genome.fa.s4.2.7.7.80.10.50.1000.172.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  172  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)
53574958--53575049	29	3.2	28	71	9	78	40	5	26	28	1.78
53574931--53575088	59	2.7	57	81	8	194	36	5	27	31	1.78
53575093--53575317	30	7.6	30	87	2	312	34	3	26	36	1.72
53576350--53576410	7	9.3	7	80	10	67	47	3	0	49	1.18
53576350--53576410	13	4.6	14	78	12	67	47	3	0	49	1.18
53577086--53577152	6	11.7	6	75	15	70	52	2	0	44	1.16
53577071--53577152	17	4.8	17	83	7	96	51	2	1	45	1.22
53577087--53577130	23	2.0	22	90	9	63	54	4	0	40	1.21
53577077--53577131	11	4.9	11	79	16	60	52	3	0	43	1.18
53577121--53577159	17	2.3	17	86	8	53	53	2	0	43	1.14
53584630--53584654	12	2.1	12	100	0	50	68	8	16	8	1.38
53585647--53585690	20	2.3	19	85	11	63	54	4	0	40	1.21
53585651--53585689	20	2.0	20	94	0	69	53	5	0	41	1.23
53591046--53591122	35	2.2	36	84	11	97	70	1	0	28	0.96
53591066--53591114	16	3.3	15	78	15	57	73	2	0	24	0.94
53591046--53591102	17	3.1	18	73	19	55	68	1	0	29	1.00
53594561--53594597	18	2.0	19	89	5	58	56	13	2	27	1.50
53595367--53595434	6	11.5	6	78	9	50	26	25	0	48	1.51
53595386--53595434	18	2.7	18	87	6	73	22	28	0	48	1.50
53595388--53595430	12	3.5	13	87	9	56	23	30	0	46	1.52
53601805--53601840	2	18.5	2	94	5	65	50	0	0	50	1.00
53601860--53601905	13	3.3	15	74	22	55	50	13	2	34	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53601865--53601913	13	3.8	13	83	0	62	51	14	2	32	1.54
53601863--53601913	26	2.0	26	92	0	84	52	13	1	31	1.51
53603435--53603549	6	19.0	6	73	15	85	50	0	1	46	1.17
53603435--53603511	17	4.4	17	76	15	77	44	0	2	53	1.14
53603425--53603511	11	7.5	11	72	18	61	43	0	3	52	1.18
53603462--53603541	31	2.6	30	78	7	81	53	1	1	43	1.16
53603448--53603528	37	2.2	37	82	10	96	51	0	2	45	1.14
53604267--53604313	3	15.0	3	82	8	58	59	2	0	38	1.09
53604267--53604313	22	2.1	22	92	0	76	59	2	0	38	1.09
53605175--53605487	161	1.9	162	88	1	477	25	15	12	46	1.81
53605580--53605783	30	6.7	30	89	1	300	37	24	2	35	1.71
53605585--53605782	91	2.2	90	94	0	342	37	23	2	35	1.69
53605765--53606042	29	9.5	30	68	12	184	32	26	4	35	1.77
53605765--53606047	59	4.8	59	90	0	444	31	27	4	35	1.78
53618142--53618749	69	8.9	69	88	6	911	33	14	21	30	1.93
53618142--53618749	135	4.5	135	95	1	1024	33	14	21	30	1.93
53618141--53618749	204	3.0	204	90	5	914	33	14	21	31	1.93
53619077--53619191	6	19.0	6	73	15	85	50	0	1	46	1.17
53619077--53619153	17	4.4	17	76	15	77	44	0	2	53	1.14
53619067--53619153	11	7.5	11	72	18	61	43	0	3	52	1.18
53619104--53619183	31	2.6	30	78	7	81	53	1	1	43	1.16
53619090--53619170	37	2.2	37	82	10	96	51	0	2	45	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53619908--53619957	3	16.0	3	83	8	64	60	2	0	38	1.09
53619909--53619957	22	2.2	22	92	0	80	59	2	0	38	1.09
53620818--53621131	162	1.9	162	88	2	470	26	16	11	45	1.81
53621223--53621425	30	6.7	30	84	3	264	36	23	3	35	1.72
53621408--53621722	29	10.5	30	67	13	164	31	26	6	35	1.83
53621223--53621515	60	4.8	60	77	10	199	34	24	4	35	1.76
53621437--53621518	30	2.8	29	71	10	76	32	26	6	34	1.81
53621408--53621518	59	1.9	58	88	1	168	33	26	6	34	1.82
53621427--53621616	97	2.0	96	91	1	308	30	27	8	33	1.87
53621523--53621727	58	3.5	59	88	2	288	29	27	7	35	1.84
53621573--53621672	30	3.4	30	69	15	91	28	28	9	35	1.87
53626079--53626302	115	1.9	115	91	0	367	31	20	11	36	1.88
53626600--53626627	14	2.0	14	100	0	56	50	0	0	50	1.00
53628724--53628784	31	2.0	31	90	0	95	42	8	9	39	1.68
53634826--53634868	22	2.0	22	81	9	52	51	13	2	32	1.54
