genome.fa.s3.2.7.7.80.10.50.1000.92.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: CP032247.1 Gossypioides kirkii chromosome KI_05
Parameters: 2 7 7 80 10 50 1000
Length:  50980411

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   

This is table  92  of  171  ( 20472 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)
29979808--29979857	16	3.3	15	73	21	50	58	6	0	36	1.23
29981731--29981855	45	2.8	45	87	4	164	32	24	20	22	1.98
29985723--29985775	4	13.5	4	78	4	54	0	32	0	67	0.91
29987078--29987113	19	1.9	19	88	5	56	11	13	8	66	1.44
29989289--29990029	374	2.0	373	90	0	1169	34	19	15	29	1.93
30002411--30002456	21	2.2	21	88	0	65	45	15	15	23	1.84
30004997--30005068	35	2.0	37	83	8	94	26	9	15	48	1.75
30005239--30005267	15	1.9	15	100	0	58	48	20	0	31	1.50
30008430--30008460	15	2.1	15	100	0	62	29	25	6	38	1.81
30013174--30013207	5	6.8	5	93	0	59	0	20	0	79	0.73
30016990--30017024	15	2.4	14	90	9	52	51	0	0	48	1.00
30024970--30025404	59	7.4	58	83	3	555	34	2	29	33	1.71
30025085--30025406	29	11.0	28	66	24	116	34	2	29	33	1.71
30027829--30028081	115	2.2	115	89	3	384	21	21	20	36	1.95
30027945--30028488	196	2.8	196	95	0	971	19	24	20	35	1.96
30040528--30040839	58	5.3	56	81	9	322	35	3	27	32	1.74
30040524--30040839	117	2.7	116	82	9	374	35	3	27	32	1.75
30041896--30041976	3	26.0	3	75	7	54	39	2	2	55	1.26
30041906--30041976	31	2.3	31	77	0	79	39	2	2	54	1.29
30042274--30042342	24	2.8	24	91	2	102	24	5	23	46	1.74
30042759--30042803	16	2.8	16	86	10	56	37	0	2	60	1.09
30048330--30048381	21	2.5	21	84	6	70	26	13	28	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30051085--30051388	158	1.9	159	86	0	430	28	25	25	20	1.99
30055153--30055205	22	2.4	22	87	6	72	11	7	18	62	1.52
30056109--30056140	10	3.2	10	100	0	64	31	31	9	28	1.88
30063781--30063812	3	10.7	3	93	0	55	3	34	0	62	1.11
30063779--30063821	9	4.8	9	91	0	59	9	34	0	55	1.32
30065753--30065829	40	1.9	41	86	7	113	41	15	6	36	1.73
30067502--30067551	6	8.3	6	100	0	100	34	18	32	16	1.92
30068069--30068094	10	2.6	10	100	0	52	65	0	0	34	0.93
30070784--30070850	32	2.1	31	86	8	91	16	0	20	62	1.32
30070801--30070859	23	2.5	24	91	2	93	18	0	16	64	1.29
30072345--30072401	21	2.7	21	88	0	78	33	24	15	26	1.95
30072462--30072601	66	2.1	65	94	2	244	40	25	7	26	1.83
30072474--30072599	21	5.7	22	71	15	82	38	26	7	27	1.82
30073150--30073292	52	2.7	53	91	1	234	33	23	16	26	1.96
30074144--30074186	21	2.0	22	82	13	54	34	13	2	48	1.56
30075980--30076041	23	2.7	24	82	9	76	40	19	11	29	1.86
30077938--30078151	23	9.5	23	71	14	142	41	21	25	11	1.87
30077992--30078066	39	1.9	39	91	0	123	44	21	22	12	1.85
30078031--30078151	48	2.6	46	84	7	163	39	22	26	11	1.88
30082881--30082911	6	5.2	6	100	0	62	16	32	16	35	1.91
30083954--30083981	2	14.0	2	100	0	56	50	0	0	50	1.00
30090558--30090585	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30094313--30094343	16	1.9	16	93	0	53	67	3	0	29	1.06
30106856--30106890	6	5.8	6	87	12	54	0	20	0	80	0.72
30106858--30106888	13	2.5	13	94	5	55	0	19	0	80	0.71
30116338--30116387	21	2.3	22	86	3	66	40	24	10	26	1.86
30117915--30117954	16	2.5	17	76	15	50	40	10	0	50	1.36
30122974--30123007	16	2.1	17	94	5	61	41	26	2	29	1.70
30123172--30123269	31	3.3	30	70	13	85	24	13	13	48	1.77
30123172--30123363	62	3.2	59	84	5	208	26	15	11	46	1.80
30123174--30123345	59	2.9	58	86	6	202	25	15	12	47	1.79
30123590--30123653	31	2.1	31	85	11	87	42	9	21	26	1.83
30124379--30124434	29	1.9	29	85	7	78	64	0	5	30	1.16
30133982--30134014	16	2.1	16	100	0	66	30	0	24	45	1.53
30135433--30135497	30	2.2	29	83	2	85	56	3	7	32	1.43
30135482--30135516	17	2.0	17	88	5	52	68	2	5	22	1.24
