genome.fa.s3.2.7.7.80.10.50.1000.13.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  13  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)
6098240--6098325	34	2.6	33	79	13	97	53	2	1	43	1.21
6098374--6098416	23	1.9	22	90	4	68	30	0	2	67	1.03
6109487--6109540	18	2.9	18	77	2	54	46	1	1	50	1.23
6117158--6117188	14	2.2	14	94	0	53	25	0	0	74	0.82
6118544--6118617	31	2.4	31	84	2	87	45	10	8	35	1.69
6119455--6119497	20	2.2	19	87	4	59	62	2	9	25	1.37
6119619--6119661	21	2.0	21	82	8	52	41	2	4	51	1.35
6132509--6132534	3	8.7	3	100	0	52	34	0	65	0	0.93
6141072--6141128	30	1.9	29	82	10	71	33	12	29	24	1.92
6145842--6145916	29	2.5	30	84	4	89	42	10	4	42	1.58
6163538--6163596	30	2.0	29	86	3	82	52	5	3	38	1.40
6169895--6169951	28	2.0	28	100	0	114	22	7	28	42	1.80
6177347--6177397	24	2.1	24	92	0	84	21	9	9	58	1.58
6177359--6177407	24	2.0	24	88	0	71	22	8	12	57	1.61
6181351--6181396	6	8.0	6	87	4	60	52	2	45	0	1.13
6183615--6183659	20	2.2	20	84	7	56	51	8	2	37	1.46
6191121--6191154	17	2.0	17	88	0	50	64	0	0	35	0.94
6197999--6198054	25	2.2	25	78	6	60	50	1	0	48	1.11
6205748--6205800	24	2.2	25	77	16	58	62	7	0	30	1.23
6206150--6206178	8	3.8	8	90	9	51	55	0	0	44	0.99
6206154--6206191	15	2.5	16	87	8	53	55	0	0	44	0.99
6213916--6213997	31	2.6	31	94	0	137	32	9	10	46	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6215189--6215260	25	2.8	25	89	2	99	41	19	26	12	1.87
6215284--6215409	23	5.3	23	83	9	155	42	24	23	9	1.84
6215591--6215631	21	2.0	21	85	9	57	43	14	0	41	1.45
6221037--6221279	134	1.8	133	91	0	405	49	6	8	35	1.58
6234860--6234885	3	8.7	3	100	0	52	65	0	0	34	0.93
6249835--6249886	6	8.7	6	100	0	104	32	0	34	32	1.58
6252596--6252632	12	3.1	12	88	0	56	32	40	0	27	1.57
6255652--6255702	24	2.1	24	82	13	61	49	11	0	39	1.40
6260224--6260269	24	2.0	24	86	4	67	67	6	2	23	1.25
6266007--6266061	27	2.0	28	82	10	69	32	5	1	60	1.30
6268369--6268482	51	2.3	51	81	4	133	42	7	15	34	1.76
6270640--6270702	31	2.0	32	87	9	94	28	11	3	57	1.49
6274669--6274699	8	4.0	8	95	4	55	77	0	0	22	0.77
6276845--6276876	16	1.9	17	93	6	57	31	31	18	18	1.95
6277636--6277805	73	2.3	73	97	0	322	36	11	17	34	1.86
6296004--6296039	2	18.0	2	100	0	72	50	0	0	50	1.00
6297254--6297294	18	2.3	18	86	0	55	39	2	0	58	1.11
6297341--6297387	24	2.0	24	87	8	69	42	6	0	51	1.27
6299595--6299637	21	2.0	21	100	0	86	18	13	18	48	1.80
6320749--6320781	15	2.3	15	89	5	50	33	0	0	66	0.92
6321742--6321785	17	2.4	19	88	7	65	75	0	0	25	0.81
6321972--6322016	16	2.9	15	83	6	63	42	2	11	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6325130--6325205	37	2.1	37	97	0	143	28	10	23	36	1.88
6332928--6333107	39	4.6	39	72	8	132	31	47	6	15	1.69
6333024--6333092	36	1.9	36	90	0	111	34	46	4	14	1.64
6333085--6333138	24	2.2	24	83	0	72	37	53	0	9	1.33
6333112--6333930	39	21.2	39	75	9	411	33	47	7	12	1.68
6333088--6333312	78	3.0	74	73	10	206	33	48	6	12	1.66
6333184--6333248	21	3.2	21	65	12	64	27	52	6	13	1.64
6333013--6333791	174	4.6	170	72	13	538	33	47	6	12	1.67
6333166--6333557	96	4.1	96	71	14	286	32	48	7	11	1.67
6333322--6333525	18	10.6	19	72	13	98	35	48	4	11	1.61
6333278--6333420	75	1.9	75	91	0	232	32	47	8	11	1.70
6333374--6333431	21	2.8	20	86	5	71	32	51	6	8	1.59
6333391--6333580	21	9.6	21	66	14	91	34	48	4	12	1.62
6333112--6333752	138	4.8	138	74	15	425	33	47	7	12	1.68
6333218--6333702	99	5.0	96	77	8	444	33	47	6	12	1.67
6333673--6333731	18	3.3	18	73	17	59	32	45	8	13	1.74
