genome.fa.s9.2.7.7.80.10.50.1000.2.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  2  of  182  ( 21729 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)
411644--411679	18	1.9	19	88	5	56	44	11	2	41	1.54
415961--415998	19	2.1	19	90	5	60	47	5	0	47	1.24
415961--416000	18	2.2	18	86	8	55	50	5	0	45	1.23
429560--429589	2	15.0	2	100	0	60	50	0	0	50	1.00
450172--450227	18	3.0	18	80	15	69	30	7	3	58	1.42
450097--450319	118	1.9	117	80	4	261	36	16	5	41	1.73
453538--453581	18	2.5	17	82	10	52	59	2	0	38	1.10
461508--461654	68	2.1	68	96	2	267	27	28	17	25	1.98
466751--466822	29	2.5	27	74	24	67	51	1	0	47	1.09
466779--466883	24	4.3	24	67	19	65	47	2	0	49	1.16
477967--478000	18	1.9	18	88	5	52	44	2	17	35	1.64
478787--478877	31	2.9	30	80	6	101	51	6	2	39	1.40
478803--478855	17	3.3	16	74	15	56	52	3	1	41	1.30
489670--489733	31	2.1	29	83	11	76	18	6	18	56	1.62
489975--490005	15	2.1	15	94	5	55	29	6	0	64	1.18
492298--492357	27	2.2	27	81	0	75	20	16	23	40	1.91
493427--493475	3	16.0	3	91	4	80	32	2	0	65	1.04
496737--496762	2	13.0	2	100	0	52	50	0	50	0	1.00
500450--500537	33	2.7	33	82	7	108	13	12	46	27	1.79
503434--503502	31	2.2	31	86	0	102	39	13	4	43	1.63
507367--507429	22	2.7	22	79	16	74	50	1	3	44	1.27
507367--507432	24	2.8	23	76	17	73	50	1	3	45	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510399--510450	2	26.0	2	96	0	95	50	1	0	48	1.12
510663--510688	13	2.0	13	100	0	52	53	0	7	38	1.30
514362--514398	16	2.3	16	100	0	74	35	0	27	37	1.57
519888--519931	22	2.0	22	86	4	63	25	9	13	52	1.70
520733--521187	241	1.9	239	91	2	752	50	15	10	23	1.74
521545--521576	11	2.9	11	90	0	55	34	12	9	43	1.75
522547--522585	19	2.1	19	85	9	53	48	5	7	38	1.54
529096--529169	35	2.1	35	97	0	139	16	14	22	45	1.84
529277--529311	4	8.8	4	93	0	61	48	25	0	25	1.51
530063--530116	26	2.1	26	100	0	108	27	7	14	50	1.70
532320--532344	1	25.0	1	100	0	50	0	100	0	0	0.00
542993--543372	127	3.0	127	90	3	604	39	11	9	39	1.74
546697--546754	28	2.1	28	90	0	89	50	3	25	20	1.64
546697--546744	13	3.5	13	75	10	51	45	4	31	18	1.68
547751--547959	104	2.0	103	94	0	364	22	32	6	39	1.79
550034--550067	12	2.7	13	81	9	52	38	0	0	61	0.96
550034--550071	14	2.9	14	81	18	55	42	0	0	57	0.98
557102--557167	33	2.1	33	82	5	82	21	4	15	59	1.54
558391--558432	3	14.0	3	94	0	75	2	33	0	64	1.07
566135--566177	18	2.3	18	80	4	50	39	2	0	58	1.11
571314--571348	16	2.1	17	89	5	54	48	0	0	51	1.00
571310--571361	26	2.0	26	85	14	72	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
573494--573579	31	2.8	30	77	5	93	46	2	3	47	1.32
578752--578796	2	23.0	2	90	4	74	48	0	0	51	1.00
585010--585056	2	23.5	2	100	0	94	51	0	48	0	1.00
585547--585635	31	2.8	31	81	11	101	29	12	6	51	1.65
585835--586025	59	3.2	59	80	5	224	45	11	17	25	1.82
601368--601409	21	2.0	21	86	9	59	57	2	4	35	1.33
617779--617813	14	2.6	14	90	4	54	5	8	20	65	1.40
620894--620954	17	3.4	17	80	12	77	39	3	1	55	1.26
620901--620954	20	2.9	19	86	10	76	37	3	1	57	1.27
622551--622704	23	6.7	22	88	7	168	41	23	24	10	1.85
624386--624414	3	9.7	3	100	0	58	68	0	0	31	0.89
625665--625846	29	6.2	29	82	6	190	38	28	2	30	1.69
625665--625846	58	3.1	58	86	3	233	38	28	2	30	1.69
625665--625859	88	2.2	88	81	10	204	36	29	2	31	1.71
632965--632997	2	16.5	2	93	0	57	48	3	0	48	1.17
633308--633332	3	8.3	3	100	0	50	32	0	0	68	0.90