30135587--30135646	31	1.9	31	82	0	75	26	10	23	40	1.86
30135661--30135696	19	1.9	18	88	5	54	41	0	0	58	0.98
30135707--30135759	27	2.0	27	85	7	72	37	9	0	52	1.34
30138869--30138900	11	2.8	11	95	4	55	81	6	9	3	0.97
30141740--30141802	32	2.0	32	96	0	117	20	17	15	46	1.85
30141924--30141960	17	2.2	17	95	0	65	35	2	0	62	1.10
30142152--30142178	14	1.9	14	100	0	54	25	0	14	59	1.36
30142529--30142574	13	3.5	13	77	11	58	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30142521--30142626	26	3.7	28	82	12	135	48	0	1	50	1.12
30148251--30148340	18	4.9	18	81	8	110	23	21	27	27	1.99
30148247--30148340	37	2.6	37	85	8	129	23	21	27	27	1.99
30155364--30155438	18	4.1	18	73	10	71	28	18	24	29	1.98
30155367--30155454	37	2.4	36	87	9	117	26	17	26	30	1.97
30155394--30155454	18	3.3	18	77	8	70	26	14	27	31	1.95
30156899--30156981	37	2.2	35	78	14	85	30	13	8	48	1.72
30163555--30163601	21	2.2	22	96	3	87	17	8	10	63	1.49
30164014--30164044	16	1.9	16	93	0	53	48	9	6	35	1.62
30164123--30164240	10	12.2	9	70	14	51	38	2	1	56	1.23
30164164--30164204	21	2.0	21	85	0	55	39	0	2	58	1.11
30164174--30164242	19	3.8	17	77	9	66	43	0	0	56	0.99
30168040--30168333	29	10.2	29	74	13	164	35	23	4	37	1.75
30168099--30168343	58	4.2	56	76	12	219	35	22	4	37	1.76
30170413--30170797	192	2.0	192	98	0	752	32	10	15	41	1.81
30171215--30171386	80	2.2	80	86	3	231	33	14	9	43	1.77
30171399--30171424	5	5.2	5	100	0	52	19	0	0	80	0.71
30176867--30176929	24	2.6	24	87	0	90	25	14	9	50	1.72
30178575--30178628	29	2.0	28	85	10	76	37	9	12	40	1.76
30178559--30178669	31	3.7	29	77	8	96	36	11	11	40	1.78
30180477--30180510	18	1.9	18	94	5	61	32	0	5	61	1.20
30181207--30181395	96	2.0	96	84	4	247	39	14	17	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30181748--30181934	59	3.2	60	81	9	224	34	3	26	35	1.74
30181778--30181934	29	5.3	29	80	8	149	36	1	24	36	1.67
30184115--30184701	201	2.9	201	90	1	885	23	23	18	34	1.96
30187895--30189721	457	4.0	457	94	0	3170	26	20	18	34	1.96
30198024--30198084	29	2.1	28	84	3	77	24	9	31	34	1.88
30198183--30198823	58	10.9	59	71	13	321	37	4	24	34	1.75
30198157--30198829	29	22.8	30	68	17	195	37	4	24	34	1.75
30198157--30198411	117	2.2	118	83	7	333	38	3	23	34	1.71
30198575--30198823	87	2.9	88	83	7	321	36	2	25	35	1.71
30200602--30200631	14	2.1	14	93	0	51	23	6	20	50	1.71
30200632--30200727	6	16.7	6	70	12	76	48	2	1	47	1.20
30200630--30200696	23	2.9	23	72	14	66	44	0	1	53	1.09
30200632--30200727	17	5.6	17	78	1	102	48	2	1	47	1.20
30201631--30201685	21	2.6	21	80	11	60	47	29	0	23	1.52
30201630--30201668	14	2.8	14	84	0	51	48	23	0	28	1.51
30201643--30201697	28	2.0	28	82	7	67	45	32	1	20	1.61
30201731--30201774	7	6.4	7	85	15	65	25	0	29	45	1.54
30216816--30216999	97	1.9	96	79	3	208	37	16	20	25	1.93
30217537--30217575	17	2.4	16	83	8	53	30	0	7	61	1.24
30222405--30222477	24	3.0	24	83	0	92	36	23	28	10	1.89
30228682--30228895	23	9.5	23	73	14	151	42	21	24	11	1.86
30228736--30228810	39	1.9	39	91	0	123	44	21	22	12	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30228775--30228895	48	2.6	46	87	7	172	41	23	23	11	1.87
30231178--30231255	26	3.0	26	83	3	86	24	29	17	28	1.98
30232085--30232130	21	2.1	21	81	18	51	34	6	2	56	1.37
30235607--30235638	14	2.1	16	88	11	50	46	18	6	28	1.73
30236419--30236572	31	5.0	31	84	0	191	39	18	13	27	1.89
30236419--30236579	62	2.6	62	85	1	216	39	18	13	28	1.89
30244508--30244632	23	5.5	22	84	6	110	11	24	24	40	1.88
30244511--30244629	45	2.6	46	78	11	122	11	24	25	38	1.89
30250194--30250232	17	2.3	17	90	0	60	15	7	25	51	1.70
30252202--30252514	159	2.0	156	86	6	436	35	12	13	38	1.82

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