6333166--6334032	330	2.6	329	81	6	875	33	46	7	12	1.69
6333766--6333908	21	7.2	21	64	13	70	34	48	5	11	1.62
6333112--6333910	291	2.8	291	79	7	837	33	47	7	12	1.68
6333942--6334191	39	6.3	39	72	9	148	32	44	7	15	1.75
6334021--6334127	21	5.2	21	73	6	85	29	46	8	14	1.74
6333988--6334184	60	3.3	60	81	1	216	32	44	8	14	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6333844--6334092	99	2.5	99	84	1	284	33	44	7	14	1.73
6345346--6345670	173	1.9	169	89	2	497	35	10	10	42	1.75
6345997--6346078	34	2.4	34	85	4	112	25	15	2	56	1.52
6348135--6348216	18	4.3	21	68	23	63	30	4	12	52	1.59
6348101--6348220	55	2.2	55	89	0	177	29	5	15	50	1.64
6354476--6354550	28	2.6	28	83	10	82	44	0	2	53	1.14
6355171--6355223	25	2.1	25	83	13	65	33	0	0	66	0.92
6355557--6355611	23	2.4	23	82	8	67	58	0	0	41	0.98
6355563--6355612	23	2.1	24	88	3	75	64	0	0	36	0.94
6361231--6361264	17	2.0	17	88	11	52	38	5	11	44	1.65
6371672--6371724	23	2.2	23	83	6	61	13	20	24	41	1.88
6371724--6371817	23	4.0	23	74	16	86	13	24	17	44	1.85
6373783--6373811	5	5.8	5	100	0	58	20	20	20	37	1.94
6376401--6376443	2	21.5	2	100	0	86	51	0	48	0	1.00
6413224--6413285	22	2.8	22	74	13	65	48	1	0	50	1.10
6415628--6415664	18	2.0	20	89	10	60	51	8	0	40	1.32
6415679--6415703	13	1.9	13	100	0	50	32	4	8	56	1.47
6416949--6416989	18	2.2	20	82	8	50	12	4	2	80	0.97
6418571--6418595	5	5.0	5	100	0	50	60	0	0	40	0.97
6419143--6419176	12	2.8	12	86	4	50	52	0	2	44	1.16
6419198--6419240	21	2.0	22	86	13	63	53	6	0	39	1.28
6419231--6419286	20	2.8	21	76	7	64	62	10	0	26	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6419654--6419752	9	10.7	9	71	17	69	38	5	2	54	1.34
6419659--6419708	20	2.7	18	81	9	55	42	4	2	52	1.31
6419654--6419756	38	2.8	36	75	10	100	39	4	1	53	1.33
6419655--6419814	9	17.1	9	66	18	51	36	3	3	56	1.33
6436221--6436249	14	2.0	15	93	6	51	44	13	6	34	1.71
6436298--6436340	17	2.5	17	88	7	61	37	0	0	62	0.95
6438209--6438235	2	13.5	2	100	0	54	51	0	0	48	1.00
6443820--6443849	3	10.0	3	92	0	51	0	36	33	30	1.58
6452815--6452854	20	1.9	20	90	10	62	50	2	0	47	1.14
6454044--6454077	2	17.0	2	100	0	68	50	0	50	0	1.00
6461366--6461402	18	2.0	19	89	5	58	43	0	0	56	0.99
6461654--6461695	18	2.3	19	80	12	52	50	0	0	50	1.00
6462259--6462305	24	2.0	23	84	16	60	29	12	4	53	1.58
6463005--6463120	47	2.5	47	91	0	178	30	10	16	43	1.81
6463005--6463121	23	5.0	23	74	7	110	30	10	16	42	1.81
6463107--6463150	23	1.9	23	86	9	63	45	11	11	31	1.76
6467981--6468389	66	6.2	66	92	1	642	14	34	11	39	1.83
6469365--6469426	32	1.9	32	96	0	115	24	27	16	32	1.96
6477012--6477166	77	2.0	77	97	0	292	45	10	5	38	1.62
6478106--6478179	30	2.5	30	80	10	82	43	13	8	35	1.74
6480410--6480449	2	20.5	2	94	5	73	50	0	0	50	1.00
6483650--6484034	130	3.0	129	85	4	524	35	6	17	40	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6488328--6488371	16	2.8	15	83	10	52	29	0	6	63	1.20
6490406--6490453	21	2.4	21	83	13	57	66	0	0	33	0.92
6502720--6502763	10	4.3	10	81	16	54	68	2	2	27	1.14
6502719--6502773	20	2.8	20	78	13	60	67	1	1	29	1.11
6503501--6503550	16	3.0	16	79	5	55	24	8	2	66	1.29
6517965--6518032	27	2.5	26	83	9	91	17	17	35	29	1.93
6536774--6536814	18	2.1	21	86	13	61	60	0	0	39	0.96
6537196--6537226	7	4.4	7	100	0	62	70	16	12	0	1.16
6546992--6547030	18	2.2	18	85	0	51	48	12	15	23	1.79
6549874--6549944	29	2.4	30	80	4	81	42	5	8	43	1.58

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