genome.fa.s3.2.7.7.80.10.50.1000.15.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  15  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)
6969770--6969829	21	2.9	21	82	5	68	16	0	35	48	1.47
6974276--6974313	16	2.4	16	86	4	51	65	2	2	28	1.19
6974268--6974336	36	1.9	36	85	5	95	62	2	1	33	1.19
6975863--6975913	22	2.2	24	86	6	70	13	5	11	68	1.37
7001171--7001334	42	3.9	42	100	0	328	40	14	12	32	1.83
7007121--7007375	137	1.9	137	82	4	327	52	11	3	31	1.55
7011065--7011123	30	1.9	30	86	3	82	52	15	11	20	1.73
7013227--7013271	22	2.1	21	84	12	56	35	4	4	55	1.40
7018513--7018569	22	2.6	22	83	8	64	40	1	3	54	1.28
7021473--7021505	15	2.2	15	89	10	50	60	0	0	39	0.97
7029192--7029264	14	4.7	15	73	20	51	32	2	1	63	1.17
7041670--7041838	23	7.3	23	81	7	173	11	24	21	42	1.86
7043349--7043435	20	4.1	21	73	17	72	68	19	4	6	1.30
7043363--7043444	12	7.2	12	75	8	64	70	18	4	6	1.26
7043362--7043444	24	3.7	23	69	12	73	71	18	4	6	1.25
7043446--7043529	32	2.7	32	83	5	100	64	15	9	10	1.49
7053556--7053617	25	2.4	25	81	7	63	30	0	1	67	1.00
7057264--7057320	18	3.1	18	82	10	53	33	0	8	57	1.29
7057279--7057324	20	2.3	20	84	0	65	28	0	6	65	1.17
7059695--7059723	13	2.1	14	93	6	51	31	20	6	41	1.79
7069744--7069886	55	2.6	55	92	2	225	48	19	6	25	1.72
7071476--7071553	39	2.0	39	94	0	138	29	11	14	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7071569--7071609	14	3.0	14	89	3	57	48	0	4	46	1.23
7072140--7072180	22	1.9	21	85	14	57	46	14	0	39	1.45
7072750--7072810	27	2.3	27	81	15	74	42	0	3	54	1.17
7072750--7072812	28	2.3	29	81	15	80	42	0	3	53	1.16
7073688--7073858	23	7.3	23	78	6	182	39	22	25	12	1.89
7073688--7073858	46	3.6	47	83	7	240	39	22	25	12	1.89
7073688--7073879	94	2.0	94	96	0	357	39	22	26	11	1.89
7073688--7073879	71	2.7	71	76	13	200	39	22	26	11	1.89
7073699--7073879	23	7.7	22	76	11	146	38	22	27	12	1.90
7080171--7080341	23	7.3	23	78	6	182	39	22	25	12	1.89
7080171--7080341	46	3.6	47	83	7	240	39	22	25	12	1.89
7080171--7080362	94	2.0	94	96	0	357	39	22	26	11	1.89
7080171--7080362	71	2.7	71	76	13	200	39	22	26	11	1.89
7080182--7080362	23	7.7	22	76	11	146	38	22	27	12	1.90
7089037--7089066	2	15.0	2	100	0	60	50	0	0	50	1.00
7093597--7093629	11	3.1	11	91	4	50	45	0	3	51	1.16
7107164--7107235	26	2.7	27	87	6	112	36	19	8	36	1.82
7108828--7109011	23	7.9	23	84	5	203	41	23	25	10	1.86
7112577--7113234	329	2.0	326	96	0	1217	37	14	11	37	1.82
7119945--7120133	94	2.0	94	100	0	378	30	17	12	39	1.87
7126527--7126565	18	2.2	18	90	4	62	51	5	5	38	1.46
7126892--7126925	12	2.8	12	90	4	50	47	5	0	47	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7126884--7126925	13	3.3	13	83	6	59	42	9	0	47	1.36
7126884--7126932	25	2.0	25	83	0	62	44	12	0	42	1.41
7134244--7134274	2	15.5	2	100	0	62	51	48	0	0	1.00
7139594--7139634	17	2.3	18	83	4	57	36	2	9	51	1.48
7139777--7139814	15	2.6	15	87	4	60	44	0	0	55	0.99
7139774--7139835	23	2.6	23	80	17	72	43	0	1	54	1.09
7139797--7139838	19	2.2	19	87	8	59	45	0	2	52	1.13
7140908--7140961	24	2.2	25	84	12	69	74	1	1	22	1.02
7140908--7140964	25	2.4	25	80	11	66	75	1	1	21	0.98
7151659--7151699	19	2.3	18	87	8	57	34	0	0	65	0.93
7164950--7164977	2	14.0	2	100	0	56	50	0	0	50	1.00
7173301--7173339	15	2.4	16	87	8	53	38	0	2	58	1.12
7173735--7173827	34	2.7	34	95	3	161	43	2	36	18	1.62
7177859--7177903	23	2.0	24	91	8	76	37	15	6	40	1.74
7180272--7180307	12	3.0	12	91	0	54	27	41	16	13	1.87
