genome.fa.s13.2.7.7.80.10.50.1000.177.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  177  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)
51076683--51076756	29	2.6	28	82	10	96	21	22	36	18	1.95
51084306--51084411	29	3.7	29	92	0	140	18	23	37	19	1.94
51088573--51088601	2	14.5	2	100	0	58	51	0	0	48	1.00
51095882--51095935	21	2.6	21	96	0	99	33	14	29	22	1.94
51099087--51099122	19	1.9	18	88	5	54	58	5	8	27	1.50
51099346--51099396	3	17.0	3	95	0	93	64	0	0	35	0.94
51099558--51099604	3	15.3	3	91	4	76	63	0	2	34	1.06
51099697--51099740	18	2.4	18	92	0	70	61	4	4	29	1.36
51099697--51099740	3	14.7	3	82	0	52	61	4	4	29	1.36
51101812--51101840	14	2.1	14	100	0	58	34	13	20	31	1.92
51102954--51103003	23	2.3	23	82	6	59	72	8	10	10	1.30
51103694--51103724	8	3.9	8	95	0	53	16	0	0	83	0.64
51103872--51103915	4	11.0	4	85	0	52	25	6	0	68	1.14
51104039--51104086	3	16.3	3	79	12	55	31	2	4	62	1.26
51107990--51108041	27	1.9	27	84	0	68	38	25	19	17	1.93
51112004--51112118	41	2.8	41	89	0	176	26	20	22	31	1.98
51118216--51118258	20	2.2	20	87	8	61	34	0	2	62	1.08
51118185--51118251	15	4.3	15	67	10	53	41	0	2	55	1.15
51119018--51119090	37	1.9	38	83	8	96	43	1	23	31	1.62
51119548--51119579	7	4.6	7	96	0	55	53	0	15	31	1.43
51121752--51121795	21	2.1	21	100	0	88	25	9	27	38	1.86
51124683--51124726	19	2.3	19	84	0	61	34	0	2	63	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51125160--51125648	171	2.8	168	78	6	464	31	12	8	47	1.71
51125347--51126020	370	1.8	373	81	6	846	31	13	8	46	1.74
51132941--51133337	111	3.6	110	91	2	591	33	20	15	30	1.93
51133868--51133892	3	8.3	3	100	0	50	68	32	0	0	0.90
51135368--51136406	44	24.0	43	68	11	248	26	21	20	30	1.98
51135383--51135757	129	2.9	129	92	0	608	26	20	20	31	1.98
51135595--51136719	218	5.2	218	93	0	1819	27	22	20	30	1.98
51136298--51137109	390	2.1	390	94	0	1419	27	22	19	30	1.98
51136076--51137327	608	2.1	608	93	0	2144	27	21	20	30	1.98
51136080--51136884	87	9.3	85	72	10	357	27	22	20	30	1.98
51136684--51137330	218	3.0	218	94	0	1114	27	21	20	31	1.98
51135595--51137325	436	4.0	432	85	3	1670	27	21	20	30	1.98
51138585--51138647	25	2.5	26	85	15	87	11	9	7	71	1.31
51138594--51138652	25	2.5	25	89	8	88	10	10	8	71	1.32
51142718--51143114	111	3.6	110	88	3	548	34	19	14	30	1.93
51143455--51143515	23	2.7	23	80	7	70	55	0	3	40	1.16
51143647--51143671	12	2.1	12	100	0	50	24	36	24	16	1.94
51143829--51143896	9	7.4	9	79	9	75	41	26	8	23	1.83
51143982--51144041	31	1.9	31	93	6	104	21	1	23	53	1.55
51144028--51144066	13	2.9	13	88	3	60	17	0	41	41	1.50
51144293--51144338	3	15.3	3	100	0	92	67	32	0	0	0.91
51144337--51144383	3	15.7	3	100	0	94	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51145766--51145805	19	2.1	19	86	9	55	55	7	7	30	1.56
51152743--51152777	15	2.3	15	90	0	52	2	11	0	85	0.69
51155963--51156391	106	4.1	105	92	3	693	31	18	17	32	1.94
51158531--51158568	2	19.0	2	100	0	76	50	0	50	0	1.00
51168587--51168645	28	2.0	30	90	9	95	30	13	25	30	1.94
51177242--51177280	17	2.4	16	83	8	51	25	0	5	69	1.09
51184730--51184827	11	8.3	11	72	20	56	42	3	30	23	1.69
51184730--51184827	22	4.6	22	67	19	73	42	3	30	23	1.69
51185037--51185095	19	2.9	22	63	17	54	18	20	32	28	1.96
51185721--51185807	33	2.9	28	75	20	77	50	10	14	24	1.74
51185734--51185799	33	2.0	33	88	5	98	50	13	13	22	1.77
51185851--51185909	21	2.8	21	77	15	59	47	1	1	49	1.21
51188336--51188399	33	1.9	33	90	0	101	53	12	12	21	1.71
51188451--51188509	21	2.8	21	77	15	59	47	1	1	49	1.21
51188529--51188565	16	2.3	17	81	13	51	40	0	2	56	1.13
51188663--51188718	31	1.9	31	85	10	82	46	0	0	53	1.00
