genome.fa.s4.2.7.7.80.10.50.1000.170.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  170  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)
53011027--53011061	16	2.1	18	89	10	56	40	0	2	57	1.14
53012585--53012614	15	1.9	16	93	6	53	56	16	6	20	1.62
53014013--53014039	6	4.5	6	100	0	54	51	14	0	33	1.43
53019159--53019200	8	5.2	8	77	11	50	64	0	0	35	0.94
53019159--53019200	15	2.6	17	81	11	61	64	0	0	35	0.94
53019570--53019608	20	2.0	20	84	0	51	43	0	2	53	1.14
53024006--53024045	19	2.1	19	100	0	80	35	15	20	30	1.93
53026255--53026329	38	2.0	37	94	2	132	6	10	32	50	1.63
53038191--53038232	19	2.2	20	83	12	52	38	2	7	52	1.42
53038234--53038268	18	1.9	18	88	0	52	68	2	0	28	1.04
53039530--53039632	51	2.0	51	98	0	197	33	4	39	22	1.75
53044842--53044874	13	2.6	13	85	4	50	42	3	0	54	1.15
53052501--53052652	68	2.2	68	89	0	232	43	13	15	28	1.84
53052511--53052616	32	3.2	32	69	10	86	44	11	16	28	1.81
53058922--53058973	21	2.3	23	80	6	63	38	0	3	57	1.17
53062123--53062241	50	2.4	50	97	1	202	21	19	12	47	1.82
53065945--53065979	2	18.0	2	94	5	63	51	0	0	48	1.00
53066986--53067095	41	2.7	41	95	1	195	12	31	22	32	1.92
53070409--53070456	18	2.6	19	76	6	53	66	4	0	29	1.10
53070731--53070755	5	5.0	5	100	0	50	20	0	0	80	0.72
53073457--53073496	21	2.0	19	85	9	53	82	7	2	7	0.92
53074931--53074973	13	3.2	13	75	12	50	69	11	0	18	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53075495--53075530	16	2.2	16	90	0	54	41	0	0	58	0.98
53085315--53085339	11	2.3	11	100	0	50	24	0	0	76	0.80
53097286--53097329	23	2.0	22	86	4	61	68	2	6	22	1.25
53097444--53097487	22	2.0	23	86	4	63	54	2	2	40	1.25
53097536--53097591	19	2.9	18	86	7	67	55	3	1	39	1.28
53098187--53098256	16	4.4	16	73	8	63	44	5	21	28	1.75
53098187--53098256	32	2.2	32	82	5	79	44	5	21	28	1.75
53100118--53100277	31	5.3	31	66	18	102	24	14	12	48	1.78
53100130--53100291	60	2.7	61	80	6	186	23	14	11	50	1.75
53106612--53106637	3	8.7	3	100	0	52	34	30	0	34	1.58
53107328--53107368	13	3.1	14	86	10	59	43	0	19	36	1.51
53107889--53107921	2	17.0	2	93	6	59	51	0	0	48	1.00
53108248--53108279	16	1.9	17	93	6	57	68	0	3	28	1.04
53110703--53110761	17	3.5	17	73	0	64	40	3	10	45	1.54
53114027--53114106	31	2.6	31	88	7	126	27	11	11	50	1.72
53114303--53114418	58	2.0	58	81	3	135	54	11	11	23	1.68
53114343--53114418	27	2.6	29	74	17	77	56	10	10	22	1.63
53115274--53115321	19	2.5	19	86	10	62	43	6	2	47	1.40
53119381--53119442	29	2.1	30	82	11	74	27	4	1	66	1.21
53135554--53135593	6	6.7	6	94	0	71	72	0	12	15	1.12
53148067--53148099	6	5.5	6	92	0	57	0	33	45	21	1.52
53152658--53152690	6	5.5	6	92	0	57	0	33	45	21	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53152976--53153015	21	2.0	20	85	14	55	35	5	32	27	1.79
53165352--53165386	17	2.1	17	100	0	70	34	17	5	42	1.73
53166384--53166408	13	1.9	13	100	0	50	32	8	24	36	1.84
53173265--53173303	13	2.9	14	85	11	55	38	20	0	41	1.53
53174040--53174065	3	8.7	3	100	0	52	34	0	30	34	1.58
53177099--53177133	16	2.2	16	94	0	61	25	28	11	34	1.91
53182189--53182229	21	2.0	21	90	0	64	56	7	2	34	1.40
53184143--53184169	3	9.0	3	100	0	54	33	0	0	66	0.92
53189450--53189487	19	2.0	19	89	0	58	63	5	7	23	1.42
53195515--53195559	23	1.9	23	86	4	63	66	2	0	31	1.04
53195663--53195871	90	2.3	88	81	3	222	33	16	9	40	1.80
53195720--53195890	88	2.0	88	85	3	238	33	17	10	38	1.84
53196052--53196102	21	2.5	22	81	12	63	64	1	3	29	1.22
53196066--53196132	17	3.5	20	70	15	61	61	2	4	31	1.31
53196111--53196146	17	2.0	19	89	10	58	61	8	2	27	1.39
