genome.fa.s2.2.7.7.80.10.50.1000.20.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  20  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)
5416928--5416981	27	2.0	27	96	0	99	55	12	3	27	1.54
5417479--5417521	10	4.3	10	82	5	52	60	0	0	39	0.97
5424094--5424131	17	2.1	18	85	9	51	47	0	0	52	1.00
5424482--5424566	31	2.6	33	76	16	88	52	2	0	44	1.13
5425876--5425924	22	2.2	22	88	0	71	26	0	6	67	1.14
5425891--5425936	15	2.9	16	77	6	58	32	0	6	60	1.22
5425866--5425936	31	2.3	31	83	9	83	30	0	7	61	1.22
5429156--5429221	26	2.9	21	72	20	60	30	13	10	45	1.77
5429675--5429702	5	5.6	5	100	0	56	0	60	0	39	0.97
5439610--5439635	10	2.6	10	100	0	52	34	0	0	65	0.93
5445615--5445774	54	3.0	53	82	4	187	42	14	26	16	1.87
5450341--5450524	95	1.9	94	80	6	210	33	26	12	27	1.92
5451355--5451381	9	3.0	9	100	0	54	77	0	0	22	0.76
5454739--5454781	20	2.2	20	82	0	50	44	32	4	18	1.71
5460005--5460045	6	6.8	6	100	0	82	34	65	0	0	0.93
5460666--5460704	6	6.3	6	87	3	51	48	12	0	38	1.42
5460655--5460704	12	4.1	12	84	5	64	48	16	0	36	1.46
5465509--5465554	15	3.1	15	81	9	51	45	0	0	54	0.99
5471461--5471496	18	2.0	18	100	0	72	38	5	5	50	1.49
5472395--5472434	21	1.9	21	84	0	53	30	2	2	65	1.19
5472454--5472498	21	2.3	18	85	11	54	33	2	2	62	1.20
5472397--5472527	10	13.7	9	68	18	61	29	3	3	64	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5473323--5473353	16	1.9	16	93	0	53	48	0	3	48	1.17
5473506--5473531	9	2.9	9	100	0	52	53	0	34	11	1.37
5474995--5475491	206	2.4	214	78	9	501	30	14	21	32	1.94
5474995--5475943	219	4.4	211	76	12	757	31	14	21	32	1.93
5480186--5480216	16	1.9	16	93	0	53	48	0	0	51	1.00
5481468--5481500	14	2.2	15	89	10	50	72	0	0	27	0.85
5488441--5488480	21	1.9	21	85	10	55	75	5	5	15	1.15
5490682--5490745	17	3.7	17	76	16	60	39	0	18	42	1.51
5493604--5493656	25	2.2	24	82	3	61	32	3	1	62	1.24
5498647--5498709	14	4.3	15	71	16	51	65	1	1	31	1.12
5504376--5504425	19	2.6	19	90	9	84	42	0	2	56	1.11
5504378--5504425	9	5.1	9	92	7	78	41	0	2	56	1.11
5510390--5510459	2	35.0	2	97	0	131	48	0	1	50	1.09
5512602--5512645	23	1.9	23	86	9	63	25	2	0	72	0.96
5512629--5512669	20	2.0	21	85	9	57	41	0	2	56	1.13
5516651--5516691	21	2.0	21	95	0	73	24	24	14	36	1.93
5521313--5521377	30	2.1	32	85	8	89	49	0	0	50	1.00
5524415--5524481	16	4.2	16	83	7	82	41	2	26	28	1.70
5524415--5524481	32	2.1	32	88	5	100	41	2	26	28	1.70
5537006--5537112	53	2.0	53	92	0	178	36	15	13	34	1.87
5540074--5540122	13	3.8	13	75	20	57	36	14	6	42	1.70
5546328--5546369	20	2.1	20	95	0	75	45	35	4	14	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5547937--5547961	13	1.9	13	100	0	50	24	0	16	60	1.36
5554866--5554995	48	3.0	46	73	16	132	56	2	0	40	1.17
5558383--5558444	11	5.6	11	78	0	52	29	20	29	20	1.98
5558402--5558444	22	2.0	22	85	0	59	25	23	27	23	2.00
5558464--5558520	16	3.7	15	79	11	53	12	8	29	49	1.70
5559699--5559757	24	2.5	24	94	0	109	28	27	23	20	1.99
5587399--5587438	20	2.0	20	85	0	53	42	20	7	30	1.79
5588979--5589123	71	2.0	71	87	0	209	41	20	17	20	1.91
5591514--5592000	164	3.0	164	94	0	850	40	21	14	22	1.90
5597192--5597347	82	1.9	80	84	5	206	37	21	18	23	1.94
5601017--5601104	33	2.7	33	98	0	167	46	2	12	38	1.54
5606090--5606128	19	2.0	20	90	5	62	20	0	12	66	1.24
5606663--5606712	25	2.0	26	84	4	66	14	12	12	62	1.56
5617998--5618032	18	1.9	18	94	0	61	28	17	11	42	1.83
5627421--5627460	20	2.0	21	85	5	55	57	2	15	25	1.50
