genome.fa.s9.2.7.7.80.10.50.1000.181.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: CP032253.1 Gossypioides kirkii chromosome KI_11
Parameters: 2 7 7 80 10 50 1000
Length:  55708359

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   

This is table  181  of  182  ( 21729 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)
55309383--55309439	17	3.5	17	73	22	68	66	5	1	26	1.22
55309387--55309457	31	2.3	31	95	0	124	67	2	1	28	1.13
55310194--55310225	2	16.0	2	100	0	64	50	0	0	50	1.00
55314254--55314339	32	2.7	31	82	8	104	56	3	9	30	1.47
55327540--55327982	233	1.9	233	91	1	737	22	16	21	39	1.92
55327760--55329054	210	6.1	210	90	3	1837	22	17	21	39	1.93
55328595--55329065	233	2.0	232	90	2	732	23	16	21	38	1.93
55330573--55330614	2	21.0	2	100	0	84	50	0	0	50	1.00
55334443--55334486	22	2.0	23	82	13	56	40	2	4	52	1.34
55341772--55341807	10	3.8	9	89	10	54	41	8	2	47	1.48
55356012--55356731	244	3.0	237	75	9	654	24	13	17	44	1.85
55357250--55357297	26	2.0	24	84	12	62	37	0	8	54	1.31
55363410--55363440	3	10.3	3	100	0	62	67	0	0	32	0.91
55364972--55364996	6	4.2	6	100	0	50	16	32	20	32	1.94
55372265--55372301	18	2.1	18	89	0	56	48	0	27	24	1.51
55374928--55374962	2	17.5	2	93	0	61	45	0	2	51	1.16
55375767--55375797	16	1.9	16	93	0	53	61	0	0	38	0.96
55377781--55377851	29	2.4	31	76	17	80	42	5	8	43	1.58
55380991--55381174	91	2.0	90	98	1	359	45	4	8	41	1.53
55381746--55381814	29	2.3	29	85	9	86	47	11	14	26	1.78
55383771--55383823	21	2.5	21	75	0	61	33	20	16	28	1.95
55383884--55383959	21	3.5	21	92	5	116	39	31	10	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55384512--55384608	40	2.5	40	93	1	160	27	24	7	40	1.81
55387897--55388321	212	2.0	212	94	0	742	36	12	15	35	1.85
55389393--55389446	28	1.9	28	88	0	81	37	14	16	31	1.89
55398147--55398180	11	3.1	11	100	0	68	26	0	0	73	0.83
55398859--55398925	2	33.5	2	100	0	134	50	0	0	49	1.00
55399114--55399180	30	2.2	30	86	0	89	38	4	20	35	1.73
55401276--55401445	86	2.0	86	84	2	225	30	8	17	43	1.79
55401671--55402022	86	4.1	85	84	3	391	32	8	16	43	1.78
55401671--55402022	173	2.0	173	82	1	418	32	8	16	43	1.78
55427843--55427887	18	2.6	18	85	3	56	2	20	0	77	0.87
55427843--55427886	13	3.3	13	83	3	52	2	18	0	79	0.83
55429652--55429715	30	2.1	30	82	5	76	42	7	7	42	1.63
55432507--55432571	34	1.9	34	87	0	94	43	13	7	35	1.73
55433345--55433369	5	5.0	5	100	0	50	60	0	40	0	0.97
55444733--55444759	8	3.4	8	100	0	54	11	0	0	88	0.50
55444985--55445018	7	4.9	7	100	0	68	41	44	0	14	1.45
55449261--55449328	35	1.9	36	82	8	86	69	2	1	26	1.12
55452397--55452480	11	7.3	11	72	18	64	51	0	1	47	1.08
55452397--55452480	23	3.6	22	73	18	73	51	0	1	47	1.08
55452998--55453156	84	1.9	84	82	7	198	44	10	9	35	1.72
55455981--55456021	3	13.7	3	94	0	73	65	2	0	31	1.05
55456452--55456531	39	2.0	40	92	2	135	30	20	17	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55456456--55456548	39	2.4	38	83	7	98	30	21	17	31	1.96
55464450--55464487	16	2.4	17	86	8	53	34	10	2	52	1.50
55483374--55483427	7	7.7	7	100	0	108	14	44	0	40	1.46
55485199--55485227	2	14.5	2	100	0	58	48	0	0	51	1.00
55485364--55485404	3	13.7	3	100	0	82	65	0	0	34	0.93
55486376--55486421	24	2.0	24	83	12	60	58	0	19	21	1.39
55500564--55500620	27	2.1	28	80	9	64	43	7	7	42	1.58
55503016--55503068	22	2.3	24	78	12	58	47	5	3	43	1.45
55518977--55519003	2	13.5	2	100	0	54	48	0	0	51	1.00
55527300--55527340	20	2.0	20	100	0	82	24	14	39	21	1.91
55534218--55534264	24	2.0	24	82	0	58	46	6	4	42	1.48
55553396--55553439	21	2.2	20	87	4	61	40	36	9	13	1.76
55562777--55562809	3	11.0	3	100	0	66	33	0	0	66	0.92
55565612--55565637	6	4.3	6	100	0	52	0	15	15	69	1.20
