genome.fa.s3.2.7.7.80.10.50.1000.20.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  20  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)
9234817--9234875	18	3.5	17	72	25	54	67	5	1	25	1.20
9245619--9245660	21	2.0	21	100	0	84	42	9	9	38	1.70
9247815--9247933	61	2.0	60	86	5	168	25	7	20	47	1.76
9248696--9248741	19	2.3	21	85	14	62	58	2	0	39	1.10
9248727--9248761	18	2.0	18	88	5	54	60	2	0	37	1.12
9251401--9251447	18	2.7	17	77	6	58	14	4	6	74	1.17
9251394--9251438	23	2.0	23	86	0	63	13	4	6	75	1.15
9251452--9251507	23	2.4	23	79	8	69	10	21	21	46	1.81
9251790--9251837	17	2.7	18	78	12	55	22	4	0	72	1.01
9251793--9251834	9	4.7	9	82	5	50	23	2	0	73	0.94
9253484--9253543	31	1.9	31	86	0	84	55	1	1	41	1.20
9266657--9266687	7	4.4	7	100	0	62	45	29	0	25	1.54
9269295--9269364	32	2.2	32	97	0	131	25	21	25	27	1.99
9286746--9286785	17	2.4	16	91	4	62	32	0	2	65	1.06
9289897--9289932	2	18.0	2	94	0	63	47	0	0	52	1.00
9290955--9290993	18	2.2	18	86	9	53	51	12	5	30	1.62
9291977--9292023	15	3.0	15	84	9	67	42	2	0	55	1.12
9291977--9292025	17	3.1	16	88	5	73	42	2	0	55	1.11
9304948--9304974	2	13.5	2	100	0	54	0	51	0	48	1.00
9304974--9304998	2	12.5	2	100	0	50	48	52	0	0	1.00
9319948--9320083	71	1.9	70	87	1	200	30	19	16	33	1.94
9321998--9322037	15	2.5	16	84	8	55	35	2	0	62	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9324776--9324837	32	1.9	32	90	0	97	29	9	20	40	1.84
9328311--9328466	44	3.6	44	77	10	137	66	17	5	11	1.41
9328377--9328438	32	1.9	33	83	3	81	69	19	4	6	1.29
9328342--9328512	21	7.8	22	73	11	100	66	18	5	8	1.39
9328398--9328499	22	4.7	22	74	12	68	68	14	5	10	1.37
9336755--9336791	2	18.5	2	100	0	74	48	0	51	0	1.00
9341823--9341856	11	3.0	11	86	4	50	23	2	0	73	0.97
9341869--9341920	22	2.2	24	83	10	63	51	3	1	42	1.31
9349220--9349256	20	1.9	20	88	5	58	62	2	13	21	1.44
9349475--9349501	3	9.0	3	100	0	54	33	0	0	66	0.92
9366901--9366952	3	17.7	3	96	4	97	0	30	0	69	0.89
9371474--9371515	20	2.2	20	91	4	68	52	0	0	47	1.00
9371693--9371738	23	1.9	25	86	8	69	56	0	6	36	1.25
9383318--9383358	16	2.5	16	84	4	55	51	0	0	48	1.00
9384074--9384129	24	2.3	24	84	6	69	7	26	17	48	1.73
9384308--9384343	11	3.4	11	88	3	56	55	0	0	44	0.99
9384333--9384363	16	1.9	16	100	0	62	58	0	0	41	0.98
9385068--9385117	16	3.2	16	73	26	54	36	0	2	62	1.07
9401591--9401618	3	9.3	3	100	0	56	67	0	0	32	0.91
9418583--9418610	2	14.0	2	100	0	56	50	0	0	50	1.00
9420546--9420604	29	2.0	29	96	0	109	47	20	11	20	1.81
9424364--9424422	23	2.6	22	71	7	55	64	5	0	30	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9426980--9427012	15	2.1	17	88	11	52	45	6	3	45	1.43
9430625--9430667	22	1.9	23	85	4	61	55	6	4	32	1.47
9431786--9431825	2	20.0	2	100	0	80	0	50	0	50	1.00
9444278--9444332	25	2.3	23	82	14	60	58	7	3	30	1.43
9444338--9444415	31	2.4	33	79	12	99	48	10	7	33	1.66
9444969--9445076	30	3.6	30	79	7	94	45	0	3	50	1.19
9445012--9445084	29	2.5	29	84	6	94	42	0	4	53	1.20
9451868--9451918	25	2.1	24	88	3	75	54	5	3	35	1.43
9453000--9453035	18	2.0	18	94	0	63	52	2	0	44	1.15
9453218--9453263	21	2.2	20	81	7	56	60	2	2	34	1.21
9453183--9453466	105	2.8	100	77	11	251	48	9	13	27	1.74
9453419--9453464	23	2.0	24	91	4	76	69	0	0	30	0.89
9453417--9453472	26	2.1	27	83	9	71	71	1	0	26	0.96
9454068--9454110	21	2.0	21	90	0	68	0	46	20	32	1.51
9455685--9455742	23	2.5	23	88	0	89	44	3	3	48	1.36
9455728--9455791	29	2.2	29	80	5	76	42	3	0	54	1.16
