genome.fa.s2.2.7.7.80.10.50.1000.16.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: CP032246.1 Gossypioides kirkii chromosome KI_03
Parameters: 2 7 7 80 10 50 1000
Length:  42061019

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   

This is table  16  of  135  ( 16151 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)
4313023--4313165	29	4.9	29	75	6	103	23	18	17	41	1.90
4321601--4321862	85	3.1	85	95	0	470	46	18	8	26	1.78
4323278--4323592	104	3.0	103	79	11	297	32	9	17	41	1.81
4323853--4323888	3	11.7	3	94	5	63	33	0	0	66	0.92
4324040--4324079	18	2.2	18	86	4	53	52	0	0	47	1.00
4324928--4324952	11	2.3	11	100	0	50	0	8	0	92	0.40
4325059--4325169	56	2.0	56	90	0	177	37	26	21	14	1.92
4325115--4325287	86	2.0	85	90	1	274	36	26	17	19	1.93
4328430--4328586	80	2.0	80	98	0	305	35	19	17	28	1.94
4335203--4335359	80	2.0	80	98	0	305	35	19	17	28	1.94
4337906--4337940	11	3.0	12	83	8	54	42	0	2	54	1.15
4338256--4338305	25	2.0	24	81	11	57	56	0	2	42	1.11
4342002--4342040	20	2.0	20	84	0	51	74	2	0	23	0.94
4342408--4342448	17	2.5	16	88	7	64	75	0	0	24	0.80
4342403--4342468	26	2.4	27	77	7	71	68	0	1	30	0.99
4345834--4345874	15	2.7	16	85	7	50	7	14	7	70	1.31
4350415--4350451	19	1.9	19	100	0	74	16	8	10	64	1.47
4355774--4355813	14	2.7	15	84	11	55	50	2	0	47	1.14
4358111--4358196	45	1.9	45	87	0	127	46	4	11	37	1.61
4359088--4359126	16	2.4	16	86	4	51	41	0	2	56	1.13
4368238--4368266	2	14.5	2	100	0	58	0	51	0	48	1.00
4376712--4376752	20	2.0	20	85	0	55	14	21	34	29	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4390554--4390583	12	2.5	12	94	0	51	40	10	0	50	1.36
4391772--4391807	14	2.6	13	91	8	54	25	0	2	72	0.98
4391865--4391904	19	2.1	19	95	0	71	47	15	2	35	1.58
4391989--4392024	14	2.6	13	91	8	54	25	0	2	72	0.98
4399499--4399543	23	2.0	23	82	8	56	62	8	0	28	1.25
4409229--4409271	15	2.8	15	80	16	52	69	0	0	30	0.88
4409232--4409271	16	2.6	15	80	7	53	70	0	0	30	0.88
4409290--4409327	19	2.1	18	95	5	67	52	0	0	47	1.00
4414563--4414946	191	2.0	191	96	0	714	33	13	22	31	1.92
4417119--4417186	31	2.3	30	80	10	77	48	11	8	30	1.70
4417873--4417999	64	2.0	64	96	0	236	24	5	39	30	1.78
4418408--4418449	14	3.1	14	77	16	52	50	2	0	47	1.14
4419418--4419468	25	2.0	25	85	7	68	25	1	1	70	1.08
4422049--4422104	16	3.5	16	85	4	78	33	7	32	26	1.84
4422274--4422414	58	2.4	59	85	7	189	51	2	0	46	1.16
4446480--4446558	27	2.9	27	92	3	124	27	31	12	27	1.93
4448309--4448338	16	1.9	16	93	6	53	30	0	0	70	0.88
4458405--4458459	28	2.0	28	92	0	92	36	21	5	36	1.77
4466044--4466085	17	2.4	17	88	4	57	47	2	28	21	1.63
4467989--4468038	17	2.9	17	84	0	64	60	6	2	32	1.32
4468131--4468163	15	2.3	15	90	10	52	57	33	3	6	1.38
4468772--4468817	16	2.8	16	83	9	58	54	0	2	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4470002--4470166	29	5.6	28	72	22	108	34	26	3	36	1.72
4470001--4470196	59	3.3	58	80	8	177	34	26	3	35	1.72
4480560--4480757	59	3.4	59	80	7	217	33	31	3	31	1.73
4483302--4483338	18	2.0	20	89	10	60	75	2	0	21	0.92
4496509--4496564	29	1.9	29	85	0	76	42	5	8	42	1.59
4498720--4498764	15	2.8	17	80	16	51	51	0	20	28	1.48
4498737--4498767	15	2.1	15	94	5	55	54	0	19	25	1.44
4499650--4499707	25	2.1	28	84	12	77	58	5	8	27	1.49
4506574--4506647	28	2.6	28	75	14	71	35	2	2	59	1.26
4506573--4506632	27	2.2	27	80	13	70	35	0	1	63	1.05
4509908--4509937	3	10.0	3	100	0	60	66	0	0	33	0.92
4511149--4511173	2	12.5	2	100	0	50	52	0	0	48	1.00
4515814--4515849	18	2.1	18	89	5	56	58	0	0	41	0.98
4517271--4517310	15	2.9	15	75	17	50	42	0	2	55	1.13
