genome.fa.s13.2.7.7.80.10.50.1000.97.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: 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  97  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)
29698615--29698684	16	4.4	16	83	0	68	37	1	30	31	1.66
29698663--29698753	44	2.0	44	81	10	105	34	4	25	36	1.76
29698898--29698939	15	2.7	16	82	14	52	52	2	0	45	1.13
29698907--29698948	15	2.9	15	82	10	52	52	0	0	47	1.00
29698896--29699247	120	2.9	120	92	2	582	50	4	2	42	1.36
29699038--29699072	18	2.0	17	94	5	61	57	0	0	42	0.99
29704059--29704087	6	5.0	6	95	4	51	48	34	0	17	1.47
29704615--29704670	3	18.7	3	100	0	112	32	0	0	67	0.91
29705235--29705267	17	1.9	17	88	11	50	27	0	9	63	1.24
29705694--29705861	7	24.0	7	77	4	83	29	24	2	43	1.67
29705694--29705783	21	4.3	21	83	5	101	31	23	0	45	1.53
29708118--29708190	25	2.9	25	80	9	78	26	17	5	50	1.68
29717112--29717170	29	2.0	29	100	0	118	38	6	20	33	1.79
29720032--29720087	24	2.3	24	82	14	62	30	5	16	48	1.68
29720086--29720147	27	2.3	27	91	0	97	29	11	16	43	1.82
29721514--29721573	28	2.1	28	87	0	84	35	20	13	31	1.91
29738807--29738868	18	3.4	18	79	2	70	74	6	0	19	1.03
29742136--29742192	30	1.9	30	82	7	71	45	3	0	50	1.18
29746448--29746476	6	4.8	6	100	0	58	31	0	17	51	1.45
29748820--29749023	83	2.5	82	91	3	329	51	16	6	25	1.68
29749100--29749556	158	2.9	156	83	3	551	32	13	17	36	1.89
29753591--29753678	44	2.0	44	100	0	176	27	15	2	54	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29756502--29756571	35	2.0	35	100	0	140	54	8	22	14	1.67
29758029--29758103	6	12.8	6	78	12	50	70	9	8	12	1.33
29758018--29758082	34	1.9	33	87	3	94	72	10	7	9	1.29
29758069--29758102	13	2.8	12	90	4	50	73	8	2	14	1.19
29758020--29758102	40	2.1	40	86	6	116	74	8	7	9	1.21
29758998--29759023	13	2.0	13	100	0	52	69	0	15	15	1.20
29760257--29760377	44	2.8	43	83	3	118	29	22	23	24	1.99
29760275--29760377	44	2.3	44	84	0	134	31	20	25	23	1.98
29760427--29760522	44	2.2	44	83	3	122	33	17	20	28	1.96
29760441--29760538	44	2.2	44	78	7	101	31	17	18	32	1.94
29760285--29760570	142	2.0	142	92	0	473	33	17	20	28	1.96
29760647--29761226	50	11.6	49	66	10	210	34	22	20	22	1.97
29760636--29761230	100	5.9	100	77	5	585	33	22	20	22	1.97
29760633--29761224	200	3.0	201	81	3	685	33	22	20	22	1.97
29776255--29776283	5	5.8	5	100	0	58	79	0	0	20	0.74
29777237--29777304	34	2.0	34	94	0	118	30	8	17	42	1.80
29777534--29777762	126	1.8	124	96	0	332	34	13	13	39	1.83
29781900--29781941	17	2.4	18	84	4	50	21	21	23	33	1.97
29782962--29783023	29	2.1	29	90	0	97	19	29	17	33	1.95
29785875--29785918	18	2.4	18	80	0	52	20	22	27	29	1.99
29787384--29787524	75	1.9	74	88	5	216	50	10	12	26	1.73
29790519--29790553	18	2.0	18	88	5	54	34	0	5	60	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29794372--29794480	48	2.3	48	85	6	141	33	9	11	45	1.73
29794877--29794917	6	6.8	6	82	0	55	4	31	31	31	1.79
29794872--29794917	18	2.6	18	85	0	56	6	30	30	32	1.83
29806418--29806491	18	4.1	18	85	5	80	37	12	5	44	1.65
29806432--29806528	18	5.3	19	82	8	94	40	12	7	40	1.70
29806418--29806620	35	5.8	36	75	9	145	43	12	9	34	1.75
29806476--29806614	17	7.9	18	79	8	144	46	12	12	28	1.79
29806471--29806611	52	2.7	52	82	6	167	45	12	12	29	1.79
29806668--29806731	16	3.9	16	75	16	60	50	7	10	31	1.66
29807188--29807219	15	2.1	15	94	0	55	0	12	3	84	0.74
29807604--29807647	19	2.4	18	88	3	61	0	20	2	77	0.88
29807604--29807657	9	5.8	9	84	6	63	0	24	1	74	0.92
29807640--29807685	23	2.0	24	82	4	58	0	39	0	60	0.97
29808246--29808345	30	3.4	29	80	6	103	44	6	18	32	1.74
29808543--29808573	5	6.2	5	100	0	62	80	0	0	19	0.71