53635506--53635557	22	2.4	22	77	9	61	21	11	5	61	1.50
53636647--53636676	4	7.5	4	100	0	60	26	0	23	50	1.50
53644743--53644784	21	2.0	21	86	9	59	30	19	16	33	1.94
53646484--53646563	31	2.7	30	80	5	81	36	8	11	43	1.71
53646759--53646843	31	2.8	31	76	1	91	42	8	9	40	1.67
53651479--53651505	14	1.9	14	100	0	54	74	0	0	25	0.83
53651649--53651684	17	2.1	17	94	0	63	30	11	25	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53652583--53652650	30	2.3	30	97	0	127	32	14	10	42	1.80
53686502--53686549	21	2.2	22	85	3	62	56	2	6	35	1.36
53689669--53690195	258	2.0	261	86	2	738	29	20	23	27	1.99
53694911--53694954	21	2.1	21	82	0	52	65	2	0	31	1.05
53702588--53702630	14	3.0	14	73	6	50	60	4	0	34	1.17
53705044--53705082	6	6.5	6	87	0	51	23	30	0	46	1.53
53713182--53713225	14	2.8	16	80	16	56	52	0	0	47	1.00
53720678--53720804	31	4.1	30	71	5	92	38	7	12	40	1.72
53727910--53727970	20	3.3	18	76	14	54	70	3	0	26	1.02
53728970--53729011	21	2.0	21	85	0	57	35	4	2	57	1.33
53729773--53729805	16	2.1	16	88	11	50	39	0	0	60	0.97
53729925--53730101	90	2.0	90	98	0	345	45	6	9	38	1.62
53729958--53730142	90	2.1	87	80	11	204	49	5	9	35	1.58
53731883--53732457	285	2.0	286	84	6	759	32	11	18	37	1.87
53736125--53736167	18	2.4	18	80	7	52	51	0	2	46	1.13
53737900--53737926	4	6.8	4	100	0	54	48	0	0	51	1.00
53747455--53747519	16	3.8	17	72	13	53	32	0	0	67	0.91
53747455--53747508	27	2.0	28	85	10	76	31	0	0	68	0.90
53747444--53747519	36	2.2	33	84	11	91	28	0	1	69	0.96
53747444--53747519	33	2.2	34	84	11	93	28	0	1	69	0.96
53759403--53759446	16	2.6	17	82	7	54	38	6	6	47	1.57
53762076--53762114	21	2.0	20	85	10	53	28	2	5	64	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53774018--53774135	61	1.9	61	82	3	148	42	9	18	29	1.82
53774817--53774849	16	1.9	18	88	11	52	18	12	3	66	1.36
53774923--53774955	17	1.9	17	88	11	50	30	3	12	54	1.52
53777497--53777612	57	2.1	57	93	1	198	37	12	16	33	1.85
53778760--53778786	14	1.9	14	100	0	54	14	0	7	77	0.97
53779203--53779270	32	2.1	32	84	10	86	30	5	14	48	1.68
53780026--53780066	21	1.9	22	85	5	57	51	12	4	31	1.60
53810016--53810164	59	2.6	58	88	4	203	38	5	9	46	1.59
53817283--53817319	15	2.5	15	90	0	56	72	2	2	21	1.09
53818706--53818774	25	2.7	26	77	6	79	55	10	0	34	1.34
53818960--53819000	20	2.1	20	86	4	57	46	12	4	36	1.63
53822730--53822760	2	15.5	2	100	0	62	51	0	0	48	1.00
53823792--53823910	58	2.1	58	100	0	238	33	11	17	36	1.86
53826808--53826850	10	4.1	11	85	8	54	37	0	0	62	0.95
53828946--53829008	30	2.2	29	85	5	83	50	4	0	44	1.23
53837476--53837523	21	2.2	22	82	10	55	22	4	10	62	1.44
53845567--53845608	5	8.4	5	100	0	84	40	0	0	59	0.97
53855638--53855702	31	2.1	31	86	8	89	27	15	13	43	1.85
53856729--53856839	50	2.1	53	80	9	122	54	2	1	41	1.25
53866696--53866760	30	2.1	31	81	13	73	46	9	3	41	1.51
53869648--53869694	15	3.0	15	82	11	58	61	0	23	14	1.33
53870991--53871070	22	3.5	22	78	11	70	45	16	25	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53871014--53871062	25	1.9	26	95	4	91	46	16	22	14	1.82
53871006--53871080	23	3.2	23	82	12	89	46	16	21	16	1.83
53871006--53871070	25	2.7	23	78	19	71	46	15	23	15	1.83
53871006--53871080	25	3.2	23	74	22	66	46	16	21	16	1.83
53874768--53874956	94	2.0	96	86	5	267	58	11	14	15	1.64
53883871--53883946	35	2.1	35	85	2	98	28	7	7	55	1.57
53885787--53885836	16	3.2	16	72	13	50	48	2	0	50	1.12
53889872--53889899	8	3.5	8	100	0	56	78	0	0	21	0.75
53889872--53889907	16	2.2	16	90	0	54	83	0	0	16	0.65
53893398--53893461	31	2.1	31	90	0	101	20	12	9	57	1.62

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