5630268--5630398	69	2.0	65	87	6	190	44	11	17	26	1.83
5639373--5639426	28	2.0	27	82	17	67	53	0	3	42	1.18
5640556--5640664	56	1.9	56	86	0	155	23	11	13	50	1.75
5646965--5647014	11	4.5	11	76	14	57	62	2	2	34	1.18
5646965--5647036	34	2.1	34	82	5	83	59	5	4	30	1.39
5647929--5647978	4	11.5	4	89	6	55	66	0	34	0	0.92
5649518--5649654	51	2.6	51	80	8	152	27	21	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5653678--5653794	38	2.8	43	81	12	154	49	11	10	29	1.71
5654430--5654517	42	2.1	42	97	0	167	29	25	20	25	1.99
5654994--5655115	45	2.6	47	87	7	178	53	9	6	30	1.59
5655276--5655356	20	3.9	20	71	15	74	50	16	0	33	1.45
5655271--5655352	42	2.0	40	86	11	114	50	18	0	31	1.47
5655346--5655373	5	5.6	5	100	0	56	64	0	0	35	0.94
5655426--5655459	11	3.0	11	83	8	50	67	2	0	29	1.05
5655426--5655463	12	3.2	12	82	17	53	68	2	0	28	1.03
5658016--5658063	23	2.0	23	88	4	69	66	0	0	33	0.92
5658016--5658065	25	2.0	24	84	3	64	68	0	0	32	0.90
5658185--5658244	10	6.1	10	81	14	72	40	0	1	58	1.08
5658185--5658240	19	2.9	19	87	10	78	37	0	1	60	1.07
5658949--5659012	24	2.7	22	77	15	65	51	0	0	48	1.00
5668846--5668890	23	2.0	23	86	0	63	31	13	20	35	1.91
5669099--5669220	58	2.1	58	87	6	176	47	18	0	34	1.49
5674249--5674363	58	2.0	58	91	3	187	46	15	0	37	1.46
5680876--5680901	4	6.5	4	100	0	52	26	46	0	26	1.53
5681712--5681797	41	2.2	38	83	6	109	29	3	1	66	1.16
5681808--5681916	20	5.2	22	70	15	81	54	0	1	44	1.11
5681843--5681880	16	2.3	17	86	4	51	47	0	2	50	1.15
5681858--5681929	37	1.9	38	83	8	94	50	0	1	48	1.09
5681913--5681968	25	2.2	26	84	9	71	37	1	3	57	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5683633--5683709	31	2.5	30	79	6	84	32	10	15	41	1.81
5683994--5684021	6	4.7	6	100	0	56	50	14	0	35	1.43
5684597--5684646	16	3.2	16	75	18	61	50	0	0	50	1.00
5684600--5684666	29	2.3	29	82	17	77	46	1	0	52	1.09
5695622--5695725	45	2.3	46	80	9	124	43	25	21	10	1.84
5695623--5695721	23	4.4	22	81	8	101	43	25	20	11	1.84
5702220--5702346	23	5.5	22	77	11	96	41	22	24	11	1.87
5707998--5708022	12	2.1	12	100	0	50	52	8	0	40	1.31
5708498--5708730	63	3.7	62	87	2	349	26	24	23	26	2.00
5708788--5708834	24	2.0	24	91	0	76	23	27	31	17	1.96
5709201--5709258	18	3.4	18	64	22	52	34	51	8	5	1.55
5709176--5709308	33	4.0	33	88	0	176	30	49	8	12	1.69
5717852--5717876	7	3.6	7	100	0	50	76	0	0	24	0.80
5717818--5717893	29	2.6	27	71	20	73	64	2	1	31	1.15
5719261--5719305	23	2.0	22	86	4	63	37	0	0	62	0.96
5720104--5720131	6	4.7	6	100	0	56	50	0	0	50	1.00
5721802--5721863	26	2.4	24	81	10	61	35	0	1	62	1.05
5721940--5721976	18	2.1	17	90	5	56	67	5	0	27	1.12
5722629--5722714	45	1.9	45	100	0	172	43	6	4	45	1.51
5723635--5723755	58	2.1	58	85	3	163	25	16	4	53	1.60
5728117--5728192	37	2.1	37	94	0	134	31	11	23	32	1.91
5731650--5731701	21	2.5	21	81	9	61	32	3	1	61	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5745478--5745508	7	4.4	7	100	0	62	16	0	83	0	0.64
5748699--5748737	21	1.9	21	84	5	53	38	10	0	51	1.36
5754652--5754701	23	2.2	23	85	7	66	40	4	2	54	1.31
5761217--5761246	2	15.0	2	100	0	60	50	0	50	0	1.00
5764694--5764719	3	8.7	3	100	0	52	30	34	0	34	1.58
5767061--5767234	90	1.9	90	81	2	206	27	12	21	38	1.89
5769132--5769198	24	2.8	24	90	0	98	23	13	8	53	1.68
5771126--5771188	20	2.8	24	76	18	80	22	12	9	55	1.65
5773348--5773395	18	2.7	18	80	0	60	22	27	0	50	1.50
5773348--5773392	6	7.5	6	84	0	54	22	28	0	48	1.50

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