51188943--51188969	14	1.9	14	100	0	54	44	14	0	40	1.46
51189897--51189941	15	2.8	17	78	21	53	60	4	2	33	1.29
51195950--51195993	21	2.1	21	86	0	61	31	9	0	59	1.29
51196207--51196233	5	5.4	5	100	0	54	0	18	0	81	0.69
51203827--51203871	24	2.0	23	86	8	65	57	2	2	37	1.23
51204774--51204805	2	16.0	2	93	0	55	50	3	0	46	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51214154--51214197	18	2.6	17	82	7	54	52	9	20	18	1.72
51215580--51215644	29	2.2	30	86	10	89	43	0	3	53	1.16
51215595--51215660	32	2.2	29	83	8	78	43	1	1	53	1.19
51215738--51215831	38	2.5	38	81	6	93	34	4	6	55	1.45
51215906--51215948	2	21.5	2	100	0	86	48	0	0	51	1.00
51217678--51217729	24	2.2	24	89	0	77	55	9	1	32	1.43
51220744--51220782	16	2.5	16	84	15	55	17	2	0	79	0.84
51228140--51228194	29	2.0	28	82	7	67	12	21	5	60	1.53
51236188--51236220	16	2.1	16	94	0	57	33	6	36	24	1.80
51236201--51236288	45	2.0	44	84	6	115	34	5	25	35	1.79
51236500--51236582	43	1.9	43	82	7	105	53	2	2	42	1.27
51236408--51237002	120	5.0	120	95	1	973	51	4	1	42	1.32
51236664--51236976	18	15.9	18	65	21	105	52	3	1	43	1.25
51236784--51236975	56	3.3	55	74	19	208	52	3	1	43	1.24
51244492--51244555	31	2.1	31	100	0	128	17	28	12	42	1.85
51264760--51264905	30	4.9	30	96	0	265	23	24	38	13	1.91
51266259--51266293	15	2.3	15	90	0	52	31	22	0	45	1.53
51271198--51271292	26	3.8	25	72	15	70	50	3	10	35	1.53
51271534--51271580	2	24.0	2	87	12	71	51	2	0	46	1.13
51271406--51271682	140	2.0	143	95	3	508	52	6	6	34	1.54
51271669--51271736	3	22.7	3	96	0	127	66	1	0	32	1.01
51272427--51272464	14	2.8	13	88	11	58	81	2	2	13	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51273029--51273083	28	2.0	28	100	0	110	7	32	18	41	1.78
51273165--51273910	44	17.3	43	73	6	404	23	23	22	30	1.99
51273165--51273882	87	8.3	87	75	9	560	23	22	22	31	1.99
51273203--51273910	131	5.4	130	79	7	548	23	23	22	31	1.99
51273247--51273795	175	3.2	175	83	4	598	23	22	21	31	1.98
51273874--51274687	44	18.3	46	72	11	431	27	23	20	29	1.99
51274037--51274283	134	1.9	132	84	5	336	27	24	21	26	1.99
51274203--51274599	134	2.9	134	85	4	489	26	23	20	29	1.99
51273874--51274685	358	2.3	351	84	7	991	27	23	20	29	1.99
51274076--51274552	224	2.1	221	87	3	679	27	24	20	27	1.99
51275962--51276012	20	2.7	20	84	6	61	13	13	0	72	1.12
51277710--51277765	25	2.1	28	77	12	64	55	7	16	21	1.64
51281681--51281775	26	3.8	25	72	15	70	50	3	10	35	1.53
51282018--51282057	3	13.3	3	94	0	71	67	2	0	30	1.04
51282742--51282799	25	2.4	23	81	13	64	77	3	6	12	1.09
51286728--51286787	25	2.6	23	77	12	68	36	10	1	51	1.45
51287141--51287174	17	2.0	17	88	11	52	58	0	0	41	0.98
51293103--51293149	21	2.2	22	96	3	87	34	21	21	23	1.97
51296830--51296906	37	2.1	37	85	7	104	38	10	1	49	1.45
51297558--51297600	22	2.0	22	86	9	61	16	0	37	46	1.47
51297549--51297596	7	6.7	7	77	13	53	16	0	39	43	1.48
51297627--51297917	96	3.1	92	81	7	277	39	3	17	40	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
51297704--51297923	96	2.3	96	88	1	325	41	3	19	35	1.68
51297960--51298372	126	3.3	126	92	0	657	34	18	20	26	1.96
51301576--51301643	34	2.0	34	88	2	100	44	8	5	41	1.60
51301757--51301805	21	2.3	22	85	3	64	14	10	40	34	1.79
51301765--51301812	21	2.3	21	82	7	62	16	12	33	37	1.86
51302053--51302095	18	2.4	18	80	0	50	41	9	27	20	1.83
51315170--51315211	2	21.0	2	100	0	84	0	50	0	50	1.00
51316872--51316898	14	1.9	14	100	0	54	0	11	0	88	0.50
51318237--51318264	7	4.0	7	100	0	56	14	28	28	28	1.95
51327216--51327453	45	5.3	44	87	4	298	29	17	28	24	1.97

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