genome.fa.s3.2.7.7.80.10.50.1000.167.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  167  of  171  ( 20472 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)
49439203--49439280	33	2.4	33	95	2	140	50	14	11	24	1.75
49441970--49442009	19	2.1	19	85	0	53	47	2	7	42	1.45
49442074--49442193	56	2.1	56	87	0	168	44	19	12	24	1.85
49443489--49443528	19	2.1	19	85	0	53	50	0	7	42	1.30
49443673--49443713	19	2.2	19	90	0	64	46	0	7	46	1.30
49443681--49443721	19	2.2	19	86	0	55	48	0	9	41	1.36
49443441--49443804	193	1.9	190	85	2	505	44	7	12	35	1.71
49444020--49444059	19	2.1	19	85	0	53	52	2	7	37	1.43
49444365--49444404	19	2.1	19	90	0	62	52	0	5	42	1.23
49443631--49445111	338	4.4	338	86	2	1995	40	10	11	37	1.77
49446125--49446166	20	2.1	20	86	0	57	42	9	11	35	1.74
49447424--49447488	30	2.2	30	83	2	78	53	7	3	35	1.45
49447705--49447829	45	2.8	45	83	0	160	21	26	15	36	1.93
49449327--49449365	19	2.1	19	85	0	51	48	0	7	43	1.31
49449276--49449744	249	1.9	249	89	0	733	43	11	13	31	1.78
49450957--49450996	19	2.1	19	85	0	53	50	0	7	42	1.30
49455732--49455771	19	2.1	19	85	0	53	50	0	7	42	1.30
49457323--49457408	45	1.9	45	92	0	145	17	22	17	43	1.88
49461216--49461253	20	1.9	20	84	10	51	26	2	23	47	1.65
49465959--49465998	19	2.1	19	85	0	53	50	0	7	42	1.30
49466474--49466513	19	2.1	19	85	0	53	50	0	7	42	1.30
49466722--49466761	19	2.1	19	85	0	53	47	0	10	42	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49466425--49466889	248	1.9	249	89	1	736	41	11	14	32	1.82
49467406--49468133	337	2.2	338	88	2	1061	41	10	10	37	1.74
49469129--49469170	20	2.1	20	95	0	75	42	4	11	40	1.63
49475111--49475271	48	3.4	48	84	0	214	39	18	13	29	1.88
49475426--49475466	19	2.2	19	90	0	64	41	4	12	41	1.64
49481799--49481860	30	2.1	30	87	6	90	56	14	4	24	1.58
49481944--49481984	21	1.9	22	90	5	66	70	12	4	12	1.31
49482682--49482706	10	2.5	10	100	0	50	44	24	16	16	1.86
49482895--49482934	19	2.0	20	85	4	55	50	5	0	45	1.23
49489737--49489804	22	3.2	20	82	10	82	30	0	1	67	0.99
49493070--49493580	206	2.4	206	89	2	770	22	22	18	36	1.95
49494152--49494177	13	2.0	13	100	0	52	69	0	7	23	1.14
49499867--49499935	34	2.0	34	100	0	138	26	8	20	44	1.80
49504987--49505012	13	2.0	13	100	0	52	61	0	0	38	0.96
49505027--49505101	23	3.5	22	70	27	70	41	1	8	49	1.40
49505019--49505103	42	2.0	42	93	0	143	41	2	7	49	1.43
49505454--49505492	20	2.0	20	89	0	60	46	2	0	51	1.14
49505641--49505676	15	2.4	15	85	0	54	27	0	8	63	1.23
49507466--49507496	14	2.2	14	94	0	53	48	0	0	51	1.00
49507452--49507498	23	2.1	23	84	4	60	44	4	0	51	1.21
49508375--49508429	6	9.3	6	84	9	69	54	12	14	18	1.71
49508375--49508428	18	2.9	19	91	5	85	55	12	14	16	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49511325--49511373	24	2.0	24	84	7	64	24	10	20	44	1.82
49512701--49512733	8	3.7	9	88	12	50	78	0	0	21	0.75
49517283--49517325	22	2.0	22	90	0	68	25	23	23	27	2.00
49526851--49526888	17	2.2	18	85	4	51	31	2	0	65	1.06
49529254--49529283	13	2.3	13	100	0	60	46	16	6	30	1.73
49530087--49530416	60	5.6	60	69	16	226	33	17	14	34	1.90
49530764--49530958	106	1.8	106	80	6	234	44	10	11	32	1.76
49530864--49531267	59	6.9	61	78	10	282	37	13	18	30	1.89
49535153--49535177	2	12.5	2	100	0	50	52	0	0	48	1.00
49535840--49535888	16	3.0	16	84	3	62	18	0	6	75	1.00
49542790--49542906	60	2.0	60	84	3	155	31	19	15	33	1.93
49543061--49543224	59	2.7	60	92	2	276	36	14	19	29	1.91
49543227--49543748	59	8.9	59	77	8	383	37	14	16	30	1.89
49543226--49543748	119	4.5	118	76	12	358	37	14	17	30	1.89
49547879--49547926	16	3.0	16	84	6	62	18	0	6	75	1.01
