genome.fa.s3.2.7.7.80.10.50.1000.89.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  89  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)
29066709--29066755	21	2.2	21	92	0	76	25	14	36	23	1.93
29068953--29069023	36	1.9	37	83	13	94	46	2	0	50	1.16
29069006--29069273	95	2.9	94	91	3	409	48	12	1	37	1.52
29069237--29069279	21	2.1	21	86	4	61	58	13	2	25	1.48
29069616--29069688	25	3.2	23	74	22	73	0	34	0	65	0.93
29084608--29084813	114	1.8	114	90	2	333	35	16	25	23	1.94
29098280--29098359	29	2.6	30	84	5	90	46	13	8	31	1.74
29099186--29099229	6	7.3	6	94	0	79	34	2	50	13	1.55
29101173--29101221	3	16.3	3	100	0	98	32	0	0	67	0.91
29104859--29104948	39	2.4	38	88	3	128	33	17	6	42	1.76
29105419--29105455	17	2.2	17	100	0	74	35	27	0	37	1.57
29111997--29112022	12	2.2	12	100	0	52	84	0	0	15	0.62
29126467--29126522	25	2.3	24	82	17	71	12	14	0	73	1.11
29126503--29126527	13	1.9	13	100	0	50	12	8	0	80	0.92
29127813--29127863	20	2.5	21	84	15	63	33	0	7	58	1.27
29129269--29129309	21	2.0	21	95	0	73	56	2	7	34	1.40
29135326--29135392	28	2.3	30	79	7	75	44	5	16	32	1.72
29136379--29136421	21	2.0	22	81	4	52	25	2	23	48	1.62
29142700--29142736	6	6.2	6	93	0	65	51	0	29	18	1.47
29144807--29144996	52	3.7	52	89	0	281	34	22	13	28	1.93
29146782--29146872	24	3.8	24	77	1	74	31	23	19	25	1.98
29149316--29149358	21	2.0	21	86	0	59	44	6	27	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29151534--29151623	31	2.9	31	80	11	103	26	15	10	47	1.77
29152626--29152666	21	1.9	21	85	5	55	51	0	0	48	1.00
29155000--29155078	41	1.9	42	81	2	97	34	27	16	21	1.95
29156844--29156939	49	2.0	49	84	12	126	28	15	25	31	1.96
29157991--29158039	25	1.9	26	91	4	82	30	8	16	44	1.76
29157992--29158046	25	2.2	25	86	3	74	32	9	14	43	1.77
29167753--29167800	23	2.1	23	92	0	78	45	10	8	35	1.68
29180575--29180620	22	2.1	22	83	0	56	13	13	17	56	1.67
29185808--29185836	6	4.8	6	100	0	58	68	0	13	17	1.20
29193286--29193332	12	3.9	12	82	0	58	17	17	17	48	1.81
29193284--29193331	24	2.0	24	91	0	78	20	16	16	45	1.85
29193430--29193551	23	5.3	23	89	6	167	34	11	15	38	1.84
29193430--29193566	46	3.0	46	85	7	127	35	11	16	37	1.85
29198025--29198098	32	2.3	32	88	2	112	44	9	6	39	1.63
29203116--29203158	19	2.3	19	84	8	52	58	4	0	37	1.19
29212008--29212068	14	4.1	14	71	10	50	19	1	8	70	1.21
29213067--29213103	18	2.1	18	94	0	65	13	0	45	40	1.43
29213974--29214015	21	2.0	21	81	9	50	26	45	2	26	1.66
29215235--29215298	24	2.7	24	85	0	92	50	10	12	26	1.73
29216279--29216346	25	2.7	25	97	0	127	38	25	14	22	1.92
29219483--29219539	24	2.4	24	84	0	78	50	12	10	26	1.72
29221002--29221026	13	1.9	13	100	0	50	56	44	0	0	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29221945--29221978	18	1.9	18	88	5	52	14	8	26	50	1.72
29231660--29231697	18	2.2	17	86	9	51	18	7	34	39	1.80
29234844--29234889	18	2.6	18	86	3	58	19	6	21	52	1.69
29235574--29235640	31	2.2	31	87	10	95	19	34	0	46	1.50
29236188--29236278	40	2.3	39	90	7	141	51	1	0	47	1.07
29236239--29236280	23	2.0	22	86	13	61	54	2	0	42	1.13
29241485--29241511	13	2.1	13	100	0	54	14	33	7	44	1.73
29245045--29245127	23	3.5	24	88	3	125	24	4	8	62	1.43
29245043--29245145	47	2.2	46	81	10	120	23	3	7	65	1.36
29245332--29245371	21	1.9	21	94	0	71	22	15	27	35	1.94
29245934--29245969	15	2.4	15	100	0	72	44	0	22	33	1.53
29247903--29247953	21	2.4	22	86	6	77	17	7	11	62	1.51
29265280--29265330	21	2.4	21	83	0	66	29	5	11	52	1.61
29270663--29270715	26	2.0	26	88	0	79	39	9	16	33	1.81
29279364--29279417	18	3.0	18	81	5	56	20	7	0	72	1.08
29279950--29279977	13	2.2	13	100	0	56	50	14	0	35	1.43