7181497--7181538	17	2.4	17	88	4	57	47	2	28	21	1.63
7181513--7181605	34	2.7	34	84	0	123	47	2	33	17	1.60
7197868--7197906	15	2.7	15	88	4	53	74	0	0	25	0.82
7211255--7211299	22	2.0	23	82	4	56	17	13	2	66	1.34
7219622--7219665	20	2.2	20	87	0	61	29	29	11	29	1.92
7221369--7221415	18	3.0	15	75	19	51	31	0	2	65	1.04
7222668--7223179	90	5.7	90	91	0	774	30	17	29	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7238194--7238363	42	4.0	42	89	3	252	23	32	11	32	1.90
7239223--7239255	16	2.0	17	88	5	50	36	0	0	63	0.95
7239470--7239525	21	2.7	20	76	18	60	41	0	0	58	0.98
7239573--7239658	36	2.4	37	73	24	85	43	1	3	52	1.26
7239642--7239702	22	2.7	22	78	16	63	36	1	4	57	1.30
7242260--7242298	6	6.5	6	87	0	51	46	0	30	23	1.53
7264167--7264406	117	2.1	117	99	0	471	40	18	10	30	1.84
7267406--7267440	2	17.5	2	100	0	70	48	0	51	0	1.00
7274678--7274704	6	4.5	6	100	0	54	85	14	0	0	0.61
7284188--7284250	23	2.7	24	80	14	69	55	0	1	42	1.09
7293546--7293580	1	35.0	1	94	0	61	0	0	2	97	0.19
7297948--7297976	2	14.5	2	100	0	58	51	0	0	48	1.00
7303992--7304030	7	5.7	7	87	6	53	17	7	0	74	1.05
7316302--7316372	29	2.4	29	83	2	88	32	5	5	56	1.46
7319277--7319313	3	12.3	3	100	0	74	67	0	0	32	0.91
7319403--7319430	12	2.3	12	100	0	56	32	0	0	67	0.91
7328174--7328273	20	4.9	21	75	15	93	52	0	6	42	1.26
7328174--7328273	39	2.5	42	80	9	127	52	0	6	42	1.26
7328491--7328646	19	8.1	19	68	18	81	39	7	3	50	1.46
7328643--7328702	23	2.5	23	86	5	75	30	5	1	63	1.25
7330573--7330599	6	4.5	6	100	0	54	0	48	0	51	1.00
7334527--7334552	13	2.0	13	100	0	52	30	30	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7352007--7352038	1	32.0	1	93	0	55	0	96	0	3	0.20
7353684--7353722	3	13.0	3	84	10	53	30	69	0	0	0.89
7355021--7355058	2	19.0	2	100	0	76	50	0	0	50	1.00
7367804--7367830	2	13.5	2	100	0	54	0	48	0	51	1.00
7377196--7377238	23	1.9	22	85	4	59	65	2	0	32	1.06
7378331--7378388	30	1.9	30	89	6	91	31	18	13	36	1.90
7386103--7386169	30	2.2	30	81	7	73	49	4	4	41	1.43
7390006--7390046	13	3.2	13	79	6	57	21	7	7	63	1.45
7390004--7390046	12	3.5	13	78	9	54	20	6	9	62	1.48
7416240--7416281	22	1.9	22	85	9	59	38	2	4	54	1.34
7419102--7419136	3	11.7	3	100	0	70	31	0	0	68	0.90
7421246--7421280	17	2.1	17	100	0	70	22	25	17	34	1.96
7423688--7423724	19	2.0	18	89	5	56	59	2	0	37	1.12
7439860--7439897	20	1.9	20	84	10	51	34	15	2	47	1.60
7441636--7441681	25	1.9	24	83	16	60	52	0	0	47	1.00
7448075--7448123	25	1.9	24	84	12	62	42	0	20	36	1.52
7450276--7450347	20	3.4	23	72	14	57	54	0	1	44	1.08
7451272--7451618	189	1.8	188	80	9	411	41	12	6	39	1.68
7457523--7457547	2	12.5	2	100	0	50	52	0	0	48	1.00
7470397--7470446	6	8.3	6	100	0	100	16	34	0	50	1.45
7470839--7470911	37	1.9	38	83	8	96	53	6	1	38	1.36
7470881--7470972	36	2.6	35	78	1	103	53	6	1	39	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7473671--7473715	24	1.9	23	81	4	54	53	4	0	42	1.21
7484784--7484825	21	2.0	22	85	4	59	42	4	7	45	1.52
7490700--7490729	4	7.5	4	100	0	60	0	0	76	23	0.78
7496663--7496801	69	2.0	69	100	0	278	21	25	10	42	1.84
7496848--7496907	30	2.2	26	78	18	61	40	0	0	60	0.97
7496860--7496932	30	2.4	29	82	11	76	39	1	2	56	1.22
7537076--7537134	11	5.1	11	80	10	64	38	11	1	47	1.50
7545023--7545081	30	2.0	29	83	9	75	61	0	3	35	1.13
7554376--7554445	23	3.0	23	89	0	113	10	21	7	61	1.51
7554437--7554462	13	2.0	13	100	0	52	0	15	7	76	0.99

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