4517321--4517357	19	1.9	19	88	0	56	35	0	0	64	0.94
4540827--4540870	14	3.1	14	76	3	52	61	2	2	34	1.21
4548547--4548591	16	2.7	16	86	6	54	37	0	2	60	1.09
4548588--4548626	16	2.5	15	84	8	51	53	0	2	43	1.14
4574388--4574432	24	1.9	24	82	13	58	22	11	8	57	1.60
4576395--4576443	17	2.9	17	93	0	80	67	2	0	30	1.02
4578286--4578352	29	2.3	31	80	15	79	41	32	1	23	1.64
4578299--4578361	30	2.1	29	86	13	85	42	25	1	30	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4578299--4578605	29	10.5	29	68	18	122	33	25	3	37	1.74
4578326--4578614	59	4.9	59	87	3	395	32	25	4	38	1.75
4578416--4578509	30	3.2	30	66	19	70	36	23	4	36	1.75
4588087--4588112	3	8.7	3	100	0	52	0	34	0	65	0.93
4591443--4591586	75	1.9	75	92	0	243	31	34	9	24	1.88
4593789--4593851	31	2.0	31	100	0	126	38	6	9	46	1.62
4596900--4596948	20	2.5	19	76	6	53	67	12	2	18	1.32
4597193--4597558	183	2.0	183	97	0	696	31	25	12	30	1.93
4597532--4597652	17	7.4	17	77	7	115	40	1	4	53	1.30
4597577--4597657	6	13.8	6	74	14	62	44	0	3	51	1.19
4597620--4597656	17	2.2	17	95	0	65	48	0	0	51	1.00
4599231--4599302	35	2.0	36	94	2	128	22	19	19	38	1.93
4599679--4599835	30	5.3	29	79	11	160	37	27	1	33	1.68
4599650--4599873	59	3.8	59	84	3	263	36	25	3	34	1.72
4599679--4599873	29	6.6	31	79	8	167	36	25	3	34	1.72
4599806--4600023	108	2.0	110	82	7	266	29	22	9	39	1.85
4600054--4600115	28	2.2	30	80	16	87	33	29	11	25	1.91
4602153--4602188	17	2.2	17	90	5	56	69	11	5	13	1.34
4602305--4602612	59	5.2	59	80	6	320	39	3	25	31	1.74
4602422--4602583	30	5.5	31	67	19	96	38	3	24	33	1.73
4602301--4602641	29	11.6	28	66	19	112	39	3	25	32	1.73
4602305--4602617	118	2.7	118	79	5	373	39	3	25	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4605398--4605481	23	3.7	23	85	6	100	29	25	0	45	1.54
4612818--4613019	58	3.5	58	84	2	183	35	5	29	29	1.80
4612850--4612985	28	4.7	29	74	13	113	34	5	29	30	1.81
4612858--4613009	29	5.2	30	71	14	122	36	3	28	31	1.76
4612853--4613046	58	3.4	59	84	7	229	34	3	28	32	1.75
4613018--4613315	30	9.9	30	91	2	454	35	3	23	37	1.73
4613018--4613315	121	2.5	120	90	3	481	35	3	23	37	1.73
4614345--4614370	3	8.7	3	100	0	52	34	0	0	65	0.93
4614872--4614917	14	3.4	14	84	6	67	15	13	30	41	1.85
4614873--4614928	27	2.1	27	83	6	69	14	14	28	42	1.84
4614960--4614999	17	2.5	16	92	8	64	52	10	0	37	1.35
4615009--4615057	18	2.7	18	78	9	55	48	4	6	40	1.47
4615584--4616955	76	18.0	76	93	0	2258	32	17	15	34	1.91
4618489--4618533	14	3.3	14	84	6	65	13	13	31	42	1.82
4618487--4618544	27	2.1	27	84	6	73	15	13	27	43	1.85
4618576--4618615	17	2.5	16	92	8	64	52	10	0	37	1.35
4618625--4618673	18	2.7	18	78	9	55	48	4	6	40	1.47
4627063--4627089	5	5.4	5	100	0	54	18	40	0	40	1.51
4636967--4637113	30	5.0	29	69	24	103	32	4	33	29	1.76
4636969--4637164	59	3.3	59	84	6	256	34	5	30	30	1.79
4636969--4637166	60	3.4	58	85	6	265	33	5	31	29	1.79
4636997--4637350	30	12.1	29	73	14	194	36	3	26	33	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4637148--4637194	23	2.0	23	91	0	76	46	4	21	27	1.69
4637175--4637336	30	5.4	30	89	3	211	38	0	21	38	1.58
4637175--4637333	60	2.7	60	89	1	239	39	0	22	37	1.59
4637255--4637309	19	3.3	19	63	36	54	29	0	27	43	1.55
4637130--4637350	30	7.7	29	83	9	206	37	2	23	36	1.68
4638463--4638515	21	2.8	18	78	15	61	35	15	1	47	1.56
4638463--4638509	21	2.2	21	88	7	69	34	12	0	53	1.39
4638552--4638586	12	2.8	12	95	4	61	37	0	0	62	0.95
4639112--4639145	17	2.1	16	89	10	52	29	17	23	29	1.97
4639243--4639340	17	5.8	16	78	9	97	57	1	1	40	1.12

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