	43	1.15
41625163--41625202	2	21.0	2	85	10	57	47	0	2	50	1.14
41625404--41625505	28	3.5	29	82	9	102	54	0	2	42	1.15
41625374--41625602	50	4.4	50	66	24	127	51	3	3	40	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   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