genome.fa.s4.2.7.7.80.10.50.1000.56.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  56  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)
17402234--17402277	6	7.8	6	80	14	58	52	0	2	45	1.13
17402238--17402277	11	3.6	11	93	0	71	50	0	2	47	1.14
17402238--17402280	5	8.0	5	82	12	50	53	0	2	44	1.13
17402331--17402426	43	2.2	43	90	0	147	32	31	14	21	1.94
17404178--17404409	29	7.9	28	71	21	145	31	28	3	36	1.75
17404173--17404369	89	2.2	88	87	6	272	32	27	3	36	1.73
17404237--17404403	59	2.8	59	89	5	241	32	28	2	36	1.72
17404264--17404456	59	3.3	58	85	5	219	31	26	4	37	1.77
17404356--17404474	28	4.1	28	70	9	87	30	25	7	36	1.84
17408996--17409023	3	9.3	3	100	0	56	67	0	0	32	0.91
17411028--17411092	21	3.3	19	87	10	71	35	3	0	61	1.12
17411040--17411092	21	2.5	21	96	0	97	39	3	0	56	1.17
17414087--17414206	62	2.0	59	83	8	152	41	1	4	52	1.30
17414145--17414178	12	2.8	12	83	16	52	50	0	0	50	1.00
17416262--17416311	20	2.5	20	80	3	55	48	0	16	36	1.46
17417155--17417502	53	6.7	53	84	5	444	25	16	22	34	1.95
17417156--17417502	105	3.4	105	87	4	474	25	17	22	34	1.95
17418185--17418241	21	2.7	21	91	0	87	24	15	26	33	1.95
17419913--17419949	18	2.1	18	89	0	56	62	0	0	37	0.96
17419908--17419950	18	2.7	15	77	19	50	65	0	0	34	0.93
17420257--17420292	7	5.1	7	100	0	72	13	13	44	27	1.82
17420588--17420651	25	2.6	25	86	13	98	56	0	0	43	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17431150--17431199	4	12.2	4	83	12	66	74	0	26	0	0.83
17431159--17431200	21	2.0	22	90	4	68	71	0	28	0	0.86
17431214--17431275	28	2.3	26	83	13	72	30	0	3	66	1.08
17441052--17442574	509	3.0	507	92	1	2440	30	16	22	31	1.96
17448224--17448272	18	2.7	18	87	0	62	26	16	14	42	1.86
17449608--17449632	11	2.3	11	100	0	50	72	0	0	28	0.86
17451209--17451497	50	5.8	50	78	3	260	20	17	18	43	1.88
17451190--17451542	100	3.5	99	79	4	352	20	18	18	41	1.90
17451217--17451497	150	1.9	149	83	2	366	20	17	18	43	1.88
17454832--17454993	82	2.0	82	87	2	236	32	13	23	30	1.93
17457203--17457234	14	2.2	15	94	5	57	78	3	6	12	1.06
17463526--17463574	21	2.3	21	79	6	55	30	8	28	32	1.86
17470115--17470172	20	2.9	19	72	18	55	18	1	3	75	1.03
17473449--17473510	4	15.2	4	75	14	56	72	3	1	22	1.08
17473449--17473492	11	3.6	12	87	9	54	75	2	0	22	0.92
17484760--17484784	13	1.9	13	100	0	50	24	16	12	48	1.79
17487246--17487287	16	2.5	17	80	3	50	71	4	0	23	1.05
17489298--17489347	21	2.4	21	82	0	55	32	8	30	30	1.86
17490327--17490399	23	3.2	23	71	21	80	23	15	19	42	1.88
17490293--17490399	46	2.3	46	91	0	169	25	14	15	43	1.85
17490293--17490413	46	2.6	45	84	10	163	24	14	16	44	1.85
17491043--17491068	6	4.3	6	100	0	52	69	0	30	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17497163--17497693	24	22.2	24	83	0	616	28	25	17	28	1.98
17503122--17503171	23	2.1	24	82	10	59	54	26	14	6	1.63
17505816--17506087	24	11.2	24	79	5	278	27	23	18	29	1.98
17505820--17506087	48	5.5	48	84	4	313	27	23	18	29	1.98
17505819--17506058	100	2.5	95	86	3	309	27	23	19	30	1.98
17507237--17507547	80	3.9	80	84	2	372	22	17	26	32	1.96
17507571--17507631	25	2.4	25	94	0	104	22	19	29	27	1.98
17512162--17512213	21	2.5	21	93	0	86	5	26	9	57	1.53
17512459--17512518	3	20.0	3	73	13	52	1	28	0	70	0.97
17512459--17512518	9	6.3	9	79	11	66	1	28	0	70	0.97
17512460--17512517	18	3.0	19	85	14	75	1	29	0	68	0.99
17518615--17518656	18	2.3	19	80	12	52	23	19	21	35	1.96
17520228--17520274	24	2.0	24	84	16	62	51	10	12	25	1.72
17528126--17528152	9	3.0	9	100	0	54	66	0	33	0	0.92
17534603--17534644	15	2.7	15	88	3	57	23	7	7	61	1.47
17534930--17534976	20	2.4	19	80	16	51	65	2	2	29	1.15