49550207--49550248	11	3.3	13	77	16	52	54	0	0	45	0.99
49551259--49551288	15	1.9	16	93	6	53	60	0	0	40	0.97
49552135--49552200	31	2.1	31	88	0	96	46	0	1	51	1.10
49557292--49557390	48	2.1	48	100	0	198	54	4	19	22	1.60
49564933--49565033	20	5.1	19	80	11	98	42	21	23	11	1.86
49569975--49570146	59	2.9	59	77	3	184	26	16	12	44	1.83
49570360--49570496	31	4.6	31	72	8	106	48	10	16	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49570313--49570484	89	1.9	89	84	4	231	45	12	18	23	1.82
49570391--49570475	27	3.0	27	72	19	75	49	7	18	24	1.72
49571983--49572013	16	1.9	16	100	0	62	16	6	19	58	1.59
49575308--49575364	26	2.1	27	93	3	98	28	0	15	56	1.40
49575308--49575366	27	2.2	26	93	3	100	27	0	16	55	1.41
49580679--49580710	3	10.7	3	93	0	55	0	62	0	37	0.95
49585352--49585432	23	3.4	23	83	9	83	8	23	22	45	1.79
49590508--49590569	31	2.1	30	84	6	81	35	4	12	46	1.64
49591531--49591707	92	1.9	91	90	1	282	35	10	10	42	1.75
49592953--49592987	18	1.9	18	94	0	61	40	22	22	14	1.90
49596163--49596215	27	2.0	27	92	0	88	24	3	18	52	1.62
49596338--49596368	11	2.8	11	90	0	53	67	0	0	32	0.91
49596338--49596372	11	3.1	11	91	4	52	65	0	0	34	0.93
49599886--49599926	17	2.4	18	76	12	50	51	0	0	48	1.00
49603105--49603282	92	1.9	92	82	2	223	35	10	11	42	1.76
49615656--49615698	20	2.2	20	82	0	50	32	0	2	65	1.06
49620169--49620403	109	2.2	109	82	3	269	42	22	12	22	1.86
49628112--49628147	2	18.0	2	100	0	72	50	0	0	50	1.00
49631606--49631631	13	2.0	13	100	0	52	23	15	46	15	1.83
49643579--49645077	433	3.4	431	87	2	2005	27	16	18	37	1.92
49648236--49648267	3	10.7	3	100	0	64	65	0	34	0	0.93
49648452--49648513	29	2.1	29	85	5	81	20	11	16	51	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49655885--49655931	12	3.8	12	88	2	67	40	0	2	57	1.11
49656960--49658084	162	7.0	161	86	5	1487	22	17	20	38	1.93
49656960--49658084	316	3.5	317	85	6	1466	22	17	20	38	1.93
49656960--49658084	482	2.3	478	87	2	1596	22	17	20	38	1.93
49667066--49667256	23	8.5	23	71	16	123	42	21	24	11	1.85
49668281--49668346	33	1.9	36	84	9	93	9	31	6	53	1.57
49671781--49671843	23	2.8	23	82	2	83	53	1	3	41	1.26
49681850--49681884	13	2.7	13	90	0	52	5	11	2	80	1.00
49686978--49687007	12	2.5	12	94	0	51	63	0	6	30	1.20
49697040--49697078	15	2.7	14	78	21	53	28	0	2	69	1.02
49702012--49702146	31	4.5	31	70	9	100	50	1	5	42	1.36
49703465--49703566	37	2.6	37	73	6	87	33	26	17	22	1.96
49710531--49710577	21	2.2	21	82	10	60	63	4	0	31	1.13
49714485--49714650	23	7.4	23	75	14	159	42	22	23	11	1.86
49714460--49714650	48	4.2	44	76	15	167	41	21	24	11	1.86
49714491--49714565	39	1.9	39	91	0	123	44	21	22	12	1.85
49716133--49716159	14	1.9	14	100	0	54	44	22	0	33	1.53
49716764--49716842	17	4.6	17	74	16	65	41	2	5	50	1.38
49717540--49717582	18	2.6	16	92	7	68	58	0	2	39	1.11
49718314--49718380	31	2.1	33	81	10	77	19	11	5	62	1.49
49718657--49719194	58	9.3	57	85	4	650	34	28	2	34	1.72
49718657--49719194	116	4.6	116	86	2	760	34	28	2	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
49718657--49719194	174	3.1	173	86	3	751	34	28	2	34	1.72
49718689--49719194	29	17.4	30	67	17	257	34	28	2	34	1.72
49725480--49725520	20	1.9	21	85	14	57	75	0	4	19	0.98
49725888--49725928	2	20.5	2	100	0	82	48	0	0	51	1.00
49748510--49748545	15	2.4	15	95	0	63	30	13	0	55	1.39
49748511--49748560	15	3.1	17	83	13	54	30	12	0	58	1.34
49748984--49749021	19	2.0	19	90	10	60	68	5	5	21	1.29
49749701--49749864	86	1.9	86	89	0	256	43	11	10	34	1.76
49750354--49750399	21	2.2	21	84	7	58	45	2	4	47	1.34
49751739--49751790	21	2.5	22	84	6	63	75	3	11	9	1.18

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