genome.fa.s3.2.7.7.80.10.50.1000.28.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  28  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)
12961449--12961507	29	2.0	29	100	0	118	13	13	33	38	1.84
12962354--12962393	6	6.8	6	82	5	55	55	2	0	42	1.13
12963292--12963365	27	2.6	28	72	19	73	35	1	2	60	1.19
12963281--12963378	23	4.4	22	67	24	71	34	2	2	61	1.19
12964384--12964418	19	1.9	17	88	11	52	20	11	2	65	1.37
12974266--12974311	11	3.9	11	78	15	56	52	0	0	47	1.00
12974265--12974312	25	2.0	24	95	4	87	54	0	0	45	0.99
12979456--12979509	23	2.3	23	87	0	72	46	20	24	9	1.79
12981747--12981937	23	8.5	23	75	14	148	43	21	23	12	1.85
12981801--12981875	39	1.9	39	91	0	123	44	21	22	12	1.85
12981840--12981937	23	4.2	23	89	10	153	40	23	23	12	1.88
12981840--12981937	48	2.1	46	90	7	153	40	23	23	12	1.88
12985836--12985875	20	2.0	20	85	4	55	52	5	10	32	1.56
12986957--12987006	24	2.1	24	100	0	100	56	0	12	32	1.36
12987418--12987442	6	4.2	6	100	0	50	20	0	0	80	0.72
12999526--12999785	129	2.0	127	91	3	425	32	16	20	31	1.94
13002679--13002727	21	2.4	21	83	6	66	61	0	0	38	0.96
13003533--13003580	23	2.1	22	81	14	53	66	6	8	18	1.39
13004272--13004314	21	2.0	21	82	8	52	53	4	11	30	1.57
13004477--13004537	14	4.4	14	74	12	54	62	3	1	32	1.21
13004469--13004540	28	2.5	28	90	2	117	62	4	1	31	1.23
13004851--13004875	7	3.6	7	100	0	50	64	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13005646--13005690	19	2.3	20	84	3	56	53	8	2	35	1.45
13009308--13009406	49	2.0	49	94	0	171	36	18	9	36	1.82
13009874--13009903	14	2.1	14	93	0	51	56	26	3	13	1.52
13012981--13013053	3	25.0	3	71	15	55	63	1	1	34	1.12
13018870--13018907	17	2.3	17	81	4	51	65	5	2	26	1.27
13019777--13019805	2	14.5	2	100	0	58	48	0	0	51	1.00
13028800--13028833	13	2.6	13	95	0	59	20	0	23	55	1.43
13029043--13029085	18	2.4	18	88	7	61	53	0	0	46	1.00
13037919--13037969	19	2.7	19	87	3	68	21	13	15	49	1.79
13037945--13038004	29	2.1	29	90	0	93	18	6	21	53	1.67
13038102--13038131	13	2.3	13	100	0	60	33	13	6	46	1.69
13040196--13040245	11	4.5	11	80	14	57	16	10	20	54	1.70
13040216--13040244	12	2.5	12	94	5	51	13	10	24	51	1.72
13042358--13042478	23	5.2	23	82	11	156	11	24	23	40	1.88
13042358--13042478	48	2.6	46	88	5	179	11	24	23	40	1.88
13042443--13042517	39	1.9	39	91	0	123	12	22	21	44	1.85
13042477--13042570	23	4.0	23	73	16	77	12	25	18	43	1.85
13048807--13048927	23	5.2	23	82	11	156	11	25	23	39	1.88
13048807--13048927	48	2.6	46	87	7	172	11	25	23	39	1.88
13048892--13048966	39	1.9	39	91	0	123	12	22	21	44	1.85
13048926--13049019	23	4.0	23	75	16	86	11	25	19	43	1.84
13050470--13050591	23	5.4	22	79	8	102	41	24	22	10	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13052633--13052682	21	2.4	21	93	0	91	36	30	22	12	1.90
13052838--13052872	12	3.0	12	91	4	54	20	8	14	57	1.63
13053156--13053186	13	2.5	12	90	10	53	25	22	9	41	1.84
13053487--13053519	16	2.1	16	94	0	57	51	21	18	9	1.73
13053850--13053914	3	21.7	3	100	0	130	0	32	0	67	0.91
13059773--13059828	26	2.2	26	83	3	69	26	1	5	66	1.23
13059807--13059865	28	2.1	29	78	15	70	37	0	1	61	1.07
13059828--13059877	20	2.5	19	81	12	55	38	0	2	60	1.09
13064535--13064560	2	13.0	2	100	0	52	50	0	0	50	1.00
13077386--13077424	20	1.9	19	85	10	51	51	7	0	41	1.31
13078933--13078975	18	2.3	19	84	4	61	27	4	0	67	1.10
13083313--13083438	39	3.3	37	74	11	119	30	3	3	61	1.33
13083548--13083759	90	2.4	89	93	2	354	35	8	16	38	1.81
13084521--13084588	23	2.9	23	86	6	93	7	19	20	52	1.69
13085183--13085219	17	2.1	19	90	10	60	54	0	8	37	1.30
13085722--13085748	2	13.5	2	100	0	54	51	0	0	48	1.00
