genome.fa.s11.2.7.7.80.10.50.1000.100.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: CP032255.1 Gossypioides kirkii chromosome KI_13
Parameters: 2 7 7 80 10 50 1000
Length:  42971368

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   

This is table  100  of  143  ( 17057 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)
30812942--30813305	29	12.3	29	79	12	275	35	25	2	36	1.69
30812928--30813264	60	5.7	59	78	10	285	36	25	1	37	1.65
30812962--30813319	30	12.2	29	76	9	230	36	25	2	36	1.68
30813302--30813380	30	2.7	30	80	2	79	36	21	3	37	1.72
30821276--30821372	31	3.3	30	69	26	89	24	12	12	50	1.74
30821276--30821435	58	2.7	59	87	3	209	26	13	11	49	1.75
30821291--30821462	59	2.9	57	83	9	170	25	12	11	50	1.74
30832512--30832575	24	2.7	24	87	2	103	26	7	7	57	1.54
30835121--30835241	60	2.0	60	98	0	233	32	19	9	38	1.83
30835478--30835539	15	4.1	15	82	0	61	56	3	11	29	1.50
30837087--30837113	11	2.5	11	100	0	54	0	18	0	81	0.69
30850647--30850875	27	8.5	27	85	0	296	24	14	23	37	1.93
30861215--30861252	17	2.2	17	90	0	58	18	10	15	55	1.68
30871048--30871085	17	2.2	17	90	0	58	52	10	13	23	1.71
30871490--30871546	3	19.0	3	76	20	57	0	31	0	68	0.90
30871493--30871543	15	3.1	17	86	8	70	0	31	0	68	0.90
30871490--30871546	18	3.1	19	80	17	66	0	31	0	68	0.90
30882088--30882112	13	1.9	13	100	0	50	24	16	12	48	1.79
30883306--30883362	2	28.5	2	100	0	114	50	0	0	49	1.00
30894320--30894415	48	2.0	48	100	0	192	27	16	29	27	1.97
30894708--30895671	49	19.7	49	82	1	858	22	27	15	34	1.94
30896471--30896540	12	5.3	13	76	20	74	0	15	0	84	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30896471--30896541	4	14.8	5	77	22	57	0	15	0	84	0.62
30896470--30896542	20	3.7	19	80	20	87	0	15	0	84	0.61
30896472--30896541	17	3.9	17	78	10	77	0	15	0	84	0.63
30906285--30906336	20	2.6	19	79	8	59	61	5	3	28	1.37
30906446--30906500	16	3.4	16	89	2	83	56	1	14	27	1.49
30906446--30906498	17	3.2	17	86	5	81	58	1	11	28	1.43
30914804--30914843	20	2.0	21	85	14	57	55	2	0	42	1.13
30915174--30915222	25	2.0	24	92	4	80	71	12	0	16	1.14
30915176--30915229	25	2.2	25	87	6	76	74	11	0	14	1.08
30917625--30917663	20	2.0	20	90	10	62	76	10	0	12	1.01
30918099--30918124	12	2.2	12	100	0	52	23	0	0	76	0.78
30919001--30919045	22	2.0	22	87	8	65	31	6	2	60	1.35
30919003--30919045	23	1.9	22	90	4	68	30	4	2	62	1.28
30919368--30919409	21	2.1	19	91	8	66	2	23	0	73	0.94
30929192--30929235	18	2.5	18	88	3	63	43	0	2	54	1.12
30929344--30929391	25	2.0	24	87	4	69	75	12	0	12	1.06
30932266--30932299	7	4.7	7	89	7	50	20	0	0	79	0.73
30932266--30932299	15	2.4	14	90	5	50	20	0	0	79	0.73
30937320--30937353	8	4.2	8	84	0	50	82	0	17	0	0.67
30938167--30938218	14	3.8	14	76	5	52	73	0	26	0	0.84
30938167--30938218	20	2.5	21	79	14	63	73	0	26	0	0.84
30938183--30938217	7	5.0	7	92	0	52	71	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30939172--30939892	49	14.6	49	68	8	253	37	15	28	18	1.92
30939172--30940048	99	8.9	99	80	3	811	37	16	28	18	1.92
30939172--30939892	297	2.4	295	84	3	896	37	15	28	18	1.92
30939846--30940433	293	2.0	293	99	0	1158	38	15	27	18	1.91
30940666--30940879	114	1.9	114	89	0	329	37	15	23	23	1.93
30941694--30941727	7	4.7	7	89	7	50	20	0	0	79	0.73
30941694--30941727	15	2.4	14	90	5	50	20	0	0	79	0.73
30942587--30942620	17	1.9	17	94	5	59	35	5	0	58	1.22
30944888--30944941	16	3.1	18	78	13	67	38	11	18	31	1.86
30948900--30949796	49	18.3	49	82	1	803	22	27	14	35	1.93
30950634--30950705	9	7.2	10	72	21	53	0	23	0	76	0.79
30950639--30950703	24	2.5	27	82	14	91	0	20	0	80	0.72
30950642--30950709	33	2.1	33	86	13	97	0	19	0	80	0.70
30950641--30950701	5	12.8	5	71	22	51	0	19	0	80	0.72