29808741--29809650	76	11.7	76	80	10	884	34	19	17	29	1.94
29808741--29809623	470	1.9	468	86	5	1273	33	20	17	29	1.95
29808741--29809650	154	5.9	154	79	11	882	34	19	17	29	1.94
29808741--29809650	228	3.9	224	81	10	983	34	19	17	29	1.94
29818011--29818074	18	3.6	17	89	8	85	39	14	1	45	1.54
29818027--29818214	17	10.6	17	76	11	128	45	10	10	34	1.73
29818000--29818215	35	6.1	35	74	9	129	45	11	9	32	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29818063--29818202	52	2.7	52	86	2	181	47	11	12	28	1.77
29819128--29819177	10	5.2	9	81	11	55	0	24	0	76	0.80
29819130--29819171	13	3.2	13	86	3	57	0	23	0	76	0.79
29819925--29820024	30	3.4	28	82	8	119	43	5	21	31	1.74
29820213--29820242	5	6.0	5	100	0	60	80	0	0	20	0.72
29822419--29822564	41	3.6	40	77	12	138	28	28	19	23	1.98
29822419--29822573	82	1.9	82	81	10	192	29	27	18	24	1.98
29830158--29830260	41	2.5	41	83	9	122	29	25	19	26	1.99
29830158--29830304	41	3.6	41	75	9	113	29	27	18	24	1.98
29833229--29833440	85	2.5	85	94	0	372	33	24	18	24	1.97
29833229--29833440	43	5.0	43	79	9	256	33	24	18	24	1.97
29833448--29833528	26	3.2	26	66	22	71	34	28	14	22	1.94
29833452--29833743	51	5.8	51	77	10	312	30	28	17	23	1.97
29833450--29833735	101	2.8	101	94	1	493	31	27	17	23	1.97
29833446--29833769	152	2.1	151	79	5	341	30	28	16	24	1.97
29852459--29852571	55	2.0	56	98	1	219	31	7	8	52	1.60
29852648--29852672	7	3.6	7	100	0	50	60	0	0	40	0.97
29853228--29853283	28	2.0	29	82	10	71	44	7	8	39	1.63
29856714--29856751	16	2.4	16	90	0	58	31	0	34	34	1.58
29857126--29857186	28	2.2	28	85	5	81	50	3	0	45	1.17
29857092--29857308	91	2.4	89	85	6	299	47	4	3	45	1.38
29857126--29857268	44	3.2	42	70	20	119	48	2	2	46	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29857133--29857289	47	3.4	47	68	15	128	49	3	1	44	1.31
29868356--29868422	33	2.0	33	97	0	125	41	25	14	17	1.88
29879682--29879806	56	2.2	56	90	2	189	44	8	12	36	1.71
29879829--29880092	29	8.6	29	86	10	366	29	0	25	45	1.54
29879800--29879891	23	3.7	23	76	20	87	31	1	22	44	1.60
29879842--29880092	63	4.0	63	89	7	395	30	0	24	44	1.54
29879829--29880092	92	2.8	92	84	13	385	29	0	25	45	1.54
29880195--29880929	29	25.2	29	89	6	1110	29	0	25	43	1.59
29880195--29880929	207	3.6	207	91	6	1171	29	0	25	43	1.59
29880195--29880929	236	3.2	232	90	5	1162	29	0	25	43	1.59
29880832--29880913	26	3.1	25	75	20	85	23	1	30	45	1.61
29880775--29880848	23	2.9	25	82	11	89	35	0	20	44	1.52
29882096--29882120	7	3.6	7	100	0	50	60	12	0	28	1.32
29882833--29882896	10	6.4	10	75	10	60	62	1	0	35	1.05
29882833--29882884	21	2.7	20	80	11	63	65	0	0	34	0.93
29882833--29882897	31	2.1	31	91	5	105	63	1	0	35	1.04
29882941--29882982	22	1.9	22	90	0	66	33	0	33	33	1.58
29882954--29883012	30	2.0	30	89	0	91	33	0	33	32	1.58
29882935--29883034	52	1.9	52	89	4	157	38	0	32	30	1.58
29882984--29883051	22	3.1	22	95	0	127	41	0	29	29	1.57
29885862--29885907	23	2.0	23	88	12	69	41	0	2	56	1.11
29885946--29886169	59	3.5	66	77	15	211	45	8	5	40	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29885999--29886026	9	3.1	9	100	0	56	57	10	0	32	1.33
29886008--29886147	59	2.4	59	97	0	262	46	9	5	39	1.58
29886158--29886196	16	2.4	16	95	0	69	43	7	0	48	1.31
29886173--29886228	23	2.5	23	79	2	69	44	1	0	53	1.11
29887592--29887656	17	3.6	17	73	17	60	7	9	6	76	1.14
29887575--29887748	34	5.3	33	76	11	126	9	9	5	75	1.17
29887557--29887707	60	2.5	60	88	8	225	8	9	6	75	1.19
29887592--29887741	19	8.1	18	67	18	85	8	9	5	76	1.14
29887625--29887690	26	2.5	26	78	9	80	7	7	7	77	1.13
29887671--29887726	14	3.5	15	71	23	51	8	12	1	76	1.08

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