55574486--55574550	34	2.0	31	85	8	85	53	0	1	44	1.09
55576190--55576250	31	2.0	31	93	0	104	45	6	9	37	1.63
55583940--55584299	43	8.3	43	72	7	246	28	26	17	27	1.98
55584009--55584299	129	2.3	129	77	4	300	27	27	17	27	1.98
55584618--55584685	21	3.2	21	85	0	91	1	44	14	39	1.55
55586713--55586762	23	2.1	25	88	7	77	10	26	22	42	1.84
55588788--55588836	12	4.2	12	78	2	55	55	2	0	42	1.11
55588790--55588836	8	5.9	8	82	0	58	57	2	0	40	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55588739--55588940	64	3.1	65	69	14	184	45	1	7	44	1.44
55589113--55589316	58	3.5	57	70	16	173	41	1	8	48	1.42
55589174--55589259	29	2.7	33	79	15	101	40	1	4	53	1.29
55588741--55589312	241	2.3	243	86	7	784	42	1	6	49	1.40
55588741--55589321	120	4.8	121	87	7	750	41	1	7	49	1.41
55592669--55592748	42	1.9	42	89	0	124	22	26	17	33	1.96
55592656--55592770	42	2.7	42	77	6	115	21	24	21	32	1.98
55592861--55592904	21	2.0	23	87	12	67	36	2	0	61	1.09
55594666--55594864	41	4.9	41	87	4	242	22	22	23	31	1.99
55594674--55594905	82	2.8	82	86	1	295	22	22	22	31	1.98
55594675--55594907	41	5.7	41	87	3	236	22	22	22	32	1.98
55594669--55594905	123	1.9	123	83	5	309	21	23	22	31	1.98
55594900--55594988	40	2.2	41	86	6	119	20	17	20	41	1.90
55594933--55595026	40	2.3	40	75	0	98	23	20	19	37	1.94
55601540--55601589	21	2.4	21	86	0	64	34	30	12	24	1.91
55605219--55605301	7	12.1	7	83	5	89	19	26	21	32	1.97
55605225--55605301	20	3.8	20	87	1	109	19	25	22	32	1.97
55608034--55608087	28	1.9	28	88	0	81	18	31	11	38	1.86
55612502--55612535	15	2.3	15	94	0	59	44	35	5	14	1.70
55612590--55612658	7	10.4	7	74	12	65	15	27	24	31	1.96
55612557--55612600	22	2.0	22	95	0	79	29	36	15	18	1.92
55612562--55612612	11	4.6	11	82	0	66	21	35	21	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55612604--55612661	20	2.8	20	87	7	73	15	24	22	37	1.93
55613689--55613732	20	2.1	21	84	12	56	29	0	0	70	0.88
55613795--55613836	21	2.0	22	86	9	61	21	2	16	59	1.48
55613798--55613846	21	2.3	21	79	6	55	20	4	14	61	1.49
55645145--55645175	5	6.2	5	100	0	62	61	0	0	38	0.96
55653507--55653549	19	2.2	20	80	12	54	25	11	13	48	1.77
55653545--55653587	19	2.3	19	80	8	52	16	0	27	55	1.41
55658955--55658980	6	4.3	6	100	0	52	84	0	0	15	0.62
55661880--55661912	15	2.1	16	88	5	50	81	12	6	0	0.85
55668434--55668612	24	7.5	24	77	0	178	35	17	25	21	1.95
55671991--55672062	22	3.1	22	81	13	83	11	25	23	40	1.87
55671994--55672087	25	3.9	25	83	9	90	11	26	21	40	1.87
55678179--55678275	25	3.8	25	87	4	124	13	27	17	41	1.87
55686729--55686758	6	5.0	6	100	0	60	50	33	16	0	1.46
55688067--55688100	17	1.9	18	88	5	52	55	0	8	35	1.31
55695328--55695669	59	5.8	59	85	5	345	35	2	28	33	1.70
55695400--55695740	30	11.6	29	65	23	119	34	2	27	35	1.71
55695563--55695728	29	5.7	29	71	16	101	34	1	25	38	1.64
55695327--55695671	118	2.9	117	81	6	403	35	2	28	33	1.70
55695328--55695729	118	3.4	116	78	8	352	34	2	27	35	1.71
55697653--55697684	16	1.9	16	93	6	55	59	0	0	40	0.97
55697652--55697693	17	2.5	16	84	7	57	54	7	0	38	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55699488--55699532	23	2.0	22	83	12	56	26	13	2	57	1.48
55701154--55701193	15	2.9	14	89	10	64	57	0	17	25	1.40
55702796--55703144	169	2.1	170	92	1	592	34	8	12	43	1.74
55707804--55707980	7	26.4	7	72	14	63	9	2	48	39	1.51
55707835--55707937	33	3.1	33	75	18	97	4	1	53	39	1.33
55707862--55707924	19	3.3	19	80	8	65	4	1	50	42	1.32
55707862--55707938	20	3.9	19	80	8	75	5	1	50	42	1.32
55707851--55707950	26	3.8	26	78	12	98	7	1	49	43	1.36
55707957--55708057	7	14.4	7	91	0	139	5	22	45	25	1.75
55708049--55708100	7	7.6	7	89	2	61	0	17	50	32	1.47

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