genome.fa.s4.2.7.7.80.10.50.1000.154.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   

This is table  154  of  193  ( 23090 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)
47864986--47865074	32	2.7	33	87	7	126	39	4	4	51	1.42
47871155--47871188	10	3.3	10	84	8	50	14	0	2	82	0.79
47871155--47871199	21	2.1	21	88	8	65	11	4	4	80	1.01
47871591--47871641	15	3.5	15	71	15	52	49	7	13	29	1.70
47871803--47871859	21	2.8	21	76	7	55	36	5	1	56	1.32
47871887--47871913	14	1.9	14	100	0	54	55	0	0	44	0.99
47877942--47878247	59	5.2	59	86	3	357	35	3	29	31	1.74
47877978--47878192	28	7.3	29	65	19	99	36	1	29	32	1.68
47877946--47878167	30	7.5	30	67	19	108	36	2	27	33	1.71
47879361--47879399	3	13.0	3	100	0	78	33	0	0	66	0.92
47880079--47880141	17	3.7	17	79	8	74	52	4	0	42	1.22
47880079--47880143	34	1.9	34	90	0	103	52	4	0	43	1.22
47880492--47880519	8	3.5	8	100	0	56	32	0	14	53	1.41
47880658--47880717	26	2.3	26	85	0	75	63	10	1	25	1.35
47883641--47883679	20	1.9	21	84	5	53	41	5	2	51	1.38
47884018--47884063	21	2.3	20	85	10	60	52	0	2	45	1.13
47885772--47885800	12	2.3	13	94	5	51	51	3	0	44	1.18
47891587--47891626	17	2.4	17	82	0	53	45	2	5	47	1.38
47892737--47892765	4	7.2	4	100	0	58	24	0	27	48	1.51
47893456--47893598	43	3.3	43	97	0	261	41	12	8	37	1.73
47896765--47896811	2	23.5	2	100	0	94	0	0	48	51	1.00
47898314--47898390	26	3.0	27	73	17	74	38	1	1	58	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47898320--47898410	18	5.2	19	69	16	54	39	0	1	59	1.05
47898369--47898409	19	2.2	19	86	4	57	39	0	0	60	0.96
47898380--47898432	20	2.6	20	87	3	70	32	0	5	62	1.19
47898369--47898430	20	3.2	19	82	8	63	35	0	3	61	1.12
47900560--47900591	2	16.0	2	93	0	55	46	0	3	50	1.17
47919180--47919243	27	2.4	26	79	10	67	26	4	0	68	1.09
47919211--47919262	19	2.7	19	82	5	61	28	3	1	65	1.21
47919275--47919325	18	2.8	18	76	8	50	39	0	1	58	1.09
47924752--47924797	15	2.9	15	87	9	65	50	0	0	50	1.00
47926583--47926669	29	3.0	28	68	25	72	34	1	28	35	1.65
47926523--47926778	59	4.3	58	83	3	269	35	4	28	31	1.77
47926613--47926894	29	9.6	28	68	17	110	35	3	25	35	1.72
47926790--47926915	59	2.1	60	88	4	193	39	1	19	39	1.61
47926794--47926915	29	4.1	30	76	14	112	40	0	18	40	1.56
47927803--47928046	86	2.8	85	87	2	337	23	25	17	32	1.97
47927889--47928458	207	2.8	206	89	2	860	21	23	20	35	1.96
47928886--47929079	97	2.0	98	88	3	293	13	24	23	39	1.90
47928855--47929098	49	5.0	50	81	5	248	14	24	21	39	1.91
47931296--47931610	59	5.4	59	90	2	483	35	2	28	32	1.72
47931296--47931610	117	2.7	117	91	2	490	35	2	28	32	1.72
47932551--47932594	13	3.4	13	83	0	52	43	0	0	56	0.99
47933382--47933450	6	12.0	6	72	18	58	53	1	1	43	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47933382--47933450	17	4.4	16	77	20	65	53	1	1	43	1.18
47933400--47933443	11	3.9	11	88	5	61	59	0	2	38	1.10
47933394--47933452	29	2.0	30	86	3	84	57	1	1	38	1.19
47934037--47934102	6	10.5	6	78	12	53	0	15	4	80	0.87
47934045--47934097	18	2.8	19	80	8	65	0	15	5	79	0.91
47939686--47939859	59	2.9	59	86	1	233	35	1	28	34	1.68
47939828--47939984	59	2.7	60	85	8	189	40	4	21	33	1.74
47939857--47939963	30	3.6	30	75	2	117	39	4	18	37	1.72
47939841--47939984	30	4.9	28	72	11	110	38	4	21	34	1.75
47940784--47940834	20	2.7	18	80	19	52	27	9	1	60	1.39
47941037--47941081	18	2.4	19	88	3	65	48	0	0	51	1.00
47941805--47941859	11	5.0	11	76	10	51	61	3	0	34	1.13
47941815--47941872	23	2.5	23	83	8	64	60	3	0	36	1.14
47941783--47941867	17	4.9	17	83	1	98	56	5	0	37	1.24
47942223--47942290	11	5.8	11	76	10	55	41	1	1	55	1.18