53197133--53197170	18	2.1	18	95	0	67	26	5	7	60	1.46
53200419--53200466	19	2.6	19	90	3	71	56	6	0	37	1.25
53201388--53201441	18	3.1	18	87	10	69	55	0	0	44	0.99
53201413--53201451	18	2.2	18	86	9	53	56	0	2	41	1.13
53203166--53203190	12	2.1	12	100	0	50	76	8	8	8	1.18
53205113--53205143	15	2.0	16	93	6	55	61	6	0	32	1.21
53206592--53206623	16	2.0	16	93	0	55	50	9	0	40	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53207867--53207923	30	1.9	30	86	10	82	45	3	1	49	1.29
53210167--53210211	22	2.0	22	86	0	63	37	4	11	46	1.60
53213730--53213774	19	2.4	19	81	7	56	37	0	4	57	1.19
53214564--53214593	16	1.9	16	93	6	53	13	13	3	70	1.30
53214559--53214619	22	2.8	22	85	7	72	13	11	3	72	1.24
53216076--53216113	16	2.2	17	86	13	51	44	0	0	55	0.99
53216237--53216269	12	2.8	12	90	4	50	0	12	3	84	0.72
53221954--53222006	22	2.6	19	78	16	61	49	0	7	43	1.31
53224359--53224783	147	2.9	147	79	4	464	27	24	13	33	1.93
53225911--53225991	30	2.7	31	77	7	87	46	20	11	20	1.81
53226767--53226838	30	2.4	31	81	6	85	19	12	18	50	1.78
53229269--53229306	14	2.7	15	84	8	53	55	10	5	28	1.56
53234222--53234290	25	2.7	25	93	4	111	42	4	0	53	1.20
53234225--53234299	30	2.6	30	86	14	97	38	4	0	57	1.18
53235109--53235145	17	2.2	16	90	4	56	56	0	8	35	1.29
53235174--53235252	32	2.5	31	82	10	97	40	3	3	51	1.38
53235174--53235250	17	4.8	16	72	15	61	41	3	3	50	1.39
53235229--53235269	19	2.2	19	90	0	64	34	4	2	58	1.32
53235190--53235270	17	4.7	17	73	13	58	38	3	6	51	1.45
53237014--53237100	19	4.7	18	68	22	54	62	3	5	28	1.35
53251321--53251384	13	4.9	13	70	14	60	45	3	10	40	1.55
53252255--53252281	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53252381--53252413	17	1.9	17	93	0	57	60	0	21	18	1.36
53258960--53259011	26	2.1	24	82	13	61	61	1	0	36	1.07
53265713--53265747	18	1.9	18	88	11	54	42	0	0	57	0.99
53265676--53265739	33	1.9	33	84	12	87	34	0	1	64	1.03
53266344--53266408	34	1.9	34	90	0	103	52	21	0	26	1.47
53267380--53267505	60	2.1	59	98	1	243	45	11	7	34	1.70
53269130--53269156	11	2.5	11	100	0	54	7	0	0	92	0.38
53269123--53269155	9	3.7	9	92	8	50	9	0	0	90	0.44
53270645--53270694	21	2.4	21	80	12	59	22	2	2	74	1.03
53273330--53273394	34	1.9	33	84	3	85	46	3	3	47	1.33
53273361--53273403	21	2.0	22	82	13	54	39	6	4	48	1.51
53273520--53273564	22	2.0	22	95	0	81	33	13	11	42	1.79
53277169--53277283	59	1.9	59	87	0	167	34	21	16	26	1.95
53280885--53280915	5	6.2	5	100	0	62	0	0	19	80	0.71
53282972--53282999	4	7.0	4	100	0	56	50	25	0	25	1.50
53287192--53287224	13	2.4	14	90	5	50	69	6	6	18	1.30
53287360--53287435	11	6.9	11	83	3	82	28	1	2	67	1.12
53287845--53287986	54	2.6	55	87	1	205	45	16	6	30	1.73
53288078--53288131	17	2.9	18	75	20	56	44	5	0	50	1.25
53290516--53290578	28	2.2	30	82	5	76	22	11	19	47	1.80
53290660--53290724	18	3.4	19	73	26	57	47	1	0	50	1.10
53290734--53290774	13	2.9	14	77	22	50	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
53290807--53290860	17	3.3	15	73	16	54	53	1	1	42	1.22
53293326--53293355	14	2.2	14	94	5	53	23	26	13	36	1.92
53299247--53299310	30	2.1	30	91	5	103	45	7	10	35	1.68
53301439--53301527	35	2.5	35	90	3	144	43	23	1	31	1.61
53309836--53309869	12	2.9	12	91	4	52	26	44	20	8	1.81
53313387--53313431	21	2.1	22	87	4	65	62	0	4	33	1.15
53314669--53314729	26	2.3	27	82	2	70	34	19	11	34	1.88
53314685--53314734	20	2.5	20	75	15	59	36	24	12	28	1.91
53314807--53314850	20	2.2	20	100	0	88	29	6	13	50	1.68
53318110--53318156	14	3.5	13	75	13	51	51	4	0	44	1.21

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