genome.fa.s4.2.7.7.80.10.50.1000.58.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: CP032248.1 Gossypioides kirkii chromosome KI_06
Parameters: 2 7 7 80 10 50 1000
Length:  60359545

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   183   184   185   186   187   188   189   190   191   192   
          193   

This is table  58  of  193  ( 23090 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)
18283765--18284148	198	1.9	198	87	1	563	40	11	14	33	1.82
18292447--18292605	57	2.8	57	83	7	189	38	18	7	35	1.80
18294491--18294522	15	2.1	16	94	5	57	71	0	0	28	0.86
18295167--18295220	22	2.6	21	85	8	67	57	0	1	40	1.09
18302298--18302356	29	2.0	30	87	9	86	47	13	8	30	1.73
18307026--18307074	20	2.7	18	77	22	57	44	2	2	51	1.24
18306967--18307069	48	2.1	48	83	5	125	41	1	2	53	1.27
18307897--18307943	18	2.5	20	86	6	62	44	27	6	21	1.76
18308698--18308761	22	2.9	22	81	11	67	34	14	29	21	1.93
18314368--18314427	25	2.4	26	77	8	70	18	15	23	43	1.87
18317561--18317713	24	6.4	24	80	0	162	21	25	16	36	1.94
18317586--18317716	48	2.7	48	86	0	190	22	25	15	36	1.93
18325229--18325451	24	9.3	24	81	0	230	21	27	15	34	1.94
18325229--18325440	72	2.9	72	85	0	280	21	28	16	34	1.94
18329390--18329447	29	2.1	26	87	9	80	46	1	0	51	1.11
18329638--18329677	20	2.0	21	85	5	55	25	2	2	70	1.13
18329694--18329737	21	2.0	23	83	16	58	38	0	4	56	1.20
18334417--18334448	15	2.1	16	94	5	57	59	0	0	40	0.97
18337904--18337940	19	1.9	19	89	10	58	16	2	0	81	0.81
18339632--18339934	30	10.2	30	78	5	229	37	1	23	36	1.65
18339622--18339934	60	5.2	60	77	8	255	38	2	23	36	1.69
18339649--18339934	90	3.2	89	80	4	301	38	1	23	36	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18345073--18345102	3	10.0	3	100	0	60	33	0	0	66	0.92
18362105--18362137	10	3.4	10	83	8	50	66	0	30	3	1.06
18366466--18366490	12	2.1	12	100	0	50	40	16	8	36	1.77
18366708--18366741	12	2.8	12	95	0	59	52	14	23	8	1.69
18367852--18367876	12	2.1	12	100	0	50	40	16	8	36	1.77
18373616--18373687	35	2.1	35	100	0	144	51	11	16	20	1.75
18388870--18388917	22	2.2	22	100	0	96	64	12	4	18	1.43
18389113--18389159	5	8.8	5	82	17	51	4	19	0	76	0.95
18396513--18396671	79	2.0	79	97	0	300	24	15	20	39	1.91
18402821--18402896	21	3.7	20	73	7	62	19	10	27	42	1.84
18404655--18404697	16	2.8	15	85	3	59	55	9	2	32	1.44
18415181--18415215	13	2.8	12	83	8	52	5	14	0	80	0.89
18415792--18415840	19	2.8	17	82	14	64	61	12	12	14	1.58
18428848--18428877	14	2.1	14	100	0	60	50	20	6	23	1.71
18430756--18430799	17	2.6	17	92	0	70	45	20	9	25	1.80
18439604--18439637	14	2.3	15	90	5	52	11	0	5	82	0.83
18439599--18439640	20	2.1	20	86	8	59	11	0	4	83	0.79
18439835--18439884	17	3.1	16	73	21	50	4	6	26	64	1.35
18442639--18442852	106	2.0	106	99	0	419	32	14	18	35	1.91
18443760--18443824	28	2.2	30	86	8	89	38	4	23	33	1.75
18443831--18443989	29	5.5	28	80	9	133	30	2	28	38	1.70
18443859--18444017	29	5.4	29	81	9	146	33	2	27	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18443962--18444118	60	2.6	60	77	6	165	40	3	20	35	1.71
18443878--18444099	30	7.5	30	77	11	174	36	3	25	35	1.72
18445825--18445868	17	2.7	16	79	6	52	54	6	0	38	1.27
18446427--18446722	39	7.7	39	74	6	205	26	21	29	23	1.99
18446367--18446727	78	4.7	78	84	4	403	27	20	29	22	1.99
18472826--18473024	100	2.0	100	97	0	380	25	27	17	30	1.97
18473706--18473743	5	8.0	5	82	11	53	76	0	23	0	0.79
18473704--18473757	18	2.9	18	86	8	74	70	0	29	0	0.88
18473706--18473762	13	4.1	14	80	11	64	71	0	28	0	0.86
18479553--18479590	20	1.9	20	94	0	67	39	0	13	47	1.42
18481702--18481767	21	3.2	20	73	14	62	63	0	27	9	1.24
18481851--18481892	21	2.0	21	81	9	50	64	0	26	9	1.24
18482230--18483106	222	4.0	223	81	6	882	41	12	16	28	1.86
18484252--18484329	36	2.2	36	88	0	111	35	25	11	26	1.90