633731--633774	21	2.1	21	83	8	54	45	0	2	52	1.13
643208--643305	22	4.3	22	85	10	124	9	20	24	45	1.80
643208--643305	48	2.1	44	87	7	133	9	20	24	45	1.80
650308--650337	8	3.6	8	95	4	51	23	0	3	73	0.98
668587--668622	4	9.0	4	100	0	72	0	0	50	50	1.00
672466--672556	31	3.4	26	72	21	71	51	1	3	43	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
675760--675973	108	2.0	108	98	0	410	22	34	11	32	1.89
693337--693705	180	2.1	175	84	7	474	28	18	15	37	1.92
693334--693757	59	7.1	58	81	6	411	28	18	15	37	1.92
694569--694628	31	1.9	31	93	0	102	58	3	11	26	1.49
695816--695855	21	1.9	21	89	0	62	62	2	10	25	1.39
695808--695874	10	6.7	10	71	5	55	65	1	7	25	1.27
696920--696978	22	2.7	22	75	15	59	23	10	27	38	1.87
697116--698094	45	23.4	43	60	25	137	48	3	4	43	1.42
697070--698620	84	18.5	84	92	1	2492	47	3	4	43	1.42
697070--698620	167	9.3	168	93	1	2512	47	3	4	43	1.42
697070--698620	251	6.2	252	92	1	2503	47	3	4	43	1.42
698211--698240	16	1.9	15	93	6	51	53	6	0	40	1.27
698737--698792	28	2.0	28	82	0	67	46	8	0	44	1.34
700180--700293	23	5.0	23	83	8	135	40	23	24	11	1.88
700180--700293	46	2.5	45	80	12	151	40	23	24	11	1.88
700156--700293	23	5.9	23	82	7	129	39	23	25	11	1.88
705143--705349	62	3.4	61	73	14	176	42	13	14	28	1.83
705123--705605	61	8.0	59	76	9	368	39	14	18	28	1.89
705123--705606	180	2.7	181	78	8	468	39	14	17	28	1.89
705568--705644	38	2.0	39	92	2	129	48	10	10	31	1.71
705622--705850	59	3.9	60	77	7	227	37	17	17	28	1.92
717559--717592	16	2.2	15	89	5	50	85	2	2	8	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724291--724336	24	1.9	24	86	0	65	47	0	4	47	1.21
728787--728830	23	1.9	23	90	0	70	11	29	22	36	1.89
730359--730388	4	7.5	4	100	0	60	0	0	23	76	0.78
731424--731501	39	2.0	39	92	0	129	34	16	5	43	1.70
734339--734402	29	2.2	29	85	2	83	35	1	15	46	1.56
735333--735362	2	15.0	2	92	0	51	50	3	0	46	1.18
737741--737769	2	14.5	2	100	0	58	51	48	0	0	1.00
739313--739343	10	3.1	10	90	0	53	35	9	3	51	1.51
740426--740484	18	3.2	18	81	11	66	52	3	1	42	1.28
742559--742590	14	2.1	16	88	11	50	40	0	3	56	1.15
747346--747370	3	8.3	3	100	0	50	0	36	0	64	0.94
747674--747704	15	2.1	15	100	0	62	19	35	38	6	1.77
749172--749269	52	1.9	51	82	2	124	48	7	10	33	1.64
750427--750472	2	23.0	2	100	0	92	50	50	0	0	1.00
752771--753070	150	2.0	150	98	0	573	29	18	10	41	1.84
753147--753203	29	2.0	29	89	6	89	43	0	1	54	1.10
755237--755294	31	1.9	31	85	3	82	46	15	3	34	1.63
755227--755306	30	2.6	31	76	11	92	47	13	3	35	1.61
755906--755945	20	2.0	20	85	4	55	60	7	0	32	1.25
756036--756063	2	14.0	2	100	0	56	50	0	0	50	1.00
769954--769979	6	4.3	6	100	0	52	0	15	34	50	1.45
770163--770486	165	2.0	161	92	2	540	42	11	10	35	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
773839--773877	20	2.0	20	85	10	53	41	0	2	56	1.13
774719--774776	2	29.0	2	100	0	116	50	0	50	0	1.00
780675--780706	14	2.4	13	94	5	55	43	12	25	18	1.85
796002--796071	31	2.3	31	85	5	88	30	21	15	32	1.94
796944--796985	21	2.0	22	85	4	59	54	2	9	33	1.46
798321--798393	33	2.3	30	81	9	74	34	10	5	49	1.61
798880--798924	24	1.9	23	90	4	72	35	0	2	62	1.08
798881--798925	11	3.9	11	80	11	54	35	0	2	62	1.08
799947--799978	2	16.0	2	100	0	64	0	50	0	50	1.00
800934--800989	12	4.6	12	72	12	51	69	1	1	26	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