29280349--29280385	16	2.2	17	90	9	58	43	0	0	56	0.99
29284727--29284777	24	2.1	24	96	0	93	52	7	9	29	1.62
29286694--29286740	24	2.0	24	86	0	67	57	10	8	23	1.60
29286704--29286754	24	2.1	24	89	7	77	58	7	9	23	1.56
29294212--29294344	57	2.4	57	88	3	189	48	6	18	26	1.71
29295947--29296012	30	2.2	30	97	0	123	39	25	12	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29304134--29304159	12	2.2	12	100	0	52	23	0	7	69	1.14
29304524--29304577	27	2.1	27	86	6	76	35	5	5	53	1.48
29305097--29305143	22	2.1	23	92	4	78	8	10	0	80	0.89
29305756--29305956	98	2.0	99	85	2	271	48	12	14	23	1.78
29308328--29308875	273	2.0	272	89	2	841	24	14	23	37	1.93
29309969--29310204	68	3.5	68	82	4	239	36	14	20	28	1.92
29314789--29314906	59	2.0	59	100	0	236	35	16	13	33	1.88
29318351--29318394	23	2.0	23	91	8	74	50	6	20	22	1.72
29323522--29323588	29	2.3	29	78	0	71	31	5	25	37	1.80
29328588--29328656	17	4.1	17	79	9	70	44	11	7	36	1.68
29328588--29328656	34	2.0	34	83	5	86	44	11	7	36	1.68
29331744--29331791	18	2.7	18	90	0	69	31	14	18	35	1.91
29334635--29334664	3	10.0	3	100	0	60	0	33	0	66	0.92
29334730--29334778	20	2.5	20	96	0	89	48	0	51	0	1.00
29334826--29334908	11	8.2	11	69	25	58	51	1	0	46	1.08
29334826--29334869	21	2.1	21	83	8	54	54	0	0	45	0.99
29334850--29334891	13	3.0	13	81	18	57	57	0	0	42	0.99
29339780--29340146	183	2.0	183	83	5	456	31	25	19	23	1.98
29348024--29348139	28	4.1	28	85	1	133	31	25	17	25	1.97
29348022--29348136	57	2.0	57	86	3	160	33	25	16	25	1.96
29350866--29350907	17	2.4	18	84	7	52	35	4	0	59	1.19
29350866--29350903	16	2.4	16	83	12	51	36	5	0	57	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29354025--29354059	18	1.9	18	94	0	61	48	0	31	20	1.50
29355796--29355829	17	1.9	18	88	5	52	41	14	5	38	1.70
29365318--29365366	22	2.2	22	85	7	64	8	6	18	67	1.37
29365896--29365937	19	2.3	19	83	4	50	42	16	19	21	1.89
29365905--29365943	19	2.1	19	100	0	78	33	20	20	25	1.97
29366830--29366869	21	1.9	21	89	0	62	32	0	10	57	1.32
29367251--29367296	14	3.1	15	71	22	51	60	8	0	30	1.26
29367249--29367298	16	3.2	16	73	21	61	60	8	0	32	1.26
29367331--29367425	30	3.2	30	68	14	97	36	6	11	45	1.66
29369137--29369216	2	40.0	2	97	0	151	50	1	0	48	1.08
29369787--29369886	7	14.4	7	76	2	103	33	25	22	20	1.97
29369787--29369881	21	4.6	20	83	6	118	34	24	21	20	1.96
29369930--29369963	15	2.3	15	100	0	68	11	5	35	47	1.65
29370988--29371072	43	2.0	43	86	4	118	30	11	10	47	1.74
29371673--29371718	21	2.1	22	88	4	67	26	28	15	30	1.96
29371944--29372039	7	13.7	7	70	16	56	46	23	0	29	1.52
29371987--29372039	21	2.5	21	96	0	97	49	22	0	28	1.50
29374547--29374593	24	2.0	24	91	0	76	19	14	19	46	1.84
29374980--29375036	27	2.1	28	83	9	73	59	8	1	29	1.38
29375055--29375098	4	10.5	4	90	9	70	0	22	0	77	0.77
29375058--29375101	13	3.4	13	87	12	72	0	22	0	77	0.77
29375055--29375101	17	2.7	18	93	6	80	0	23	0	76	0.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29386123--29386165	22	1.9	23	90	4	70	51	0	0	48	1.00
29386103--29386183	16	4.8	17	70	19	55	54	0	1	44	1.08
29386126--29386192	22	2.9	24	79	14	61	49	1	1	47	1.19
29386194--29386241	22	2.0	24	88	11	73	45	4	0	50	1.21
29386815--29386867	13	4.1	13	82	0	70	45	0	7	47	1.31
29386818--29386864	12	3.8	12	78	10	58	46	0	6	46	1.28
29387307--29387399	30	3.1	29	75	13	91	44	9	13	32	1.77
29387307--29387400	31	3.1	30	74	8	93	44	9	13	31	1.76
29390235--29390544	79	3.9	79	90	0	458	32	27	17	22	1.96
29395171--29395195	10	2.5	10	100	0	50	40	32	0	28	1.57

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