47942203--47942274	17	4.3	16	77	10	63	40	2	1	55	1.23
47942223--47942275	23	2.3	23	83	0	61	37	1	1	58	1.20
47942206--47942292	6	14.8	6	75	17	58	41	2	1	55	1.20
47943066--47943096	12	2.6	12	94	0	53	58	0	3	38	1.15
47943847--47944212	162	2.3	159	86	2	511	24	18	14	42	1.88
47944254--47944331	29	2.7	29	78	9	88	37	24	7	30	1.83
47944311--47944742	59	7.4	59	83	3	534	31	28	4	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47944311--47944740	117	3.7	114	85	5	533	31	28	4	35	1.76
47944311--47944742	174	2.5	174	84	6	550	31	28	4	35	1.77
47956824--47957564	76	9.9	76	87	6	996	33	14	18	33	1.91
47957883--47957938	11	5.0	11	82	4	67	39	1	3	55	1.28
47958730--47958759	12	2.5	12	94	0	51	56	0	3	40	1.16
47959519--47959857	162	2.1	162	89	0	516	26	17	12	43	1.85
47959960--47960088	29	4.4	30	75	17	103	34	29	3	32	1.73
47959985--47960220	59	4.0	59	81	2	260	30	29	5	34	1.79
47959960--47960140	29	6.2	28	68	23	97	34	29	3	32	1.76
47960017--47960120	30	3.5	30	71	19	92	34	25	3	36	1.74
47962549--47962844	29	10.1	29	68	25	130	34	3	29	32	1.74
47962525--47962829	59	5.2	58	87	7	406	36	3	27	32	1.73
47962525--47962832	117	2.6	116	90	5	471	36	3	27	32	1.73
47962731--47962829	30	3.4	27	75	15	83	37	3	26	33	1.72
47963957--47964005	20	2.5	19	77	6	62	38	4	2	55	1.31
47964747--47964806	17	3.6	16	88	6	84	58	1	1	38	1.18
47964721--47964797	6	13.0	6	75	8	68	46	1	2	49	1.23
47964744--47964797	23	2.3	23	87	6	74	53	1	1	42	1.22
47964771--47964825	28	2.0	28	85	0	74	58	5	0	36	1.21
47964777--47964835	28	2.1	28	80	0	64	61	6	1	30	1.32
47965154--47965779	68	9.0	69	87	4	884	29	19	16	34	1.94
47965163--47965779	137	4.5	137	93	1	991	29	19	16	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47972623--47972661	18	2.1	19	85	4	53	69	2	0	28	1.02
47978742--47978781	11	3.7	11	86	6	55	65	2	0	32	1.06
47978690--47978772	42	1.9	42	80	9	96	55	1	2	40	1.21
47978748--47978789	19	2.1	21	86	8	61	69	2	0	28	1.01
47982199--47982258	32	1.9	32	89	3	95	46	26	5	21	1.72
47984165--47984192	10	2.8	10	100	0	56	39	7	0	53	1.28
47985944--47986253	58	5.3	58	78	8	297	38	4	24	33	1.75
47985943--47986253	29	10.7	28	71	13	164	38	4	24	33	1.75
47986184--47986293	30	3.6	31	84	7	138	36	0	23	39	1.61
47988216--47988283	30	2.3	31	87	7	97	36	2	25	35	1.71
47988217--47988293	30	2.7	29	80	11	86	36	2	20	40	1.67
47990178--47990244	6	12.0	6	72	15	63	53	0	2	43	1.16
47990178--47990232	16	3.4	16	78	9	58	50	0	3	45	1.19
47990180--47990243	27	2.3	27	87	10	94	54	0	3	42	1.16
47990977--47991046	6	12.2	6	77	10	58	55	5	0	38	1.24
47990977--47991046	11	6.1	12	77	11	58	55	5	0	38	1.24
47990977--47991040	17	3.8	17	84	12	78	54	6	0	39	1.26
47990992--47991046	17	3.2	18	82	10	62	58	5	0	36	1.21
47993782--47994153	59	6.3	58	87	4	471	35	3	29	31	1.74
47993787--47994153	29	12.5	26	69	22	155	35	2	28	32	1.73
47995170--47995240	20	3.6	20	81	12	69	39	2	2	54	1.29
47995615--47995663	24	2.0	24	88	0	71	30	12	22	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47996423--47996907	38	12.8	38	70	15	247	33	17	14	34	1.91
47996423--47996788	76	4.9	76	92	2	553	33	18	14	33	1.91
48008846--48009274	59	7.3	59	86	2	544	36	3	27	32	1.75
48008914--48009010	30	3.3	30	68	18	94	35	4	24	36	1.75
48008843--48009274	29	14.8	29	67	16	178	35	3	27	32	1.75
48010326--48010375	18	2.6	19	87	6	66	40	8	0	52	1.31
48011214--48011288	6	12.8	6	69	16	50	56	1	4	38	1.27
48011221--48011288	11	7.0	10	69	17	54	57	0	4	38	1.19
48011215--48011288	17	4.6	17	80	13	84	56	1	4	37	1.27
48011248--48011310	28	2.2	28	80	0	72	55	7	0	36	1.29

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