13090672--13090713	3	14.3	3	80	5	50	61	0	38	0	0.96
13096732--13096780	27	1.9	25	88	12	73	63	0	0	36	0.95
13106108--13106154	21	2.3	21	81	3	51	38	0	2	59	1.09
13111094--13111169	35	2.1	36	90	2	118	35	9	22	32	1.86
13111110--13111181	35	2.2	32	82	9	83	31	8	26	33	1.86
13111847--13111917	16	4.4	16	90	0	115	39	5	26	28	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13111899--13111992	44	2.1	46	84	7	122	31	5	25	37	1.78
13112087--13112232	58	2.5	56	82	11	179	50	1	2	46	1.21
13121363--13121469	31	3.4	32	78	10	96	23	12	9	55	1.65
13132146--13132219	36	2.1	36	100	0	148	13	20	27	39	1.90
13139424--13139477	5	10.8	5	84	6	65	48	0	51	0	1.00
13139424--13139479	20	2.8	19	89	10	85	48	0	51	0	1.00
13139424--13139477	15	3.6	15	87	5	74	48	0	51	0	1.00
13139424--13139484	5	12.2	5	85	5	52	47	0	50	1	1.10
13140891--13141079	94	2.0	94	85	5	258	31	17	7	43	1.77
13141521--13141593	27	2.7	27	82	0	92	27	20	23	28	1.99
13144587--13144780	23	8.3	23	81	8	189	42	21	23	11	1.86
13144587--13144780	69	2.8	68	83	10	214	42	21	23	11	1.86
13151954--13152090	23	6.0	22	80	9	134	43	21	22	12	1.86
13151998--13152124	23	5.4	23	85	5	157	44	22	22	11	1.84
13151973--13152124	48	3.2	43	77	15	135	42	21	24	11	1.85
13151954--13152100	69	2.1	68	86	12	201	43	21	23	12	1.86
13156017--13156069	21	2.5	21	88	11	74	28	33	11	26	1.91
13169730--13169769	17	2.2	20	86	13	59	62	5	10	22	1.46
13188273--13188501	111	2.1	111	98	0	442	41	23	8	26	1.83
13189563--13189637	37	2.0	37	100	0	150	41	10	18	29	1.84
13193180--13193213	13	2.6	13	95	0	59	20	8	38	32	1.84
13208327--13208376	2	25.0	2	95	0	91	0	48	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13209325--13209349	2	12.5	2	100	0	50	52	0	0	48	1.00
13210005--13210039	16	2.1	17	89	5	54	34	5	8	51	1.56
13211773--13211830	28	2.1	28	90	0	89	46	6	27	18	1.75
13221327--13221385	23	2.6	22	76	7	64	49	5	5	40	1.47
13222201--13222233	16	1.9	18	88	11	52	75	6	0	18	1.00
13223952--13223995	21	2.1	21	100	0	88	38	20	18	22	1.93
13226017--13226064	23	2.1	23	84	3	62	25	2	8	64	1.32
13226201--13226243	5	8.2	5	80	19	52	58	4	0	37	1.19
13260764--13260819	22	2.6	21	72	13	51	32	3	8	55	1.48
13266700--13266849	70	2.1	70	95	0	264	36	26	11	25	1.90
13267479--13267720	105	2.3	104	85	3	308	34	24	15	25	1.95
13267476--13267720	52	4.7	51	81	5	224	34	24	15	26	1.94
13268576--13268624	20	2.5	19	77	9	53	32	12	6	48	1.65
13276432--13276483	18	3.1	17	78	15	56	36	1	0	61	1.07
13276564--13276622	18	3.4	18	77	15	61	69	0	0	30	0.89
13288088--13288114	3	9.0	3	100	0	54	0	33	0	66	0.92
13297102--13297139	18	2.1	18	85	9	51	52	15	7	23	1.69
13301346--13302157	400	2.0	399	94	0	1435	37	11	11	39	1.77
13304464--13304502	12	3.2	12	81	0	51	48	0	28	23	1.51
13306254--13306450	23	8.8	23	75	11	95	43	20	24	11	1.85
13306337--13306452	23	5.0	23	89	0	151	42	21	25	10	1.85
13308680--13308706	7	3.9	7	100	0	54	70	0	0	29	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13309527--13309571	19	2.3	20	80	3	56	20	4	2	73	1.11
13312779--13312803	13	1.9	13	100	0	50	32	0	0	68	0.90
13313927--13313988	28	2.3	26	77	5	70	30	8	1	59	1.36
13319509--13319582	6	12.5	6	81	8	62	48	0	24	27	1.51
13319512--13319563	18	2.8	19	82	11	81	46	0	28	25	1.53
13319665--13319765	38	2.6	40	71	10	100	21	19	28	29	1.98
13324877--13324950	6	12.5	6	81	8	62	48	0	24	27	1.51
13324880--13324931	18	2.8	19	82	11	81	46	0	28	25	1.53
13325033--13325133	38	2.6	40	71	10	100	21	19	28	29	1.98
13330246--13330319	6	12.5	6	81	8	62	48	0	24	27	1.51

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