18488621--18488659	21	1.9	21	89	5	62	41	15	17	25	1.89
18489843--18489918	29	2.6	29	76	4	80	30	3	23	42	1.72
18489979--18490115	59	2.3	61	80	7	156	33	10	23	32	1.88
18489979--18490113	29	4.5	31	77	9	138	33	9	23	33	1.87
18503370--18503394	13	1.9	13	100	0	50	24	16	12	48	1.79
18503391--18503430	21	2.0	20	85	5	53	22	15	17	45	1.85
18505043--18505143	50	2.0	50	98	0	193	46	4	5	42	1.49
18507646--18507675	9	3.3	9	90	0	51	0	13	0	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18518046--18518098	21	2.5	21	87	0	79	32	32	9	26	1.88
18520574--18520640	30	2.2	30	91	0	107	32	22	11	32	1.90
18521785--18521896	41	2.7	41	85	0	143	41	4	25	27	1.74
18523087--18523187	49	2.1	49	90	0	157	40	2	27	28	1.71
18523096--18523210	49	2.3	49	84	0	149	42	3	25	28	1.71
18527987--18528038	27	1.9	27	96	0	95	25	13	19	42	1.87
18529841--18529893	26	2.0	26	96	0	97	15	9	7	67	1.39
18532335--18532542	69	3.0	69	87	2	301	32	4	12	50	1.61
18532335--18532538	23	8.9	23	89	2	266	32	4	11	50	1.58
18533644--18533689	25	1.9	23	86	8	65	34	2	6	56	1.37
18535910--18535960	4	12.8	4	91	0	75	54	0	45	0	0.99
18535910--18535960	6	8.5	6	93	0	75	54	0	45	0	0.99
18535910--18535960	10	5.1	10	92	0	75	54	0	45	0	0.99
18537564--18537624	24	2.6	23	72	12	61	27	3	3	65	1.24
18539030--18539120	8	11.2	8	77	11	60	37	1	59	2	1.17
18539031--18539130	12	8.2	12	74	19	66	36	1	61	2	1.14
18539044--18539073	15	1.9	16	93	6	53	30	0	66	3	1.07
18539084--18539132	2	24.5	2	82	0	62	42	2	55	0	1.11
18539030--18539135	18	5.8	18	73	8	72	36	0	60	1	1.14
18543822--18543878	18	3.1	18	76	2	60	26	3	1	68	1.15
18548027--18548106	41	2.0	41	97	0	151	37	1	31	30	1.66
18548034--18548121	41	2.1	41	85	4	115	40	3	27	28	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18549535--18549638	49	2.1	49	82	3	120	45	4	26	23	1.73
18550504--18550587	41	2.0	41	86	0	114	41	3	25	29	1.72
18555172--18555295	49	2.5	49	90	0	203	41	2	30	25	1.68
18556844--18556869	3	8.7	3	100	0	52	0	34	0	65	0.93
18558897--18559007	24	4.6	24	93	4	188	27	24	21	26	1.99
18573703--18573762	31	2.0	30	86	3	84	28	20	13	38	1.90
18575885--18575938	26	2.1	26	82	0	63	29	20	20	29	1.98
18580137--18580216	37	2.2	37	84	4	108	22	17	30	30	1.97
18580636--18580731	41	2.3	41	87	0	129	38	4	31	26	1.75
18581897--18582106	49	4.5	48	80	13	251	40	2	30	26	1.68
18581970--18582100	39	3.1	39	75	19	145	38	1	32	26	1.66
18581921--18582100	88	2.0	88	97	0	342	40	1	31	27	1.66
18582018--18582120	48	2.1	49	82	5	120	42	3	29	24	1.72
18583630--18583677	3	16.0	3	84	0	51	4	27	0	68	1.07
18583630--18583677	15	3.2	15	81	0	60	4	27	0	68	1.07
18594465--18594495	16	1.9	16	93	0	53	61	0	16	22	1.34
18595337--18595430	38	2.5	38	81	8	120	29	13	25	30	1.94
18595448--18595522	37	2.0	37	92	0	123	22	20	32	25	1.98
18599525--18599575	26	2.0	26	88	0	75	27	15	19	37	1.92
18608293--18608336	22	2.0	23	90	4	72	47	9	13	29	1.74
18626501--18626580	24	3.3	24	89	0	115	27	11	11	50	1.72
18633394--18633586	49	3.9	50	86	2	246	31	4	9	54	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18633394--18633586	99	1.9	99	84	2	253	31	4	9	54	1.52
18633998--18634606	82	7.5	82	80	2	543	29	13	12	44	1.80
18634030--18634504	245	1.9	245	82	0	583	28	13	13	45	1.80
18633998--18634580	163	3.6	158	78	5	528	29	12	13	44	1.80
18634381--18634627	77	3.1	77	78	9	214	29	11	11	47	1.75
18637204--18637257	28	1.9	28	81	7	65	20	9	12	57	1.63
18637222--18637417	50	3.9	50	88	3	268	33	4	9	52	1.55
18637222--18637417	102	1.9	99	86	3	275	33	4	9	52	1.55
18638300--18638324	13	1.9	13	100	0	50	28	8	32	32	1.86
18640718--18640831	23	5.0	23	72	3	88	43	21	19	14	1.87

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   183   184   185   186   187   188   189   190   191   192   
          193