genome.fa.s3.2.7.7.80.10.50.1000.143.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  143  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)
43603620--43604381	213	3.6	213	94	2	1238	30	19	16	34	1.93
43603620--43604381	136	5.5	136	89	4	1101	30	19	16	34	1.93
43605239--43605269	8	3.8	8	91	8	53	9	0	0	90	0.46
43605239--43605272	9	3.9	9	96	3	61	11	0	0	88	0.52
43616332--43616589	30	8.6	29	82	7	252	37	3	20	38	1.69
43616303--43616589	60	4.8	59	80	6	276	36	3	21	37	1.71
43616294--43616591	90	3.3	88	82	9	327	36	3	22	37	1.71
43618655--43618764	6	18.7	6	75	14	95	50	0	0	47	1.13
43618681--43618759	17	4.9	16	83	10	99	56	1	1	40	1.15
43618718--43618772	27	2.0	27	89	0	83	54	3	0	41	1.18
43622838--43622904	29	2.3	30	78	2	82	34	5	2	56	1.39
43624001--43624030	15	1.9	16	93	6	53	46	0	0	53	1.00
43624376--43624412	15	2.4	16	82	8	51	62	0	16	21	1.33
43629325--43629400	17	4.3	17	75	18	66	30	0	2	67	1.05
43629325--43629396	37	2.0	37	84	13	96	30	0	2	66	1.06
43629324--43629380	27	2.1	27	83	6	71	26	0	3	70	1.03
43629340--43629409	36	1.9	35	83	11	88	28	1	2	67	1.14
43630123--43630161	20	2.0	20	85	10	53	28	2	5	64	1.28
43630905--43630951	19	2.6	18	86	10	60	44	0	4	51	1.21
43634620--43638109	638	5.5	634	96	0	6116	35	13	16	34	1.88
43643535--43643597	11	5.5	11	83	5	81	41	3	1	53	1.26
43643545--43643613	17	4.1	16	83	12	77	43	1	2	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43643542--43643596	6	9.7	6	78	11	62	43	1	1	52	1.22
43643793--43643852	20	3.0	20	92	2	93	20	43	16	20	1.88
43644374--43644420	19	2.5	20	80	13	55	59	2	2	36	1.21
43644358--43644407	25	2.0	25	84	7	66	60	4	0	36	1.16
43645576--43645841	30	8.9	30	83	2	293	37	24	3	34	1.73
43645817--43646008	59	3.3	59	77	7	178	33	26	4	35	1.76
43645858--43645957	30	3.4	29	71	20	91	30	30	6	34	1.81
43645855--43646015	58	2.8	58	82	2	207	29	29	5	35	1.80
43645849--43646052	59	3.4	58	73	11	173	28	29	6	34	1.82
43647554--43647609	21	2.6	22	75	16	64	46	5	1	46	1.36
43650550--43650577	6	4.7	6	100	0	56	32	0	0	67	0.91
43650542--43650586	11	4.0	11	82	5	54	35	0	0	64	0.94
43651409--43651472	31	2.1	29	83	11	76	51	1	3	43	1.26
43652490--43652817	29	11.1	30	77	5	276	35	25	3	35	1.73
43652510--43652817	59	5.2	59	83	1	359	36	25	2	35	1.71
43652510--43652817	30	10.4	29	76	8	264	36	25	2	35	1.71
43652711--43653008	146	2.0	146	80	6	327	34	24	7	33	1.83
43653228--43653409	97	1.9	97	86	6	262	27	19	13	39	1.89
43658403--43658509	29	3.7	29	69	10	92	42	2	21	33	1.68
43658386--43658509	58	2.1	59	90	1	196	40	3	21	34	1.70
43658386--43658559	58	2.9	58	83	7	165	39	4	23	33	1.74
43658475--43658687	30	7.2	30	76	10	181	38	4	21	35	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43658475--43658687	59	3.6	59	77	8	184	38	4	21	35	1.74
43658521--43658701	60	3.0	58	83	7	202	37	4	22	35	1.76
43660624--43660685	6	10.7	6	74	6	56	56	1	1	40	1.19
43660637--43660671	11	3.1	11	87	4	52	57	0	2	40	1.14
43660645--43660688	17	2.7	16	82	6	61	56	0	2	40	1.11
43660955--43662828	92	20.5	92	94	0	3242	32	15	15	36	1.89
43660955--43662828	732	2.6	732	96	0	3478	32	15	15	36	1.89
43669802--43669830	9	3.0	10	90	10	51	31	0	0	68	0.89
43669787--43669816	14	2.1	14	93	0	51	30	0	0	70	0.88
43669929--43669978	21	2.4	21	89	0	73	52	4	8	36	1.50
43670572--43670660	17	5.2	16	78	10	70	53	1	3	41	1.24
43671020--43671289	38	7.2	38	67	12	162	31	18	16	33	1.93
43670976--43671324	75	4.6	75	92	1	509	31	18	15	33	1.93
43671340--43671429	6	15.8	6	69	21	52	54	1	2	42	1.20
43671341--43671432	17	5.5	16	79	15	80	53	1	2	43	1.20
43671357--43671432	11	6.8	11	76	8	73	53	1	2	42	1.23