30950640--30950703	10	6.2	10	78	7	65	0	18	0	81	0.70
30950639--30950712	26	2.8	26	82	11	73	0	18	1	79	0.80
30954021--30954139	24	5.0	24	85	3	78	29	25	21	24	1.99
30954064--30954143	24	3.3	24	96	0	151	26	25	25	23	2.00
30954027--30954146	48	2.5	49	84	2	161	29	26	20	23	1.99
30960518--30960568	20	2.6	19	78	9	57	60	5	3	29	1.38
30960606--30960632	2	13.5	2	100	0	54	51	0	0	48	1.00
30960691--30960751	16	3.9	16	86	2	88	55	1	13	29	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30974879--30974922	18	2.5	17	85	3	52	43	2	2	52	1.26
30982461--30982504	12	3.3	13	81	15	54	81	0	15	2	0.78
30982464--30982498	16	2.2	16	90	10	54	85	0	14	0	0.59
30983298--30983345	4	12.8	4	77	20	50	79	0	20	0	0.74
30983295--30983356	11	5.9	11	71	21	53	80	0	17	1	0.79
30983293--30983382	7	13.0	7	76	13	71	77	1	20	1	0.89
30983293--30983381	24	3.6	24	79	11	90	78	1	19	1	0.87
30983318--30983381	32	1.9	34	87	6	96	79	1	17	1	0.89
30983331--30983365	18	1.9	18	94	0	61	82	0	14	2	0.77
30984335--30984711	99	3.8	99	83	2	445	36	15	28	19	1.93
30984474--30984860	50	7.8	50	73	2	269	35	17	28	18	1.93
30984330--30985098	99	7.8	100	74	8	431	36	17	27	18	1.93
30984541--30984935	149	2.7	149	84	3	476	34	16	29	19	1.94
30984981--30985098	50	2.4	49	80	4	121	37	19	27	16	1.93
30985081--30985195	49	2.4	48	86	1	149	35	13	32	18	1.90
30985452--30985759	114	2.7	112	85	4	386	34	18	25	22	1.96
30985752--30985818	33	2.0	33	97	0	125	40	13	16	29	1.87
30985674--30985906	129	1.8	129	86	5	346	34	16	24	24	1.95
30985787--30985984	96	2.1	96	88	3	292	34	16	25	22	1.95
30985884--30986320	114	3.9	114	75	9	412	34	15	27	22	1.94
30985788--30986318	220	2.5	209	82	5	634	34	15	26	23	1.94
30988053--30988096	22	2.0	21	91	4	70	27	9	0	63	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30990369--30990415	18	2.8	16	81	12	58	36	12	19	31	1.89
30991416--30991440	13	1.9	13	100	0	50	4	24	0	72	1.02
31008645--31008762	45	2.6	45	81	5	123	26	22	10	40	1.86
31015785--31015922	72	1.9	72	95	0	249	40	5	7	46	1.55
31024483--31024720	52	4.6	51	82	4	248	29	13	22	35	1.92
31025466--31028065	433	6.0	433	99	0	5094	36	13	17	32	1.89
31031398--31031633	58	4.1	57	84	4	303	32	2	32	31	1.73
31031396--31031633	29	8.2	28	70	19	150	32	3	32	31	1.74
31032750--31032829	13	6.1	13	73	1	61	35	5	3	56	1.39
31032757--31032830	26	2.9	25	75	13	78	35	5	5	54	1.47
31033129--31033226	27	3.6	27	93	4	171	30	12	26	30	1.92
31033628--31033678	25	2.0	25	81	7	59	49	1	1	47	1.24
31034023--31034145	61	2.0	61	96	0	228	21	22	17	38	1.93
31034100--31034548	200	2.2	200	92	0	738	18	24	21	34	1.96
31034887--31035014	38	3.4	38	70	14	111	30	17	15	36	1.91
31034863--31035073	76	2.8	76	87	5	302	33	16	16	34	1.91
31047347--31047426	13	6.1	13	73	1	61	35	5	3	56	1.39
31047354--31047427	26	2.9	25	75	13	78	35	5	5	54	1.47
31047726--31047797	27	2.7	27	97	0	135	30	13	26	29	1.94
31051038--31051271	52	4.6	51	81	7	264	27	13	22	36	1.91
31051954--31052012	21	2.7	22	78	5	75	32	15	22	30	1.94
31061462--31061507	23	2.0	23	91	0	74	28	28	23	19	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31062347--31062380	17	2.0	17	88	0	50	23	5	5	64	1.38
31064713--31065616	29	31.1	28	71	19	397	37	3	24	34	1.72
31064708--31065696	59	17.0	59	82	6	946	37	3	24	34	1.71
31064714--31065770	30	36.2	28	71	16	514	37	2	24	34	1.71
31064713--31065768	118	9.0	117	83	6	1130	37	2	24	34	1.71
31064978--31065074	50	1.9	50	91	0	158	40	3	19	37	1.68
31065026--31065791	59	13.0	58	80	10	271	36	2	25	35	1.70
31067374--31067495	17	7.4	17	72	14	94	52	3	1	42	1.27
31067374--31067495	6	21.0	6	68	9	83	52	3	1	42	1.27
31067411--31067524	29	4.0	29	81	2	124	55	4	0	39	1.26

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