9455710--9455787	40	2.0	40	87	10	115	42	2	1	53	1.22
9455814--9455885	22	3.3	22	74	14	85	27	6	1	63	1.28
9455798--9455885	44	2.0	44	97	0	167	30	5	2	61	1.31
9455815--9455915	44	2.3	44	83	6	116	29	6	0	62	1.28
9455900--9455955	29	2.0	28	89	3	85	35	0	1	62	1.06
9455918--9455968	17	2.9	17	85	11	59	31	0	5	62	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9456021--9456693	170	4.0	170	93	0	1118	30	22	16	31	1.95
9457293--9457481	41	4.7	40	84	2	209	26	22	24	25	2.00
9457319--9457470	81	1.9	81	87	2	225	23	23	26	26	2.00
9457310--9457501	41	4.7	41	83	6	194	25	23	24	27	2.00
9472261--9472285	2	12.5	2	100	0	50	48	0	0	52	1.00
9476360--9476385	2	13.0	2	100	0	52	50	0	0	50	1.00
9476720--9476871	82	1.9	81	83	6	200	30	11	21	36	1.89
9489417--9489450	2	17.0	2	100	0	68	50	0	0	50	1.00
9491376--9491404	3	9.7	3	100	0	58	0	0	31	68	0.89
9498981--9499059	17	4.6	17	69	17	56	34	1	6	58	1.32
9498981--9499060	35	2.4	32	85	12	99	35	1	6	57	1.32
9499060--9499085	12	2.2	12	100	0	52	57	0	0	42	0.98
9499120--9499157	14	2.7	15	80	16	53	44	28	0	26	1.54
9501283--9501356	6	12.5	6	83	8	71	27	22	0	50	1.50
9503307--9503577	57	4.7	57	87	2	380	34	28	7	29	1.84
9503307--9503577	29	9.4	29	82	7	329	34	28	7	29	1.84
9503307--9503619	116	2.7	116	83	6	352	34	28	6	30	1.83
9503606--9503671	29	2.2	30	83	5	80	34	19	3	42	1.67
9505126--9505184	29	2.0	30	90	3	93	45	13	10	30	1.76
9505138--9505206	29	2.3	29	82	5	84	43	14	11	30	1.81
9511490--9511518	2	14.5	2	100	0	58	51	0	48	0	1.00
9518461--9518497	2	18.5	2	100	0	74	0	48	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9522544--9522577	14	2.3	15	90	5	52	41	0	0	58	0.98
9522544--9522584	15	2.7	15	88	3	55	46	0	0	53	1.00
9528634--9528681	20	2.5	19	82	3	51	54	0	6	39	1.26
9529367--9529479	21	5.7	20	75	15	85	11	7	15	65	1.45
9529407--9529441	18	1.9	18	94	0	61	14	5	11	68	1.37
9529458--9529537	12	6.9	11	80	5	61	7	3	20	68	1.29
9530120--9530152	6	5.5	6	96	0	57	45	36	18	0	1.49
9530193--9530217	6	4.2	6	100	0	50	16	52	0	32	1.44
9537320--9537395	24	3.1	25	88	5	111	56	9	9	25	1.60
9537310--9537395	24	3.5	24	87	1	91	52	10	10	26	1.68
9549113--9549147	3	11.7	3	100	0	70	0	31	0	68	0.90
9554910--9554955	16	2.8	17	87	6	60	45	0	2	52	1.13
9557838--9557867	2	15.0	2	100	0	60	50	0	0	50	1.00
9558124--9558176	25	2.0	26	82	7	63	47	9	11	32	1.71
9560275--9560314	19	2.1	18	90	9	62	67	0	0	32	0.91
9574978--9575008	2	15.5	2	100	0	62	51	0	0	48	1.00
9580620--9580664	23	2.0	23	82	8	56	37	8	6	46	1.61
9581207--9581249	16	2.6	16	85	3	59	58	0	0	41	0.98
9581214--9581276	22	2.8	22	77	13	65	55	0	0	44	0.99
9582334--9582399	26	2.7	24	80	19	75	36	0	1	62	1.05
9587847--9587929	38	2.2	38	97	0	157	37	2	16	43	1.62
9592868--9592906	21	1.9	21	84	5	53	64	7	0	28	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9593057--9593119	29	2.2	29	82	5	74	23	4	6	65	1.36
9594398--9594446	13	3.7	14	82	15	52	42	0	16	40	1.48
9594593--9594672	41	2.0	41	83	9	103	50	0	2	47	1.14
9613041--9613155	58	2.0	58	84	6	153	46	15	0	37	1.46
9635814--9635848	18	2.0	17	94	5	61	57	0	0	42	0.99
9635895--9635926	12	2.7	12	95	0	55	9	34	0	56	1.32
9646099--9646147	6	8.7	6	78	13	59	18	36	14	30	1.90
9646113--9646153	18	2.3	18	91	0	64	21	36	12	29	1.90
9646086--9646147	12	4.9	12	77	11	61	16	38	14	30	1.88
9653203--9653256	21	2.7	20	76	18	58	27	5	7	59	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