43671343--43671409	34	2.0	34	85	5	91	55	1	1	41	1.18
43673089--43673133	19	2.4	19	84	0	63	42	2	0	55	1.12
43673124--43673159	18	2.1	18	89	5	56	30	0	8	61	1.26
43673124--43673170	18	2.7	18	80	3	51	27	0	6	65	1.16
43674352--43674403	23	2.3	23	89	0	77	26	26	23	23	2.00
43674582--43674615	16	2.1	16	89	10	52	58	8	0	32	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43675222--43675254	17	1.9	17	93	0	57	0	15	6	78	0.93
43676017--43676104	6	13.5	6	71	17	52	70	1	2	26	1.06
43677362--43677443	17	4.8	17	77	8	78	37	2	6	53	1.39
43677375--43677443	34	2.0	34	85	0	93	39	1	5	53	1.34
43678006--43678083	11	7.1	11	70	11	52	37	2	3	56	1.31
43678714--43678764	21	2.4	21	90	0	75	37	7	3	50	1.50
43678867--43678907	21	2.0	21	90	0	64	43	0	9	46	1.36
43679638--43679672	5	7.0	5	86	0	52	22	54	20	2	1.58
43680049--43680187	30	4.7	30	80	10	153	37	20	2	38	1.68
43680049--43680201	60	2.6	58	81	7	173	35	22	2	38	1.68
43680049--43680227	30	6.1	29	75	8	121	35	22	2	39	1.69
43680049--43680187	29	4.7	29	78	7	127	37	20	2	38	1.68
43680049--43680228	29	6.1	29	75	12	107	35	22	2	38	1.69
43680071--43680201	59	2.2	60	83	4	158	35	22	3	38	1.70
43680159--43680316	58	2.7	58	76	7	144	31	27	4	36	1.77
43680052--43680272	30	7.5	30	70	13	86	36	21	3	38	1.69
43692757--43692900	46	3.2	46	65	13	125	34	15	17	33	1.91
43692712--43692854	45	3.2	45	63	13	112	32	19	17	30	1.95
43692008--43692911	91	9.9	91	93	1	1447	31	19	18	30	1.96
43693869--43693919	21	2.4	21	90	0	75	37	7	3	50	1.50
43694022--43694062	21	2.0	21	90	0	64	43	0	9	46	1.36
43694884--43695051	30	5.6	30	81	6	189	40	19	1	38	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43694884--43695060	60	3.0	59	86	7	234	38	19	1	39	1.62
43695377--43695555	95	1.9	96	81	8	222	31	17	12	38	1.87
43696173--43696268	13	7.6	13	72	4	54	56	3	4	36	1.34
43696214--43696268	22	2.5	22	79	5	58	60	1	1	36	1.18
43696214--43696261	25	1.9	25	86	0	69	58	2	2	37	1.22
43696216--43696268	3	17.0	3	80	7	52	60	1	1	35	1.19
43697360--43697708	29	11.9	29	76	9	257	38	25	2	34	1.69
43697369--43697708	116	2.9	114	81	6	326	37	25	2	34	1.69
43700507--43700547	21	1.9	21	85	5	55	26	26	0	46	1.53
43703944--43703998	23	2.4	23	93	0	92	21	21	27	29	1.99
43709411--43709442	16	2.0	16	93	0	55	21	6	12	59	1.55
43710996--43711041	20	2.3	20	85	7	58	60	4	2	32	1.28
43711009--43711053	20	2.2	20	84	0	54	62	6	2	28	1.33
43711183--43711235	17	3.2	17	76	23	60	81	1	0	16	0.79
43711190--43711235	13	3.5	13	80	11	58	82	2	0	15	0.76
43711184--43711235	25	2.0	25	89	10	79	82	1	0	15	0.75
43711224--43711304	31	2.5	32	94	6	137	67	0	12	19	1.21
43711517--43711960	222	2.0	221	94	0	771	39	16	21	23	1.92
43713290--43713506	94	2.3	94	81	3	249	27	20	17	35	1.95
43715649--43715864	60	3.7	58	74	14	176	38	8	20	31	1.83
43715786--43716106	30	10.7	31	75	14	248	35	4	22	36	1.75
43715757--43715949	59	3.3	59	82	10	182	35	5	22	36	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43715846--43716096	59	4.2	57	78	10	238	35	3	23	37	1.71
43715785--43716110	89	3.6	88	78	10	297	35	4	23	36	1.75
43717732--43717772	20	2.0	20	100	0	82	4	9	43	41	1.59
43717898--43717953	11	4.5	12	76	20	53	50	7	3	39	1.47
43717911--43717940	16	1.9	15	93	6	51	46	6	6	40	1.56
43718292--43718413	49	2.5	49	94	0	217	22	21	16	39	1.92
43718341--43719332	201	4.9	199	85	6	1206	23	23	19	34	1.96
43729551--43729671	58	2.1	59	81	7	140	41	7	20	30	1.80
43729692--43730073	30	12.9	29	70	18	236	36	4	22	36	1.75
43729756--43730034	58	4.7	57	78	12	228	36	2	22	37	1.69

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