17534971--17534999	15	2.0	15	93	6	51	65	0	0	34	0.93
17534943--17535030	44	2.0	43	80	10	99	67	2	0	30	1.03
17538355--17538437	16	5.6	15	70	17	57	78	0	4	16	0.92
17538349--17538437	6	14.5	6	76	19	53	77	0	5	16	0.95
17543757--17543796	18	2.2	18	86	0	53	2	32	0	65	1.06
17551308--17551344	17	2.1	19	85	10	51	64	8	13	13	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17567109--17567159	11	4.4	11	73	22	50	43	1	0	54	1.11
17567107--17567148	20	2.1	20	91	8	68	40	2	0	57	1.12
17567136--17567248	61	1.9	59	82	8	140	42	4	4	48	1.43
17572391--17572474	31	2.7	31	90	0	132	34	16	16	32	1.92
17573265--17573306	21	2.0	21	85	0	57	42	7	19	30	1.78
17574293--17574337	22	2.0	22	86	0	63	11	20	31	37	1.87
17574306--17574476	38	4.5	38	89	0	234	15	21	28	34	1.94
17574306--17574516	38	5.5	39	85	5	232	16	20	27	35	1.94
17577059--17577099	20	2.0	20	100	0	82	39	31	0	29	1.57
17582884--17582934	6	8.7	6	78	18	54	3	13	1	80	0.94
17582879--17582933	19	3.2	16	77	20	58	3	12	1	81	0.89
17615359--17615517	38	4.2	38	83	5	128	16	19	27	35	1.94
17615382--17615533	38	4.0	39	86	3	186	16	20	28	34	1.94
17615421--17615582	77	2.1	76	80	5	175	16	18	26	38	1.91
17615421--17615584	38	4.3	38	74	9	120	16	18	26	39	1.91
17621014--17621065	21	2.5	21	93	0	86	30	25	19	25	1.98
17624217--17624243	4	6.8	4	100	0	54	77	0	22	0	0.76
17625315--17625389	31	2.5	31	89	4	109	33	17	18	30	1.94
17626974--17627053	21	3.7	21	71	22	58	37	30	8	23	1.85
17627650--17628026	52	7.2	52	88	1	542	30	24	15	29	1.95
17627671--17628026	155	2.3	155	88	4	529	31	24	14	28	1.95
17627644--17628026	207	1.8	208	87	2	574	31	24	15	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17628880--17628921	20	2.1	20	91	8	68	33	23	0	42	1.55
17636268--17636698	58	7.4	58	88	3	580	32	31	2	32	1.72
17636268--17636697	29	14.8	29	68	20	195	32	31	2	32	1.72
17643375--17643439	30	2.2	30	81	10	80	33	4	0	61	1.16
17646884--17646909	2	13.0	2	100	0	52	50	0	0	50	1.00
17649782--17649809	3	9.3	3	100	0	56	32	0	0	67	0.91
17652582--17652719	43	3.2	43	83	6	147	29	23	10	36	1.89
17652582--17652871	42	6.8	42	86	6	185	28	25	11	33	1.91
17652681--17652876	42	4.6	42	91	3	295	29	28	11	31	1.91
17661699--17661744	16	2.7	17	75	18	51	63	0	36	0	0.95
17663150--17663423	52	5.2	52	90	4	401	29	15	22	32	1.95
17671358--17671481	28	4.5	28	72	2	97	37	24	15	23	1.93
17671374--17671490	55	2.1	55	90	0	180	39	22	16	22	1.92
17671420--17671490	28	2.6	27	75	4	79	43	22	15	18	1.87
17673435--17673477	22	2.0	23	86	9	63	41	6	4	46	1.51
17676883--17676934	16	3.0	16	73	26	52	38	1	15	44	1.58
17677498--17677532	17	2.1	16	89	5	52	51	0	2	45	1.16
17678987--17679028	17	2.4	17	88	4	57	47	2	28	21	1.63
17679001--17679048	24	2.0	24	83	0	60	43	2	35	18	1.62
17684383--17684424	17	2.4	17	92	4	66	50	2	26	21	1.61
17685111--17685224	61	1.9	60	83	1	147	50	9	14	24	1.73
17685185--17685312	31	4.3	31	69	18	99	53	12	8	25	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17685594--17685637	23	2.0	22	86	4	61	22	2	6	68	1.25
17689226--17689417	97	2.0	97	86	0	267	37	17	16	28	1.91
17689691--17689769	30	2.7	31	81	12	80	39	2	21	36	1.67
17689688--17689953	28	9.2	28	76	7	176	40	3	21	34	1.69
17689785--17689943	88	1.8	86	81	5	194	42	2	19	35	1.65
17689753--17689956	29	7.1	28	73	13	114	39	2	23	34	1.70
17690983--17691032	20	2.5	20	87	9	68	38	0	2	60	1.09
17691678--17691726	17	2.9	17	87	0	62	59	4	2	34	1.28
17692166--17692279	59	1.9	59	90	0	183	29	13	32	24	1.93
17692265--17692425	76	2.1	78	79	8	177	31	18	27	22	1.97

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